Opened 7 years ago

Closed 7 years ago

Last modified 7 years ago

#1266 closed defect (fixed)

crosslinks and sequence viewer problems

Reported by: pascal.albanese@… Owned by: pett
Priority: normal Milestone:
Component: Structure Analysis Version:
Keywords: Cc:
Blocked By: Blocking:
Notify when closed: Platform: all
Project: ChimeraX

Description (last modified by pett)

The following bug report has been submitted:
Platform:        Windows-10-10.0.17134
ChimeraX Version: 0.8 (2018-08-10)
Description
Hi, i just tried to plot the crosslinks as network, might be that the problem is that i have different crosslinks in the same residue?

thanks in advance for your support, 

Pascal

crosslinks network pbonds
Traceback (most recent call last):   File "C:\Program Files\ChimeraX\bin\lib\site-packages\chimerax\cmd_line\tool.py", line 205, in execute     cmd.run(cmd_text)   File "C:\Program Files\ChimeraX\bin\lib\site-packages\chimerax\core\commands\cli.py", line 2561, in run     result = ci.function(session, **kw_args)   File "C:\Program Files\ChimeraX\bin\lib\site-packages\chimerax\crosslinks\crosslinks.py", line 63, in crosslinks_network     cnodes, edges = chains_and_edges(pbonds)   File "C:\Program Files\ChimeraX\bin\lib\site-packages\chimerax\crosslinks\chainplot.py", line 96, in chains_and_edges     chains = [(a.structure, a.chain_id) for a in pb.atoms]   File "C:\Program Files\ChimeraX\bin\lib\site-packages\chimerax\crosslinks\chainplot.py", line 96, in <listcomp>     chains = [(a.structure, a.chain_id) for a in pb.atoms]   File "C:\Program Files\ChimeraX\bin\lib\site-packages\chimerax\atomic\attr_registration.py", line 39, in __getattr__     return look_in_class._attr_registration.get_attr(attr_name)   File "C:\Program Files\ChimeraX\bin\lib\site-packages\chimerax\atomic\attr_registration.py", line 66, in get_attr     raise AttributeError("'%s' object has no attribute '%s'" % (self.class_.__name__, attr_name)) from None AttributeError: 'Atom' object has no attribute 'chain_id' 
AttributeError: 'Atom' object has no attribute 'chain_id'

File "C:\Program Files\ChimeraX\bin\lib\site-packages\chimerax\atomic\attr_registration.py", line 66, in get_attr
raise AttributeError("'%s' object has no attribute '%s'" % (self.class_.__name__, attr_name)) from None


Log:
UCSF ChimeraX version: 0.8 (2018-08-10)  
OpenGL version: 3.3.0 NVIDIA 388.75  
OpenGL renderer: GeForce 940M/PCIe/SSE2  
OpenGL vendor: NVIDIA Corporation  
How to cite UCSF ChimeraX  

open "D:/UTRECHT_MS/Chimera modelling/PDB_C2S2_HL.pdb"

Summary of feedback from opening D:/UTRECHT_MS/Chimera
modelling/PDB_C2S2_HL.pdb  
---  
warnings | Ignored bad PDB record found on line 207410  
END  
  
Cannot find LINK/SSBOND residue TYR (24 )  
Cannot find LINK/SSBOND residue GLU (65 )  
Cannot find LINK/SSBOND residue VAL (119 )  
Cannot find LINK/SSBOND residue GLU (139 )  
Cannot find LINK/SSBOND residue GLU (180 )  
69 messages similar to the above omitted  
  
