ChimeraX bug report submission

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        Windows-10-10.0.19041
ChimeraX Version: 1.2.5 (2021-05-24 04:13:57 UTC)
Description
(Describe the actions that caused this problem to occur here)

Log:
UCSF ChimeraX version: 1.2.5 (2021-05-24)  
© 2016-2021 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open 5mc9

5mc9 title:  
Crystal structure of the heterotrimeric integrin-binding region of laminin-111
[more info...]  
  
Chain information for 5mc9 #1  
---  
Chain | Description  
A | Laminin subunit alpha-1  
B | Laminin subunit beta-1  
C | Laminin subunit gamma-1  
  
Non-standard residues in 5mc9 #1  
---  
CA — calcium ion  
  

> open 2JD4

Summary of feedback from opening 2JD4 fetched from pdb  
---  
note | Fetching compressed mmCIF 2jd4 from
http://files.rcsb.org/download/2jd4.cif  
  
2jd4 title:  
Mouse laminin alpha1 chain, domains LG4-5 [more info...]  
  
Chain information for 2jd4 #2  
---  
Chain | Description  
A B | laminin subunit α-1  
  
Non-standard residues in 2jd4 #2  
---  
CL — chloride ion  
MG — magnesium ion  
  
2jd4 mmCIF Assemblies  
---  
1| author_and_software_defined_assembly  
2| author_and_software_defined_assembly  
  

> ui tool show XMAS

  
Peptide pair mapping of PD evidence file:
C:/Users/Steve021/Desktop/matrigel_crosslinking/20220325_matrigel_crosslinked_02/20210406_EX2_UM3_Steve021_SA_MG3_9_01-(1).xlsx  
Unique peptide pairs: 155 out of 155  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Unique peptide pairs with pseudobonds: 39  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Pseudobonds are stored in
C:/Users/Steve021/Desktop/matrigel_crosslinking/20220325_matrigel_crosslinked_02/20210406_EX2_UM3_Steve021_SA_MG3_9_01-(1)_1,2.pb  
Mapping information is stored in
C:/Users/Steve021/Desktop/matrigel_crosslinking/20220325_matrigel_crosslinked_02/20210406_EX2_UM3_Steve021_SA_MG3_9_01-(1)_1,2.tsv  

> ui mousemode right "translate selected models"

> select #1

10948 atoms, 10741 bonds, 29 pseudobonds, 997 residues, 4 models selected  

> view matrix models
> #1,1,0,0,7.3739,0,1,0,-27.516,0,0,1,12.773,#3,1,0,0,0,0,1,0,0,0,0,1,0

> select #3

62 pseudobonds, 1 model selected  

> ~select #3

Nothing selected  

> select #3

62 pseudobonds, 1 model selected  

> view matrix models #3,1,0,0,0,0,1,0,0,0,0,1,0

> view matrix models #3,1,0,0,0,0,1,0,0,0,0,1,0

> select #1

10948 atoms, 10741 bonds, 29 pseudobonds, 997 residues, 4 models selected  

> ~select #1

Nothing selected  

> select #1

10948 atoms, 10741 bonds, 29 pseudobonds, 997 residues, 4 models selected  

> view matrix models
> #1,1,0,0,15.674,0,1,0,65.835,0,0,1,-20.283,#3,1,0,0,0,0,1,0,0,0,0,1,0

> view matrix models
> #1,1,0,0,18.819,0,1,0,69.904,0,0,1,-21.222,#3,1,0,0,0,0,1,0,0,0,0,1,0

> view matrix models
> #1,1,0,0,52.634,0,1,0,75.355,0,0,1,10.503,#3,1,0,0,0,0,1,0,0,0,0,1,0

> view matrix models
> #1,1,0,0,43.726,0,1,0,63.828,0,0,1,13.296,#3,1,0,0,0,0,1,0,0,0,0,1,0

> view matrix models
> #1,1,0,0,55.519,0,1,0,57.677,0,0,1,22.932,#3,1,0,0,0,0,1,0,0,0,0,1,0

> view matrix models
> #1,1,0,0,48.982,0,1,0,54.742,0,0,1,21.025,#3,1,0,0,0,0,1,0,0,0,0,1,0

> ui mousemode right "rotate selected models"

> view matrix models
> #1,0.88298,0.46938,0.0057387,65.466,-0.43977,0.83143,-0.3396,47.601,-0.16417,0.29733,0.94055,31.239,#3,1,0,0,0,0,1,0,0,0,0,1,0

> ui mousemode right "translate selected models"

> view matrix models
> #1,0.88298,0.46938,0.0057387,55.699,-0.43977,0.83143,-0.3396,44.833,-0.16417,0.29733,0.94055,31.57,#3,1,0,0,0,0,1,0,0,0,0,1,0

> view matrix models
> #1,0.88298,0.46938,0.0057387,75.232,-0.43977,0.83143,-0.3396,-4.1989,-0.16417,0.29733,0.94055,-4.3244,#3,1,0,0,0,0,1,0,0,0,0,1,0

> select #2

6115 atoms, 5901 bonds, 25 pseudobonds, 1086 residues, 3 models selected  

> view matrix models #2,1,0,0,-2.889,0,1,0,6.4136,0,0,1,5.2393

> ui mousemode right select

Drag select of 22 atoms, 195 residues, 6 pseudobonds, 15 bonds  

> delete sel

Drag select of 83 residues, 1 pseudobonds  

> delete sel

Drag select of 73 residues, 5 pseudobonds  

> delete sel

Drag select of 13 atoms, 21 residues, 8 pseudobonds, 10 bonds  

> delete sel

Drag select of 2 atoms  

> delete sel

Drag select of 2 pseudobonds  

> delete sel

> hide #1.2 models

> show #1.2 models

> select clear

> select clear

> select clear

> hide #1.2 models

> show #1.2 models

> hide #1.2 models

> show #1.2 models

> ui mousemode right "translate selected models"

> select #2

3241 atoms, 2969 bonds, 16 pseudobonds, 708 residues, 3 models selected  

> view matrix models #2,1,0,0,33.199,0,1,0,-39.893,0,0,1,-26.777

> view matrix models #2,1,0,0,18.594,0,1,0,-47.858,0,0,1,-26.51

> ui mousemode right "rotate selected models"

> view matrix models
> #2,-0.055864,0.065626,0.99628,35.22,-0.89627,0.43641,-0.079003,-15.387,-0.43998,-0.89735,0.034438,7.8303

  
Peptide pair mapping of PD evidence file:
C:/Users/Steve021/Desktop/matrigel_crosslinking/20220325_matrigel_crosslinked_02/20210406_EX2_UM3_Steve021_SA_MG3_9_01-(1).xlsx  
Unique peptide pairs: 155 out of 155  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Unique peptide pairs with pseudobonds: 39  
Traceback (most recent call last):  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 142, in <lambda>  
function = lambda _, s=selector, t=key: self.map_button_clicked(s,  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 844, in map_button_clicked  
self.map_crosslinks(self.checked_models, checked_files)  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 1093, in map_crosslinks  
created_model = self.create_pseudobonds_model(pbonds,  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 1124, in create_pseudobonds_model  
group = self.get_pseudobonds_model(name)  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 1180, in get_pseudobonds_model  
n = re.search("(\d+)", extension) + 1  
TypeError: unsupported operand type(s) for +: 're.Match' and 'int'  
  
TypeError: unsupported operand type(s) for +: 're.Match' and 'int'  
  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 1180, in get_pseudobonds_model  
n = re.search("(\d+)", extension) + 1  
  
See log for complete Python traceback.  
  