Opened PDB data containing 157892 atoms and 161044 bonds  
Chain information for PDB_C2S2_HL.pdb #1.2  
---  
Chain | Description  
1.1/A 1.1/a | photosystem II protein D1  
1.2/A 1.2/a | photosystem II protein D1  
1.1/B 1.1/b | photosystem II CP47 reaction center protein  
1.2/B 1.2/b | photosystem II CP47 reaction center protein  
1.1/C 1.1/c | photosystem II CP43 reaction center protein  
1.2/C 1.2/c | photosystem II CP43 reaction center protein  
1.1/D 1.1/d | photosystem II D2 protein  
1.2/D 1.2/d | photosystem II D2 protein  
1.1/E 1.1/e | PSII reaction center subunit V  
1.2/E 1.2/e | PSII reaction center subunit V  
1.1/F 1.1/f | cytochrome B559 subunit β, PSBF  
1.2/F 1.2/f | cytochrome B559 subunit β, PSBF  
1.1/G 1.1/N 1.1/Y 1.1/g 1.1/n 1.1/y | lhcii TYPE I CAB-8  
1.2/G 1.2/N 1.2/Y 1.2/g 1.2/n 1.2/y | lhcii TYPE I CAB-8  
1.1/H 1.1/h | photosystem II reaction center protein H  
1.2/H 1.2/h | photosystem II reaction center protein H  
1.1/I 1.1/i | photosystem II reaction center protein I, PSBI  
1.2/I 1.2/i | photosystem II reaction center protein I, PSBI  
1.1/J 1.1/j | PSII-J  
1.2/J 1.2/j | PSII-J  
1.1/K 1.1/k | PSII-K  
1.2/K 1.2/k | PSII-K  
1.1/L 1.1/l | PSII-L  
1.2/L 1.2/l | PSII-L  
1.1/M 1.1/m | PSII-M  
1.2/M 1.2/m | PSII-M  
1.1/O 1.2/O 1.1/o 1.2/o | oxygen-evolving enhancer protein 1, chloroplastic  
1.1/P 1.2/P 1.1/p 1.2/p | oxygen-evolving enhancer protein 2, chloroplastic  
1.1/Q 1.1/q | oxygen-evolving enhancer protein 3  
1.2/Q 1.2/q | oxygen-evolving enhancer protein 3  
1.1/R 1.1/r | light harvesting chlorophyll A/B-binding protein LHCB4, CP29  
1.2/R 1.2/r | light harvesting chlorophyll A/B-binding protein LHCB4, CP29  
1.1/S 1.1/s | light harvesting chlorophyll A/B-binding protein LHCB5, CP26  
1.2/S 1.2/s | light harvesting chlorophyll A/B-binding protein LHCB5, CP26  
1.1/T 1.1/t | PSII-T  
1.2/T 1.2/t | PSII-T  
1.1/W 1.2/W 1.1/w 1.2/w | photosystem II reaction center protein W  
1.1/X 1.1/x | photosystem II reaction center protein X  
1.2/X 1.2/x | photosystem II reaction center protein X  
1.1/Z 1.2/Z 1.1/z 1.2/z | PSII-Z  
  

set bgColor gray

hide selAtoms surfaces

hide selAtoms surfaces

hide selAtoms

show selAtoms ribbons

distance #1.1/R:177@CA #1.1/R:170@CA radius 0.5 dashes 12 color gold

Distance between PDB_C2S2_HL.pdb #1.1/R LYS 177 CA and LYS 170 CA: 12.850Å  

crosslinks #1.1/R:177@CA #1.1/R:170@CA radius 0.5 dashes 12 color gold

sequence chain #1.1/R

Alignment identifier is 1.1.R  

sequence chain #1.2/R

Alignment identifier is 1.2.R  

invert selR

Unknown command: invert selR  

invert sel

Unknown command: invert sel  

help help:user

didn't expected commands hrefs to be to tools/sequenceviewer.html on line 239  

select up

243 atoms, 248 bonds, 1 model selected  

select up

2805 atoms, 2887 bonds, 1 model selected  

select ~ sel

155087 atoms, 158157 bonds, 2098 pseudobonds, 5 models selected  

select color tan tranparency 0.5

Expected an objects specifier or a keyword  

help help:quickstart

help help:quickstart

help help:user

select color tan tranparency 50

Expected an objects specifier or a keyword  

select color tan tranparency 50 target c

Expected an objects specifier or a keyword  

select color tan

Expected an objects specifier or a keyword  

select color tan all

Expected an objects specifier or a keyword  

color sel tan

tranparency sel 50 target c

Unknown command: tranparency sel 50 target c  

tranparency sel 0.5 target c

Unknown command: tranparency sel 0.5 target c  

transparency sel 0.5 target c

transparency sel 50 target c

sequence chain #1.1/r

Alignment identifier is 1.1.r  

color #1.1/r #1.2/r #1.1/R #1.2/R green

select up

157892 atoms, 161044 bonds, 2168 pseudobonds, 5 models selected  

select up

157892 atoms, 161044 bonds, 2168 pseudobonds, 5 models selected  

transparency sel 70 target c

transparency #1.1/r #1.2/r #1.1/R #1.2/R 0 target c

save session "D:/UTRECHT_MS/Chimera modelling/Lhcb4_INTRALINKS.cxs"

Session file format is not finalized, and thus might not be restorable in
other versions of ChimeraX.  

Traceback (most recent call last):  
  File "C:\Program Files\ChimeraX\bin\lib\site-packages\chimerax\seq-
view\region_browser.py", line 438, in <lambda>  
    lambda e, s=self: s._mouse_up_cb(e, double=True)  
  File "C:\Program Files\ChimeraX\bin\lib\site-packages\chimerax\seq-
view\region_browser.py", line 1538, in _mouse_up_cb  
    self.enter()  
AttributeError: 'RegionBrowser' object has no attribute 'enter'  
  

AttributeError: 'RegionBrowser' object has no attribute 'enter'  
  
File "C:\Program Files\ChimeraX\bin\lib\site-packages\chimerax\seq-
view\region_browser.py", line 1538, in _mouse_up_cb  
self.enter()  
  
See log for complete Python traceback.  
  