> ui mousemode right select

> select clear

> hide #4 models

> show #4 models

> hide #3 models

> close #3

> close #4

  
Peptide pair mapping of PD evidence file:
C:/Users/Steve021/Desktop/matrigel_crosslinking/20220325_matrigel_crosslinked_02/20210406_EX2_UM3_Steve021_SA_MG3_9_01-(1).xlsx  
Unique peptide pairs: 155 out of 155  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Unique peptide pairs with pseudobonds: 39  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Pseudobonds are stored in
C:/Users/Steve021/Desktop/matrigel_crosslinking/20220325_matrigel_crosslinked_02/20210406_EX2_UM3_Steve021_SA_MG3_9_01-(1)_1,2.pb  
Mapping information is stored in
C:/Users/Steve021/Desktop/matrigel_crosslinking/20220325_matrigel_crosslinked_02/20210406_EX2_UM3_Steve021_SA_MG3_9_01-(1)_1,2.tsv  
Please select pseudobonds  
Traceback (most recent call last):  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 252, in <lambda>  
self.uncheck(button, checked,  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 308, in uncheck  
self.color_gradient(checked, pbs, button.policy, reset_values)  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 453, in color_gradient  
color_key.delete()  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\color_key\model.py", line 91, in delete  
self.session.main_view.remove_overlays([self], delete = False)  
AttributeError: 'NoneType' object has no attribute 'main_view'  
  
AttributeError: 'NoneType' object has no attribute 'main_view'  
  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\color_key\model.py", line 91, in delete  
self.session.main_view.remove_overlays([self], delete = False)  
  
See log for complete Python traceback.  
  

> close #3

> ui tool show XMAS

  
Peptide pair mapping of PD evidence file:
C:/Users/Steve021/Desktop/matrigel_crosslinking/20220325_matrigel_crosslinked_02/20210406_EX2_UM3_Steve021_SA_MG3_9_01-(1).xlsx  
Unique peptide pairs: 155 out of 155  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Unique peptide pairs with pseudobonds: 39  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Pseudobonds are stored in
C:/Users/Steve021/Desktop/matrigel_crosslinking/20220325_matrigel_crosslinked_02/20210406_EX2_UM3_Steve021_SA_MG3_9_01-(1)_1,2.pb  
Mapping information is stored in
C:/Users/Steve021/Desktop/matrigel_crosslinking/20220325_matrigel_crosslinked_02/20210406_EX2_UM3_Steve021_SA_MG3_9_01-(1)_1,2.tsv  
Please select pseudobonds  

> ui tool show XMAS

> ui mousemode right "rotate selected models"

> view matrix models #3,1,0,0,0,0,1,0,0,0,0,1,0

> select #2

3241 atoms, 2969 bonds, 16 pseudobonds, 708 residues, 3 models selected  

> view matrix models
> #2,-0.22616,-0.9229,-0.31163,67.531,0.84622,-0.027692,-0.53212,-31.419,0.48246,-0.38405,0.78723,-23.227

> ui mousemode right "translate selected models"

> view matrix models
> #2,-0.22616,-0.9229,-0.31163,78.509,0.84622,-0.027692,-0.53212,-37.447,0.48246,-0.38405,0.78723,-26.903

> ui mousemode right "rotate selected models"

> view matrix models
> #2,-0.014795,-0.99593,-0.088926,77.211,0.28716,0.080957,-0.95446,-31.363,0.95777,-0.039657,0.28479,-45.776

> view matrix models
> #2,-0.81938,-0.30667,-0.48433,69.88,0.57306,-0.46051,-0.67789,-19.679,-0.015156,-0.833,0.55307,-4.8349

> view matrix models
> #2,0.50182,-0.30548,-0.80923,47.004,0.82109,0.46244,0.3346,-51.479,0.27201,-0.83236,0.48289,-9.8183

> view matrix models
> #2,0.58532,-0.52718,-0.61602,52.404,0.80693,0.45293,0.3791,-50.924,0.079156,-0.71898,0.69051,-9.8501

> view matrix models
> #2,0.53264,0.065373,-0.84381,35.188,-0.22497,-0.95021,-0.21562,9.1303,-0.81589,0.30468,-0.49142,-26.181

> view matrix models
> #2,0.41022,-0.2681,-0.87169,47.409,-0.90862,-0.2022,-0.36541,-1.9397,-0.078286,0.94193,-0.32655,-58.125

> view matrix models
> #2,0.34364,-0.20464,-0.91653,46.602,-0.92054,-0.26647,-0.28565,0.25769,-0.18577,0.94187,-0.27995,-56.255

> ui mousemode right "translate selected models"

> view matrix models
> #2,0.34364,-0.20464,-0.91653,51.924,-0.92054,-0.26647,-0.28565,6.0555,-0.18577,0.94187,-0.27995,-38.395

> view matrix models
> #2,0.34364,-0.20464,-0.91653,33.33,-0.92054,-0.26647,-0.28565,-15.226,-0.18577,0.94187,-0.27995,-46.759

> view matrix models
> #2,0.34364,-0.20464,-0.91653,42.292,-0.92054,-0.26647,-0.28565,-7.5313,-0.18577,0.94187,-0.27995,-47.934

> ui mousemode right "translate selected atoms"

> ui mousemode right select

Drag select of 6 residues, 1 pseudobonds  

> ui mousemode right "translate selected atoms"

> select #2

3241 atoms, 2969 bonds, 16 pseudobonds, 708 residues, 3 models selected  

> ui mousemode right "translate selected models"

> ui mousemode right "rotate selected models"

> view matrix models
> #2,-0.92901,0.2952,-0.22317,49.293,-0.046498,0.50517,0.86177,-45.412,0.36713,0.81096,-0.45558,-53.534

> view matrix models
> #2,0.29859,0.56261,0.77092,20.589,0.94639,-0.070261,-0.31528,-45.554,-0.12322,0.82373,-0.55343,-45.554

> view matrix models
> #2,0.52067,0.72127,0.45681,11.8,0.85177,-0.40239,-0.3355,-33.848,-0.058173,0.56379,-0.82387,-38.906

> ui mousemode right "translate selected models"

> view matrix models
> #2,0.52067,0.72127,0.45681,22.275,0.85177,-0.40239,-0.3355,-23.851,-0.058173,0.56379,-0.82387,-31.106

> show sel surfaces

> select #1

10948 atoms, 10741 bonds, 29 pseudobonds, 997 residues, 4 models selected  

> show sel surfaces

> color sel bychain

> coulombic sel

The following residues are missing heavy (non-hydrogen) atoms, which may
result in inaccurate electrostatics:  
5mc9 #1/A GLU 2083  
5mc9 #1/A MET 2084  
5mc9 #1/A GLN 2085  
5mc9 #1/A ASN 2087  
5mc9 #1/A LEU 2088  
5mc9 #1/A LEU 2089  
5mc9 #1/A LEU 2090  
5mc9 #1/A ASP 2091  
5mc9 #1/A GLU 2101  
5mc9 #1/A GLU 2232  
5mc9 #1/A LYS 2267  
5mc9 #1/A LYS 2288  
5mc9 #1/A ARG 2368  
5mc9 #1/A GLU 2438  
5mc9 #1/A LYS 2439  
5mc9 #1/A ASP 2538  
5mc9 #1/A HIS 2548  
5mc9 #1/A LYS 2623  
5mc9 #1/A GLU 2637  
5mc9 #1/A MET 2643  
5mc9 #1/B LYS 1736  
5mc9 #1/B LEU 1737  
5mc9 #1/B GLN 1738  
5mc9 #1/B LEU 1739  
5mc9 #1/B LEU 1740  
5mc9 #1/B GLU 1741  
5mc9 #1/B ASP 1742  
5mc9 #1/B LEU 1786  
5mc9 #1/C ASP 1553  
5mc9 #1/C ARG 1554  
5mc9 #1/C LYS 1555  
5mc9 #1/C VAL 1556  
5mc9 #1/C SER 1557  
5mc9 #1/C ASP 1558  
5mc9 #1/C LEU 1559  
5mc9 #1/C GLU 1560  
5mc9 #1/C SER 1561  
5mc9 #1/C GLU 1605  

Using Amber 20 recommended default charges and atom types for standard
residues  
Assigning partial charges to residue HIS (net charge -1) with am1-bcc method  
Running ANTECHAMBER command: C:/Program Files/ChimeraX
1.2.5/bin/amber20/bin/antechamber -ek qm_theory='AM1', -i
C:\Users\Steve021\AppData\Local\Temp\tmpaavfex_5\ante.in.mol2 -fi mol2 -o
C:\Users\Steve021\AppData\Local\Temp\tmpaavfex_5\ante.out.mol2 -fo mol2 -c bcc
-nc -1 -j 5 -s 2 -dr n  
(HIS) ``  
(HIS) `Welcome to antechamber 20.0: molecular input file processor.`  
(HIS) ``  
(HIS) `Info: Finished reading file
(C:\Users\Steve021\AppData\Local\Temp\tmpaavfex_5\ante.in.mol2); atoms read
(21), bonds read (20).`  
(HIS) `Info: Determining atomic numbers from atomic symbols which are case
sensitive.`  
(HIS) `Running: C:/Program Files/ChimeraX 1.2.5/bin/amber20/bin/bondtype -j
part -i ANTECHAMBER_BOND_TYPE.AC0 -o ANTECHAMBER_BOND_TYPE.AC -f ac`  
(HIS) `/usr/bin/antechamber: Fatal Error!`  
(HIS) `Cannot properly run "C:/Program Files/ChimeraX
1.2.5/bin/amber20/bin/bondtype -j part -i ANTECHAMBER_BOND_TYPE.AC0 -o
ANTECHAMBER_BOND_TYPE.AC -f ac".`  
(HIS) `No such file or directory`  
Failure running ANTECHAMBER for residue HIS Check reply log for details  

> rainbow sel

> rainbow sel

> select #2

3241 atoms, 2969 bonds, 16 pseudobonds, 708 residues, 3 models selected  

> mlp sel

Map values for surface "2jd4_A SES surface": minimum -29.75, mean -5.73,
maximum 22.11  
Map values for surface "2jd4_B SES surface": minimum -14.18, mean -1.848,
maximum 14.84  
To also show corresponding color key, enter the above mlp command and add key
true  

> color sel bychain

> select #1

10948 atoms, 10741 bonds, 29 pseudobonds, 997 residues, 4 models selected  

> color sel bychain

> preset "molecular surfaces" "ghostly white"

Changed 0 atom styles  
Preset expands to these ChimeraX commands:

    
    
    style (protein|nucleic|solvent) & @@draw_mode=0 stick
    surface
    color white targ s trans 80

  

> ~select #1

3 models selected  

QWindowsWindow::setGeometry: Unable to set geometry 269x173+1067+705 (frame:
285x212+1059+674) on QWidgetWindow/"QDockWidgetClassWindow" on
"\\\\.\DISPLAY193". Resulting geometry: 672x520+1067+705 (frame:
688x559+1059+674) margins: 8, 31, 8, 8 minimum size: 336x260 maximum size:
524287x524287 MINMAXINFO maxSize=0,0 maxpos=0,0 mintrack=688,559
maxtrack=1048590,1048613)  

> ui mousemode right select

Drag select of 2jd4_B SES surface, 392 of 6316 triangles  
Drag select of 2jd4_B SES surface, 412 of 6316 triangles  
Drag select of 2jd4_B SES surface, 412 of 6316 triangles  
Drag select of 2jd4_B SES surface, 412 of 6316 triangles  

> close #2.4

> select #2

3241 atoms, 2969 bonds, 16 pseudobonds, 708 residues, 3 models selected  

> ui mousemode right "translate selected models"

> view matrix models
> #2,0.52067,0.72127,0.45681,-12.828,0.85177,-0.40239,-0.3355,-38.038,-0.058173,0.56379,-0.82387,-8.8984

> ui mousemode right "rotate selected models"

> view matrix models
> #2,0.98192,-0.18842,-0.018256,8.0508,0.18815,0.98202,-0.015269,-70.245,0.020805,0.011558,0.99972,6.0456

> view matrix models
> #2,0.54776,0.72729,-0.41354,-12.961,0.63935,-0.68269,-0.35378,-25.37,-0.53962,-0.070605,-0.83894,19.767

> view matrix models
> #2,0.81194,0.55326,0.18615,-12.528,0.54767,-0.61165,-0.57091,-25.852,-0.20201,0.5655,-0.79963,-6.4063

> view matrix models
> #2,0.27749,0.84092,-0.4646,-11.713,0.94394,-0.14864,0.29475,-48.103,0.1788,-0.52035,-0.83503,21.208

> view matrix models
> #2,-0.1109,0.90323,-0.41458,-6.801,0.7023,0.36638,0.61036,-60.299,0.70319,-0.22347,-0.67497,2.3733

> view matrix models
> #2,-0.11265,0.89797,-0.42539,-6.5965,0.70272,0.37468,0.60482,-60.566,0.7025,-0.2308,-0.67323,2.6164

> view matrix models
> #2,-0.73323,0.59869,-0.32242,13.864,0.61013,0.78857,0.076753,-71.692,0.3002,-0.14044,-0.94348,7.0873

> view matrix models
> #2,0.31095,0.84993,-0.42536,-12.619,-0.34181,0.51761,0.78438,-46.602,0.88684,-0.098508,0.45146,-5.5516

> view matrix models
> #2,-0.54263,-0.080439,-0.83611,32.288,-0.61909,-0.63444,0.46283,-4.9953,-0.56769,0.76878,0.29447,-7.0083

> ui mousemode right "translate selected models"

> view matrix models
> #2,-0.54263,-0.080439,-0.83611,41.919,-0.61909,-0.63444,0.46283,-7.9255,-0.56769,0.76878,0.29447,-27.15

> view matrix models
> #2,-0.54263,-0.080439,-0.83611,57.128,-0.61909,-0.63444,0.46283,-10.521,-0.56769,0.76878,0.29447,-16.819

> view matrix models
> #2,-0.54263,-0.080439,-0.83611,70.987,-0.61909,-0.63444,0.46283,-4.0923,-0.56769,0.76878,0.29447,-22.344

> view matrix models
> #2,-0.54263,-0.080439,-0.83611,73.261,-0.61909,-0.63444,0.46283,-6.4655,-0.56769,0.76878,0.29447,-30.935

> view matrix models
> #2,-0.54263,-0.080439,-0.83611,74.727,-0.61909,-0.63444,0.46283,-4.6084,-0.56769,0.76878,0.29447,-31.095

> view matrix models
> #2,-0.54263,-0.080439,-0.83611,80.461,-0.61909,-0.63444,0.46283,-5.8742,-0.56769,0.76878,0.29447,-24.997

> view matrix models
> #2,-0.54263,-0.080439,-0.83611,25.068,-0.61909,-0.63444,0.46283,-17.278,-0.56769,0.76878,0.29447,-49.626

> view matrix models
> #2,-0.54263,-0.080439,-0.83611,29.61,-0.61909,-0.63444,0.46283,1.2084,-0.56769,0.76878,0.29447,-45.14

> ui mousemode right "rotate selected models"

> view matrix models
> #2,-0.61143,0.72966,0.30619,4.4817,0.39518,-0.053673,0.91704,-35.519,0.68556,0.6817,-0.25553,-64.359

> view matrix models
> #2,-0.85532,-0.28299,-0.43399,41.34,-0.29802,-0.41647,0.85892,-11.655,-0.42381,0.86398,0.27187,-50.702