If you wish to report this error, send mail to chimerax-bugs@cgl.ucsf.edu and
describe what you were doing and include a copy of the contents of the log.
Don't include any data you wish to remain private since a publicly viewable
bug report will be created.  

help help:devel

distance #1.1/R:191@CA #1.1/R:170@CA radius 0.5 dashes 12 color gold

Distance between PDB_C2S2_HL.pdb #1.1/R LYS 191 CA and LYS 170 CA: 13.441Å  

distance #1.1/R:191@CA #1.2/R:170@CA radius 0.5 dashes 12 color red

Distance between PDB_C2S2_HL.pdb #1.1/R LYS 191 CA and PDB_C2S2_HL.pdb #1.2/R
LYS 170 CA: 92.788Å  

distance #1.1/R:177@CA #1.1/R:170@CA radius 0.5 dashes 12 color gold

Distance already exists; modify distance properties with 'distance style'  

distance #1.1/R:177@CA #1.2/R:170@CA radius 0.5 dashes 12 color red

Distance between PDB_C2S2_HL.pdb #1.1/R LYS 177 CA and PDB_C2S2_HL.pdb #1.2/R
LYS 170 CA: 81.762Å  

distance #1.1/R:190@CA #1.1/R:200@CA radius 0.5 dashes 12 color gold

Distance between PDB_C2S2_HL.pdb #1.1/R LYS 190 CA and LYS 200 CA: 14.934Å  

distance #1.1/R:190@CA #1.2/R:200@CA radius 0.5 dashes 12 color red

Distance between PDB_C2S2_HL.pdb #1.1/R LYS 190 CA and PDB_C2S2_HL.pdb #1.2/R
LYS 200 CA: 115.008Å  

distance #1.1/R:190@CA #1.1/R:200@CA radius 0.5 dashes 12 color gold

Distance already exists; modify distance properties with 'distance style'  

save session "D:/UTRECHT_MS/Chimera modelling/Lhcb4_INTRALINKS.cxs"

Session file format is not finalized, and thus might not be restorable in
other versions of ChimeraX.  

save session "D:/UTRECHT_MS/Chimera modelling/Lhcb4_INTRALINKS.cxs"

Session file format is not finalized, and thus might not be restorable in
other versions of ChimeraX.  

distance #1.1/C:339@CA distance #1.1/:228@CA radius 0.5 dashes color gold

Missing or invalid "atoms" argument: Expected two atoms to be specified (1
specified)  

distance #1.1/C:339@CA distance #1.1/:228@CA radius 0.5 dashes color gold

Missing or invalid "atoms" argument: Expected two atoms to be specified (1
specified)  

distance #1.1/C:339@CA distance #1.1/:228@CA radius 0.5 dashes color gold

Missing or invalid "atoms" argument: Expected two atoms to be specified (1
specified)  


[deleted many "distance" commands]


Missing or invalid "atoms" argument: only initial part "#1.2" of atom
specifier valid  

distance #1.2/:27@CA #1.2/:22@CA radius 0.5 dashes 20 color gold

Missing or invalid "atoms" argument: only initial part "#1.2" of atom
specifier valid  

distance #1.2/:228@CA #1.2/:44@CA radius 0.5 dashes 20 color gold

Missing or invalid "atoms" argument: only initial part "#1.2" of atom
specifier valid  

distance #1.2/:83@CA #1.2/:306@CA radius 0.5 dashes 20 color gold

Missing or invalid "atoms" argument: only initial part "#1.2" of atom
specifier valid  

distance #1.2/:41@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Missing or invalid "atoms" argument: only initial part "#1.2" of atom
specifier valid  

distance #1.2/:8@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "atoms" argument: only initial part "#1.2" of atom
specifier valid  

distance #1.2/:83@CA #1.2/:306@CA radius 0.5 dashes 20 color gold

Missing or invalid "atoms" argument: only initial part "#1.2" of atom
specifier valid  

distance #1.2/:83@CA #1.2/:306@CA radius 0.5 dashes 20 color gold

Missing or invalid "atoms" argument: only initial part "#1.2" of atom
specifier valid  

distance #1.2/:405@CA #1.2/:186@CA radius 0.5 dashes 20 color gold

Missing or invalid "atoms" argument: only initial part "#1.2" of atom
specifier valid  

distance #1.2/c:339@CA #1.2/:364@CA radius 0.5 dashes 20 color gold

Missing or invalid "atoms" argument: Expected two atoms to be specified (1
specified)  