> view matrix models
> #2,-0.94868,-0.21251,-0.23418,40.648,-0.22074,-0.085257,0.9716,-23.586,-0.22644,0.97343,0.033973,-57.533

> ui mousemode right "translate selected models"

> view matrix models
> #2,-0.94868,-0.21251,-0.23418,53.219,-0.22074,-0.085257,0.9716,-15.624,-0.22644,0.97343,0.033973,-56.733

> view matrix models
> #2,-0.94868,-0.21251,-0.23418,58.564,-0.22074,-0.085257,0.9716,-18.749,-0.22644,0.97343,0.033973,-56.591

> ui mousemode right "rotate selected models"

> view matrix models
> #2,-0.90434,0.39255,-0.16754,38.579,0.0083293,0.4087,0.91263,-38.428,0.42673,0.82393,-0.37287,-63.237

> ui mousemode right "translate selected models"

> view matrix models
> #2,-0.90434,0.39255,-0.16754,50.956,0.0083293,0.4087,0.91263,-37.136,0.42673,0.82393,-0.37287,-48.837

> ~select #2

1 model selected  
Please select pseudobonds  
  
Peptide pair mapping of PD evidence file:
C:/Users/Steve021/Desktop/matrigel_crosslinking/20220325_matrigel_crosslinked_02/20210406_EX2_UM3_Steve021_SA_MG3_9_01-(1).xlsx  
Unique peptide pairs: 155 out of 155  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Unique peptide pairs with pseudobonds: 39  
Traceback (most recent call last):  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 142, in <lambda>  
function = lambda _, s=selector, t=key: self.map_button_clicked(s,  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 844, in map_button_clicked  
self.map_crosslinks(self.checked_models, checked_files)  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 1093, in map_crosslinks  
created_model = self.create_pseudobonds_model(pbonds,  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 1124, in create_pseudobonds_model  
group = self.get_pseudobonds_model(name)  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 1180, in get_pseudobonds_model  
n = re.search("(\d+)", extension) + 1  
TypeError: unsupported operand type(s) for +: 're.Match' and 'int'  
  
TypeError: unsupported operand type(s) for +: 're.Match' and 'int'  
  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 1180, in get_pseudobonds_model  
n = re.search("(\d+)", extension) + 1  
  
See log for complete Python traceback.  
  

> close #4

> close #3

  
Peptide pair mapping of PD evidence file:
C:/Users/Steve021/Desktop/matrigel_crosslinking/20220325_matrigel_crosslinked_02/20210406_EX2_UM3_Steve021_SA_MG3_9_01-(1).xlsx  
Unique peptide pairs: 155 out of 155  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Unique peptide pairs with pseudobonds: 39  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Pseudobonds are stored in
C:/Users/Steve021/Desktop/matrigel_crosslinking/20220325_matrigel_crosslinked_02/20210406_EX2_UM3_Steve021_SA_MG3_9_01-(1)_1,2.pb  
Mapping information is stored in
C:/Users/Steve021/Desktop/matrigel_crosslinking/20220325_matrigel_crosslinked_02/20210406_EX2_UM3_Steve021_SA_MG3_9_01-(1)_1,2.tsv  
Traceback (most recent call last):  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 252, in <lambda>  
self.uncheck(button, checked,  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 308, in uncheck  
self.color_gradient(checked, pbs, button.policy, reset_values)  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 453, in color_gradient  
color_key.delete()  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\color_key\model.py", line 91, in delete  
self.session.main_view.remove_overlays([self], delete = False)  
AttributeError: 'NoneType' object has no attribute 'main_view'  
  
AttributeError: 'NoneType' object has no attribute 'main_view'  
  
File "C:\Program Files\ChimeraX 1.2.5\bin\lib\site-
packages\chimerax\color_key\model.py", line 91, in delete  
self.session.main_view.remove_overlays([self], delete = False)  
  
See log for complete Python traceback.  
  

> select #2

3241 atoms, 2969 bonds, 16 pseudobonds, 708 residues, 3 models selected  

> view matrix models
> #2,-0.90434,0.39255,-0.16754,56.359,0.0083293,0.4087,0.91263,-35.808,0.42673,0.82393,-0.37287,-53.517

> view matrix models
> #2,-0.90434,0.39255,-0.16754,62.416,0.0083293,0.4087,0.91263,-39.041,0.42673,0.82393,-0.37287,-55.959

> view matrix models
> #2,-0.90434,0.39255,-0.16754,66.977,0.0083293,0.4087,0.91263,-40.737,0.42673,0.82393,-0.37287,-50.694

> view matrix models
> #2,-0.90434,0.39255,-0.16754,55.635,0.0083293,0.4087,0.91263,-48.853,0.42673,0.82393,-0.37287,-47.857

> view matrix models
> #2,-0.90434,0.39255,-0.16754,60.584,0.0083293,0.4087,0.91263,-46.623,0.42673,0.82393,-0.37287,-45.84

> ui mousemode right "rotate selected models"

> view matrix models
> #2,0.8723,-0.20591,0.4435,47.514,-0.043596,0.87065,0.48998,-60.06,-0.48703,-0.44674,0.75049,9.9592

> view matrix models
> #2,0.39771,0.6753,-0.62113,28.729,0.28784,-0.73463,-0.61439,-14.46,-0.87119,0.065567,-0.48654,1.3496

> view matrix models
> #2,0.60155,0.60149,-0.52568,27.377,0.29289,-0.7783,-0.55539,-13.204,-0.7432,0.18013,-0.64436,-4.4584

> view matrix models
> #2,0.63919,0.5378,-0.54974,28.738,0.42659,-0.84271,-0.32841,-13.687,-0.63989,-0.024601,-0.76807,0.25975

> view matrix models
> #2,0.66832,0.64919,-0.36317,24.577,0.61578,-0.75672,-0.21949,-19.845,-0.41731,-0.076941,-0.9055,-1.9615

> ui mousemode right "translate selected models"

> view matrix models
> #2,0.66832,0.64919,-0.36317,26.941,0.61578,-0.75672,-0.21949,-19.241,-0.41731,-0.076941,-0.9055,-2.1401

> view matrix models
> #2,0.66832,0.64919,-0.36317,31.037,0.61578,-0.75672,-0.21949,-16.723,-0.41731,-0.076941,-0.9055,-4.3512

> view matrix models
> #2,0.66832,0.64919,-0.36317,27.312,0.61578,-0.75672,-0.21949,-21.435,-0.41731,-0.076941,-0.9055,-3.9515

> view matrix models
> #2,0.66832,0.64919,-0.36317,25.598,0.61578,-0.75672,-0.21949,-24.072,-0.41731,-0.076941,-0.9055,-2.975

> close #4

> close #3

  
Peptide pair mapping of PD evidence file:
C:/Users/Steve021/Desktop/matrigel_crosslinking/20220325_matrigel_crosslinked_02/20210406_EX2_UM3_Steve021_SA_MG3_9_01-(1).xlsx  
Unique peptide pairs: 155 out of 155  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Unique peptide pairs with pseudobonds: 39  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Pseudobonds are stored in
C:/Users/Steve021/Desktop/matrigel_crosslinking/20220325_matrigel_crosslinked_02/20210406_EX2_UM3_Steve021_SA_MG3_9_01-(1)_1,2.pb  
Mapping information is stored in
C:/Users/Steve021/Desktop/matrigel_crosslinking/20220325_matrigel_crosslinked_02/20210406_EX2_UM3_Steve021_SA_MG3_9_01-(1)_1,2.tsv  
Alignment identifier is 1  
Alignment identifier is 2  
Alignment identifier is 2  
Alignment identifier is 2  

> ui mousemode right select

> select clear

Alignment identifier is 1/A  
Alignment identifier is 1/B  
Alignment identifier is 1/C  
Alignment identifier is 1  

> close #2-3#1

> open "M:/_Steve021/Matrigel/New docking- for
> commentary/2jd4_v2-pdbtools.pdb" "M:/_Steve021/Matrigel/New docking- for
> commentary/5mc9_v2-pdbtools.pdb"

Chain information for 2jd4_v2-pdbtools.pdb #1  
---  
Chain | Description  
A | No description available  
  
Chain information for 5mc9_v2-pdbtools.pdb #2  
---  
Chain | Description  
A | No description available  
B | No description available  
C | No description available  
  

> select #1

3054 atoms, 2946 bonds, 540 residues, 1 model selected  
Drag select of 5 atoms, 142 residues, 4 bonds  

> select #1

3054 atoms, 2946 bonds, 540 residues, 1 model selected  

> ~select #1

Nothing selected  

> select #1

3054 atoms, 2946 bonds, 540 residues, 1 model selected  

> ui mousemode right "translate selected models"

> view matrix models #1,1,0,0,-48.147,0,1,0,-69.75,0,0,1,21.525

> ui mousemode right "rotate selected models"

> view matrix models
> #1,-0.33603,-0.55596,0.76025,-7.9408,-0.46807,-0.60188,-0.64703,-13.359,0.81731,-0.57327,-0.057977,24.39

> ui mousemode right "translate selected models"

> view matrix models
> #1,-0.33603,-0.55596,0.76025,-6.6561,-0.46807,-0.60188,-0.64703,-10.036,0.81731,-0.57327,-0.057977,15.936

> ~select #1

Nothing selected  
  
Peptide pair mapping of PD evidence file:
C:/Users/Steve021/Desktop/matrigel_crosslinking/20220325_matrigel_crosslinked_02/20210406_EX2_UM3_Steve021_SA_MG3_9_01-(1).xlsx  
Traceback (most recent call last):  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 142, in <lambda>  
function = lambda _, s=selector, t=key: self.map_button_clicked(s,  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 844, in map_button_clicked  
self.map_crosslinks(self.checked_models, checked_files)  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 865, in map_crosslinks  
dataframe = pd.read_excel(evidence_file)  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\pandas\util\\_decorators.py", line 311, in wrapper  
return func(*args, **kwargs)  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\pandas\io\excel\\_base.py", line 457, in read_excel  
io = ExcelFile(io, storage_options=storage_options, engine=engine)  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\pandas\io\excel\\_base.py", line 1376, in __init__  
ext = inspect_excel_format(  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\pandas\io\excel\\_base.py", line 1250, in inspect_excel_format  
with get_handle(  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\pandas\io\common.py", line 798, in get_handle  
handle = open(handle, ioargs.mode)  
FileNotFoundError: [Errno 2] No such file or directory:
'C:/Users/Steve021/Desktop/matrigel_crosslinking/20220325_matrigel_crosslinked_02/20210406_EX2_UM3_Steve021_SA_MG3_9_01-(1).xlsx'  
  
FileNotFoundError: [Errno 2] No such file or directory:
'C:/Users/Steve021/Desktop/matrigel_crosslinking/20220325_matrigel_crosslinked_02/20210406_EX2_UM3_Steve021_SA_MG3_9_01-(1).xlsx'  
  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\pandas\io\common.py", line 798, in get_handle  
handle = open(handle, ioargs.mode)  
  
See log for complete Python traceback.  
  

> ui tool show XMAS

  
Peptide pair mapping of PD evidence file: M:/_Steve021/Matrigel/New docking-
for commentary/20210406_EX2_UM3_Steve021_SA_MG3_combined-consensus-all-
files.xlsx  
Unique peptide pairs: 147 out of 147  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Unique peptide pairs with pseudobonds: 35  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Pseudobonds are stored in M:/_Steve021/Matrigel/New docking- for
commentary/20210406_EX2_UM3_Steve021_SA_MG3_combined-consensus-all-
files_1,2.pb  
Mapping information is stored in M:/_Steve021/Matrigel/New docking- for
commentary/20210406_EX2_UM3_Steve021_SA_MG3_combined-consensus-all-
files_1,2.tsv  

> open "M:/_Steve021/Matrigel/New docking- for
> commentary/results_jiH_3LUKOOl+/fixed_chain.pdb"

Chain information for fixed_chain.pdb #4  
---  
Chain | Description  
A | No description available  
B | No description available  
C | No description available  
  

> hide #2 models

> show #2 models

> hide #2 models

> open "M:/_Steve021/Matrigel/New docking- for
> commentary/results_jiH_3LUKOOl+/accessible_interaction_space.mrc"

Opened accessible_interaction_space.mrc as #5, grid size 90,108,96, pixel 2,
shown at level 7, step 1, values int16  

> volume #5 level 7.978

> volume #5 style mesh

> volume #5 style image

> volume #5 maximumIntensityProjection true

> volume #5 region 0,0,47,89,107,47 step 1 maximumIntensityProjection false
> showOutlineBox true

> volume #5 region 0,0,0,89,107,95 step 1

> volume #5 region 0,0,0,89,107,95 step 1 colorMode opaque8 orthoplanes xyz
> positionPlanes 44,53,47 imageMode orthoplanes

> volume #5 imageMode "box faces"

> volume #5 colorMode auto8 imageMode "tilted slab" tiltedSlabAxis
> -0.6387,-0.7261,-0.2546 tiltedSlabOffset -0.8123 tiltedSlabSpacing 2
> tiltedSlabPlaneCount 18

> volume #5 style surface

> volume #5 change image level 0,0 level 7,0.8 level 10,1

> volume #5 level 7.985

> volume #5 level 9

> volume #5 level 7.917

> show #2 models

> select #1

3054 atoms, 2946 bonds, 540 residues, 1 model selected  

> ui mousemode right "translate selected models"

> view matrix models
> #1,-0.33603,-0.55596,0.76025,13.938,-0.46807,-0.60188,-0.64703,20.376,0.81731,-0.57327,-0.057977,62.078

> view matrix models
> #1,-0.33603,-0.55596,0.76025,-14.482,-0.46807,-0.60188,-0.64703,4.9878,0.81731,-0.57327,-0.057977,40.969

> ui mousemode right select

> select clear

> color bychain

> volume #5 level 7.015

> select #4

10948 atoms, 10738 bonds, 997 residues, 1 model selected  

> ui mousemode right "translate selected models"

> view matrix models #4,1,0,0,-1.8744,0,1,0,0.84612,0,0,1,2.8965

> undo

> select #2

10948 atoms, 10738 bonds, 12 pseudobonds, 997 residues, 2 models selected  

> select #4

10948 atoms, 10738 bonds, 997 residues, 1 model selected  

> select #2

10948 atoms, 10738 bonds, 12 pseudobonds, 997 residues, 2 models selected  

> select #1

3054 atoms, 2946 bonds, 540 residues, 1 model selected  

> view matrix models
> #1,-0.33603,-0.55596,0.76025,-9.9982,-0.46807,-0.60188,-0.64703,-1.2465,0.81731,-0.57327,-0.057977,35.219

> view matrix models
> #1,-0.33603,-0.55596,0.76025,-3.9058,-0.46807,-0.60188,-0.64703,-10.419,0.81731,-0.57327,-0.057977,39.059

> volume #5 level 6.992

> hide #3 models

> ui mousemode right select

> select clear

> ui tool show XMAS

  
Peptide pair mapping of PD evidence file: M:/_Steve021/Matrigel/New docking-
for commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate3-combined.xlsx  
Unique peptide pairs: 95 out of 95  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Unique peptide pairs with pseudobonds: 29  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Pseudobonds are stored in M:/_Steve021/Matrigel/New docking- for
commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate3-combined_1,2,4.pb  
Mapping information is stored in M:/_Steve021/Matrigel/New docking- for
commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate3-combined_1,2,4.tsv  
  
Peptide pair mapping of PD evidence file: M:/_Steve021/Matrigel/New docking-
for commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate1-combined.xlsx  
Unique peptide pairs: 117 out of 117  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Unique peptide pairs with pseudobonds: 23  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Pseudobonds are stored in M:/_Steve021/Matrigel/New docking- for
commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate1-combined_1,2,4.pb  
Mapping information is stored in M:/_Steve021/Matrigel/New docking- for
commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate1-combined_1,2,4.tsv  
  
Peptide pair mapping of PD evidence file: M:/_Steve021/Matrigel/New docking-
for commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate2-combined.xlsx  
Unique peptide pairs: 98 out of 98  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Unique peptide pairs with pseudobonds: 29  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Pseudobonds are stored in M:/_Steve021/Matrigel/New docking- for
commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate2-combined_1,2,4.pb  
Mapping information is stored in M:/_Steve021/Matrigel/New docking- for
commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate2-combined_1,2,4.tsv  

QWindowsWindow::setGeometry: Unable to set geometry 1920x1060+0+34 (frame:
1942x1116-11-11) on QWidgetWindow/"MainWindowClassWindow" on
"\\\\.\DISPLAY225". Resulting geometry: 1920x986+0+34 (frame: 1942x1042-11-11)
margins: 11, 45, 11, 11 minimum size: 643x530 MINMAXINFO maxSize=0,0
maxpos=0,0 mintrack=1308,1116 maxtrack=0,0)  

QWindowsWindow::setGeometry: Unable to set geometry 1920x1292+0+34 (frame:
1942x1348-11-11) on QWidgetWindow/"MainWindowClassWindow" on
"\\\\.\DISPLAY225". Resulting geometry: 1920x986+0+34 (frame: 1942x1042-11-11)
margins: 11, 45, 11, 11 minimum size: 904x646 MINMAXINFO maxSize=0,0
maxpos=0,0 mintrack=1830,1348 maxtrack=0,0)  

> select clear

Drag select of 2 atoms, 218 residues, 2 bonds, 5
accessible_interaction_space.mrc , 26 pseudobonds  

> select clear

QWindowsWindow::setGeometry: Unable to set geometry 224x302+1344+437 (frame:
240x341+1336+406) on QWidgetWindow/"QDockWidgetClassWindow" on
"\\\\.\DISPLAY225". Resulting geometry: 672x520+1344+437 (frame:
688x559+1336+406) margins: 8, 31, 8, 8 minimum size: 336x260 maximum size:
524287x524287 MINMAXINFO maxSize=0,0 maxpos=0,0 mintrack=688,559
maxtrack=1048590,1048613)  

> volume #5 level 7.974

> volume #5 level 6

> volume #5 region 0,0,0,89,107,95 step 1

> volume #5 region 0,0,0,89,107,95 step 1

> volume #5 level 7.995

  
Peptide pair mapping of PD evidence file: M:/_Steve021/Matrigel/New docking-
for commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate3-combined.xlsx  
Unique peptide pairs: 95 out of 95  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Unique peptide pairs with pseudobonds: 29  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Pseudobonds are stored in M:/_Steve021/Matrigel/New docking- for
commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate3-combined_1,2,4.pb  
Mapping information is stored in M:/_Steve021/Matrigel/New docking- for
commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate3-combined_1,2,4.tsv  
  
Peptide pair mapping of PD evidence file: M:/_Steve021/Matrigel/New docking-
for commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate1-combined.xlsx  
Unique peptide pairs: 117 out of 117  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Unique peptide pairs with pseudobonds: 23  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Pseudobonds are stored in M:/_Steve021/Matrigel/New docking- for
commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate1-combined_1,2,4.pb  
Mapping information is stored in M:/_Steve021/Matrigel/New docking- for
commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate1-combined_1,2,4.tsv  
  
Peptide pair mapping of PD evidence file: M:/_Steve021/Matrigel/New docking-
for commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate2-combined.xlsx  
Unique peptide pairs: 98 out of 98  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Unique peptide pairs with pseudobonds: 29  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Pseudobonds are stored in M:/_Steve021/Matrigel/New docking- for
commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate2-combined_1,2,4.pb  
Mapping information is stored in M:/_Steve021/Matrigel/New docking- for
commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate2-combined_1,2,4.tsv  
  
Peptide pair mapping of PD evidence file: M:/_Steve021/Matrigel/New docking-
for commentary/20210406_EX2_UM3_Steve021_SA_MG3_combined-consensus-all-
files_no duplicates.xlsx  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Unique peptide pairs: 111 out of 251  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Unique peptide pairs with pseudobonds: 29  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Pseudobonds are stored in M:/_Steve021/Matrigel/New docking- for
commentary/20210406_EX2_UM3_Steve021_SA_MG3_combined-consensus-all-files_no
duplicates_1,2,4.pb  
Mapping information is stored in M:/_Steve021/Matrigel/New docking- for
commentary/20210406_EX2_UM3_Steve021_SA_MG3_combined-consensus-all-files_no
duplicates_1,2,4.tsv  

> hide #10 models

> hide #11 models

> hide #12 models

> volume #5 level 6.917

Please select pseudobonds  

> close #1-4,6-8,10-13#5

> open "M:/_Steve021/Matrigel/New docking- for
> commentary/5mc9_v2-pdbtools.pdb"

Chain information for 5mc9_v2-pdbtools.pdb #1  
---  
Chain | Description  
A | No description available  
B | No description available  
C | No description available  
  

> open "M:/_Steve021/Matrigel/New docking- for
> commentary/2jd4_v2-pdbtools.pdb"

Chain information for 2jd4_v2-pdbtools.pdb #2  
---  
Chain | Description  
A | No description available  
  

> ui mousemode right "translate selected models"

> select #2

3054 atoms, 2946 bonds, 540 residues, 1 model selected  

> view matrix models #2,1,0,0,9.7631,0,1,0,-21.304,0,0,1,41.945

> view matrix models #2,1,0,0,-25.456,0,1,0,-67.408,0,0,1,-13.925

> view matrix models #2,1,0,0,-34.539,0,1,0,-74.598,0,0,1,-15.847

> view matrix models #2,1,0,0,-48.339,0,1,0,-81.785,0,0,1,-19.153

> ui mousemode right "rotate selected models"

> view matrix models
> #2,0.89491,0.28567,0.34282,-55.045,-0.44054,0.44313,0.78075,-56.913,0.071121,-0.84973,0.52241,5.2097

> view matrix models
> #2,0.90978,0.32719,0.25544,-56.606,-0.39718,0.50733,0.76476,-59.616,0.12063,-0.79722,0.59151,2.7986

> ui mousemode right "translate selected models"

> view matrix models
> #2,0.90978,0.32719,0.25544,-42.669,-0.39718,0.50733,0.76476,-51.073,0.12063,-0.79722,0.59151,-1.9144

> view matrix models
> #2,0.90978,0.32719,0.25544,-41.736,-0.39718,0.50733,0.76476,-56.868,0.12063,-0.79722,0.59151,-0.44843

> view matrix models
> #2,0.90978,0.32719,0.25544,-35.869,-0.39718,0.50733,0.76476,-51.602,0.12063,-0.79722,0.59151,-3.1988

> ui mousemode right "rotate selected models"

> view matrix models
> #2,0.8636,-0.010803,0.50406,-24.682,-0.46238,0.3816,0.80037,-46.644,-0.201,-0.92426,0.32456,6.0497

> view matrix models
> #2,0.89351,0.1409,0.42637,-29.844,-0.44222,0.44099,0.781,-48.805,-0.077981,-0.88638,0.45634,2.8525

> open "M:/_Steve021/Matrigel/New docking- for
> commentary/results_jiH_3LUKOOl+/accessible_interaction_space.mrc"

Opened accessible_interaction_space.mrc as #3, grid size 90,108,96, pixel 2,
shown at level 7, step 1, values int16  

> ui mousemode right "translate selected models"

> view matrix models
> #2,0.89351,0.1409,0.42637,-16.765,-0.44222,0.44099,0.781,-44.993,-0.077981,-0.88638,0.45634,11.558

> view matrix models
> #2,0.89351,0.1409,0.42637,-26.013,-0.44222,0.44099,0.781,-47.244,-0.077981,-0.88638,0.45634,16.231

> view matrix models
> #2,0.89351,0.1409,0.42637,-31.382,-0.44222,0.44099,0.781,-53.381,-0.077981,-0.88638,0.45634,18.054

> ui mousemode right "rotate selected models"

> view matrix models
> #2,0.73536,-0.45921,0.49838,-10.395,-0.41293,0.27951,0.86681,-48.934,-0.53735,-0.84321,0.015917,24.408

> ui mousemode right "translate selected models"

> view matrix models
> #2,0.73536,-0.45921,0.49838,-15.393,-0.41293,0.27951,0.86681,-53.342,-0.53735,-0.84321,0.015917,32.692

> ui tool show XMAS

> view matrix models
> #2,0.73536,-0.45921,0.49838,-4.2937,-0.41293,0.27951,0.86681,-54.292,-0.53735,-0.84321,0.015917,37.599

> ui mousemode right "rotate selected models"

> view matrix models
> #2,0.5642,-0.70434,0.43079,6.0595,0.21391,0.62866,0.74769,-75.721,-0.79744,-0.3297,0.50536,26.703

> view matrix models
> #2,0.33973,-0.58809,0.73398,6.5308,-0.10446,0.75198,0.65086,-74.052,-0.9347,-0.29779,0.19404,27.934

> ui mousemode right "translate selected models"

> view matrix models
> #2,0.33973,-0.58809,0.73398,14.696,-0.10446,0.75198,0.65086,-73.399,-0.9347,-0.29779,0.19404,28.234

> view matrix models
> #2,0.33973,-0.58809,0.73398,10.414,-0.10446,0.75198,0.65086,-65.279,-0.9347,-0.29779,0.19404,35.293

> view matrix models
> #2,0.33973,-0.58809,0.73398,10.999,-0.10446,0.75198,0.65086,-61.545,-0.9347,-0.29779,0.19404,34.405

  
Peptide pair mapping of PD evidence file: M:/_Steve021/Matrigel/New docking-
for commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate1-combined.xlsx  
Unique peptide pairs: 117 out of 117  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Unique peptide pairs with pseudobonds: 23  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Pseudobonds are stored in M:/_Steve021/Matrigel/New docking- for
commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate1-combined_1,2.pb  
Mapping information is stored in M:/_Steve021/Matrigel/New docking- for
commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate1-combined_1,2.tsv  
  
Peptide pair mapping of PD evidence file: M:/_Steve021/Matrigel/New docking-
for commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate2-combined.xlsx  
Unique peptide pairs: 98 out of 98  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Unique peptide pairs with pseudobonds: 29  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Pseudobonds are stored in M:/_Steve021/Matrigel/New docking- for
commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate2-combined_1,2.pb  
Mapping information is stored in M:/_Steve021/Matrigel/New docking- for
commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate2-combined_1,2.tsv  
  
Peptide pair mapping of PD evidence file: M:/_Steve021/Matrigel/New docking-
for commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate3-combined.xlsx  
Unique peptide pairs: 95 out of 95  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Unique peptide pairs with pseudobonds: 29  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\info_file.py:30: FutureWarning: The frame.append method
is deprecated and will be removed from pandas in a future version. Use
pandas.concat instead.  
self.df = self.df.append(df_add, ignore_index=True)  
Pseudobonds are stored in M:/_Steve021/Matrigel/New docking- for
commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate3-combined_1,2.pb  
Mapping information is stored in M:/_Steve021/Matrigel/New docking- for
commentary/20210406_EX2_UM3_Steve021_SA_MG3_replicate3-combined_1,2.tsv  
Traceback (most recent call last):  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 1813, in get_parameters  
self.create_disvis_input(chains, distances, pseudobonds, pb_lines)  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 1893, in create_disvis_input  
self.save_subset(title, extension, [pb_lines, lines])  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 1748, in save_subset  
file_path = os.path.splitext(file_path)(0)  
TypeError: 'tuple' object is not callable  
  
TypeError: 'tuple' object is not callable  
  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 1748, in save_subset  
file_path = os.path.splitext(file_path)(0)  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 1813, in get_parameters  
self.create_disvis_input(chains, distances, pseudobonds, pb_lines)  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 1893, in create_disvis_input  
self.save_subset(title, extension, [pb_lines, lines])  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 1748, in save_subset  
file_path = os.path.splitext(file_path)(0)  
TypeError: 'tuple' object is not callable  
  
TypeError: 'tuple' object is not callable  
  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 1748, in save_subset  
file_path = os.path.splitext(file_path)(0)  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 1813, in get_parameters  
self.create_disvis_input(chains, distances, pseudobonds, pb_lines)  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 1893, in create_disvis_input  
self.save_subset(title, extension, [pb_lines, lines])  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 1748, in save_subset  
file_path = os.path.splitext(file_path)(0)  
TypeError: 'tuple' object is not callable  
  
TypeError: 'tuple' object is not callable  
  
File "C:\Users\Steve021\AppData\Local\UCSF\ChimeraX\1.2\site-
packages\chimerax\xmas\tool.py", line 1748, in save_subset  
file_path = os.path.splitext(file_path)(0)  
  
See log for complete Python traceback.  
  




OpenGL version: 3.3.0 - Build 30.0.101.1191
OpenGL renderer: Intel(R) UHD Graphics 630
OpenGL vendor: Intel
Manufacturer: Dell Inc.
Model: OptiPlex 7070
OS: Microsoft Windows 10 Enterprise (Build 19043)
Memory: 34,131,087,360
MaxProcessMemory: 137,438,953,344
CPU: 16 Intel(R) Core(TM) i9-9900 CPU @ 3.10GHz
OSLanguage: en-US
Locale: ('en_US', 'cp1252')
PyQt5 5.15.2, Qt 5.15.2
Installed Packages:
    alabaster: 0.7.12
    appdirs: 1.4.4
    Babel: 2.9.1
    backcall: 0.2.0
    blockdiag: 2.0.1
    certifi: 2020.12.5
    cftime: 1.5.0
    chardet: 3.0.4
    ChimeraX-AddCharge: 1.0.1
    ChimeraX-AddH: 2.1.6
    ChimeraX-AlignmentAlgorithms: 2.0
    ChimeraX-AlignmentHdrs: 3.2
    ChimeraX-AlignmentMatrices: 2.0
    ChimeraX-Alignments: 2.1
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.0
    ChimeraX-Atomic: 1.13.2
    ChimeraX-AtomicLibrary: 3.1.3
    ChimeraX-AtomSearch: 2.0
    ChimeraX-AtomSearchLibrary: 1.0
    ChimeraX-AxesPlanes: 2.0
    ChimeraX-BasicActions: 1.1
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 1.1
    ChimeraX-BondRot: 2.0
    ChimeraX-BugReporter: 1.0
    ChimeraX-BuildStructure: 2.5.2
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.1
    ChimeraX-ButtonPanel: 1.0
    ChimeraX-CageBuilder: 1.0
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.1
    ChimeraX-ChemGroup: 2.0
    ChimeraX-Clashes: 2.1
    ChimeraX-ColorActions: 1.0
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.2.1
    ChimeraX-CommandLine: 1.1.4
    ChimeraX-ConnectStructure: 2.0
    ChimeraX-Contacts: 1.0
    ChimeraX-Core: 1.2.5
    ChimeraX-CoreFormats: 1.0
    ChimeraX-coulombic: 1.1.1
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0
    ChimeraX-DataFormats: 1.1
    ChimeraX-Dicom: 1.0
    ChimeraX-DistMonitor: 1.1.3
    ChimeraX-DistUI: 1.0
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ExperimentalCommands: 1.0
    ChimeraX-FileHistory: 1.0
    ChimeraX-FunctionKey: 1.0
    ChimeraX-Geometry: 1.1
    ChimeraX-gltf: 1.0
    ChimeraX-Graphics: 1.0
    ChimeraX-Hbonds: 2.1
    ChimeraX-Help: 1.1
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.0
    ChimeraX-ImageFormats: 1.1
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.1
    ChimeraX-Label: 1.0
    ChimeraX-ListInfo: 1.1.1
    ChimeraX-Log: 1.1.2
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.8.1
    ChimeraX-Map: 1.0.2
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0
    ChimeraX-MapFilter: 2.0
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.0
    ChimeraX-Markers: 1.0
    ChimeraX-Mask: 1.0
    ChimeraX-MatchMaker: 1.2.1
    ChimeraX-MDcrds: 2.2
    ChimeraX-MedicalToolbar: 1.0.1
    ChimeraX-Meeting: 1.0
    ChimeraX-MLP: 1.1
    ChimeraX-mmCIF: 2.3
    ChimeraX-MMTF: 2.1
    ChimeraX-Modeller: 1.0.1
    ChimeraX-ModelPanel: 1.0.1
    ChimeraX-ModelSeries: 1.0
    ChimeraX-Mol2: 2.0
    ChimeraX-Morph: 1.0
    ChimeraX-MouseModes: 1.1
    ChimeraX-Movie: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nucleotides: 2.0.1
    ChimeraX-OpenCommand: 1.5
    ChimeraX-PDB: 2.4.1
    ChimeraX-PDBBio: 1.0
    ChimeraX-PDBLibrary: 1.0.1
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PickBlobs: 1.0
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.0.1
    ChimeraX-PubChem: 2.0.1
    ChimeraX-ReadPbonds: 1.0
    ChimeraX-Registration: 1.1
    ChimeraX-RemoteControl: 1.0
    ChimeraX-ResidueFit: 1.0
    ChimeraX-RestServer: 1.1
    ChimeraX-RNALayout: 1.0
    ChimeraX-RotamerLibMgr: 2.0
    ChimeraX-RotamerLibsDunbrack: 2.0
    ChimeraX-RotamerLibsDynameomics: 2.0
    ChimeraX-RotamerLibsRichardson: 2.0
    ChimeraX-SaveCommand: 1.4
    ChimeraX-SchemeMgr: 1.0
    ChimeraX-SDF: 2.0
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0
    ChimeraX-SeqView: 2.3
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0
    ChimeraX-Shortcuts: 1.0
    ChimeraX-ShowAttr: 1.0
    ChimeraX-ShowSequences: 1.0
    ChimeraX-SideView: 1.0
    ChimeraX-Smiles: 2.0.1
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.3.1
    ChimeraX-STL: 1.0
    ChimeraX-Storm: 1.0
    ChimeraX-Struts: 1.0
    ChimeraX-Surface: 1.0
    ChimeraX-SwapAA: 2.0
    ChimeraX-SwapRes: 2.1
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.0.1
    ChimeraX-ToolshedUtils: 1.2
    ChimeraX-Tug: 1.0
    ChimeraX-UI: 1.7.6
    ChimeraX-uniprot: 2.1
    ChimeraX-UnitCell: 1.0
    ChimeraX-ViewDockX: 1.0
    ChimeraX-Vive: 1.1
    ChimeraX-VolumeMenu: 1.0
    ChimeraX-VTK: 1.0
    ChimeraX-WavefrontOBJ: 1.0
    ChimeraX-WebCam: 1.0
    ChimeraX-WebServices: 1.0
    ChimeraX-XMAS: 1.0.1
    ChimeraX-Zone: 1.0
    colorama: 0.4.3
    comtypes: 1.1.7
    cxservices: 1.0
    cycler: 0.10.0
    Cython: 0.29.21
    decorator: 5.0.9
    distlib: 0.3.1
    docutils: 0.16
    et-xmlfile: 1.1.0
    filelock: 3.0.12
    funcparserlib: 0.3.6
    grako: 3.16.5
    h5py: 2.10.0
    html2text: 2020.1.16
    idna: 2.10
    ihm: 0.17
    imagecodecs: 2020.5.30
    imagesize: 1.2.0
    ipykernel: 5.3.4
    ipython: 7.18.1
    ipython-genutils: 0.2.0
    jedi: 0.17.2
    Jinja2: 2.11.2
    jupyter-client: 6.1.7
    jupyter-core: 4.7.1
    kiwisolver: 1.3.1
    line-profiler: 2.1.2
    lxml: 4.6.2
    lz4: 3.1.0
    MarkupSafe: 2.0.1
    matplotlib: 3.3.2
    matplotlib-venn: 0.11.6
    msgpack: 1.0.0
    netCDF4: 1.5.4
    networkx: 2.5
    numexpr: 2.7.3
    numpy: 1.19.2
    numpydoc: 1.1.0
    openpyxl: 3.0.9
    openvr: 1.14.1501
    packaging: 20.9
    pandas: 1.4.0
    ParmEd: 3.2.0
    parso: 0.7.1
    pickleshare: 0.7.5
    Pillow: 7.2.0
    pip: 21.0.1
    pkginfo: 1.5.0.1
    prompt-toolkit: 3.0.18
    psutil: 5.7.2
    pycollada: 0.7.1
    pydicom: 2.0.0
    Pygments: 2.7.1
    PyOpenGL: 3.1.5
    PyOpenGL-accelerate: 3.1.5
    pyparsing: 2.4.7
    PyQt5-commercial: 5.15.2
    PyQt5-sip: 12.8.1
    PyQtWebEngine-commercial: 5.15.2
    python-dateutil: 2.8.1
    pytz: 2021.1
    pywin32: 228
    pyzmq: 22.0.3
    qtconsole: 4.7.7
    QtPy: 1.9.0
    QtRangeSlider: 0.1.5
    RandomWords: 0.3.0
    requests: 2.24.0
    scipy: 1.5.2
    seaborn: 0.11.2
    setuptools: 50.3.2
    sfftk-rw: 0.6.7.dev1
    six: 1.15.0
    snowballstemmer: 2.1.0
    sortedcontainers: 2.2.2
    Sphinx: 3.2.1
    sphinxcontrib-applehelp: 1.0.2
    sphinxcontrib-blockdiag: 2.0.0
    sphinxcontrib-devhelp: 1.0.2
    sphinxcontrib-htmlhelp: 2.0.0
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 1.0.3
    sphinxcontrib-serializinghtml: 1.1.5
    suds-jurko: 0.6
    tables: 3.6.1
    tifffile: 2020.9.3
    tinyarray: 1.2.3
    tornado: 6.1
    traitlets: 5.0.5
    urllib3: 1.25.11
    wcwidth: 0.2.5
    webcolors: 1.11.1
    wheel: 0.36.0
    wheel-filename: 1.3.0
    WMI: 1.5.1