distance #1.2/:56@CA #1.2/:127@CA radius 0.5 dashes 20 color gold

Missing or invalid "atoms" argument: only initial part "#1.2" of atom
specifier valid  

distance #1.2/:41@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Missing or invalid "atoms" argument: only initial part "#1.2" of atom
specifier valid  

distance #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Missing or invalid "atoms" argument: Expected two atoms to be specified (1
specified)  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/C:339@CA #1.2/:145@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/C:339@CA #1.2/C:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/C:339@CA #1.2/C:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/C:339@CA #1.2/C:382@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/C:339@CA #1.2/C:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/C:339@CA #1.2/C:382@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/C:339@CA #1.2/C:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:216@CA #1.2/:239@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/C:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/C:339@CA #1.2/C:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:41@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/B:349@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:42@CA #1.2/:41@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/S:46@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:41@CA #1.2/:27@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:145@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/S:46@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/B:349@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:8@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:217@CA #1.2/:225@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:118@CA #1.2/C:382@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/C:382@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/C:382@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:217@CA #1.2/:225@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/B:349@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/C:339@CA #1.2/C:382@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:183@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:41@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:41@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:42@CA #1.2/:41@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:41@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:42@CA #1.2/S:46@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:217@CA #1.2/:225@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:42@CA #1.2/:27@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:8@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:8@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:41@CA #1.2/:27@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/B:349@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:42@CA #1.2/S:46@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/S:46@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:42@CA #1.2/:26@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/S:46@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:26@CA #1.2/:274@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:217@CA #1.2/:225@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:145@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:212@CA #1.2/:205@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:41@CA #1.2/:27@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:182@CA #1.2/:192@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:145@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:8@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:26@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/B:349@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/C:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:41@CA #1.2/S:46@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:183@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:217@CA #1.2/:225@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/B:349@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:217@CA #1.2/:225@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:212@CA #1.2/:205@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:68@CA #1.2/:42@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:182@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:217@CA #1.2/:225@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:217@CA #1.2/:225@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:41@CA #1.2/S:46@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/B:349@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:26@CA #1.2/:274@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/C:382@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:145@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/B:349@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:228@CA #1.2/:67@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:457@CA #1.2/:387@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/B:349@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:172@CA #1.2/:147@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/C:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:212@CA #1.2/:205@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:212@CA #1.2/:205@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/C:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:27@CA #1.2/:438@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:216@CA #1.2/:239@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/C:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/C:339@CA #1.2/C:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/C:339@CA #1.2/C:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:111@CA #1.2/:99@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:212@CA #1.2/:205@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:239@CA #1.2/:243@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:145@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:145@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:212@CA #1.2/:205@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/C:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:27@CA #1.2/:438@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/C:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/B:349@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:42@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:239@CA #1.2/:243@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/S:46@CA #1.2/S:39@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:216@CA #1.2/:239@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:172@CA #1.2/:147@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/C:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:111@CA #1.2/:99@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:41@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:247@CA #1.2/:243@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/S:46@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:242@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:42@CA #1.2/:441@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:192@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:90@CA #1.2/:481@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:90@CA #1.2/:230@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:90@CA #1.2/:230@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/S:44@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:216@CA #1.2/:239@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:41@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:169@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:182@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:145@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:441@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:382@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/C:339@CA #1.2/C:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:83@CA #1.2/:306@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:244@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:42@CA #1.2/:77@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:77@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:216@CA #1.2/:239@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:242@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:242@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/C:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:228@CA #1.2/B:349@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:27@CA #1.2/:186@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:27@CA #1.2/:117@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:212@CA #1.2/:205@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:169@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:54@CA #1.2/:265@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:77@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:8@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:77@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:27@CA #1.2/:22@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:27@CA #1.2/:69@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:41@CA #1.2/:242@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:28@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:27@CA #1.2/:22@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:182@CA #1.2/:253@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:247@CA #1.2/:243@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:90@CA #1.2/:230@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:90@CA #1.2/:230@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:26@CA #1.2/:45@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:26@CA #1.2/:45@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/C:339@CA #1.2/:555@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:42@CA #1.2/:182@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:16@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:27@CA #1.2/:22@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:27@CA #1.2/:22@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:228@CA #1.2/:44@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:83@CA #1.2/:306@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:41@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:8@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:83@CA #1.2/:306@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:83@CA #1.2/:306@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:405@CA #1.2/:186@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:364@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:56@CA #1.2/:127@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:41@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/C:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/c:339@CA #1.2/:145@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/c:339@CA #1.2/c:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/c:339@CA #1.2/c:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/c:339@CA #1.2/c:382@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/c:339@CA #1.2/c:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/c:339@CA #1.2/c:382@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/c:339@CA #1.2/c:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:216@CA #1.2/:239@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/c:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/c:339@CA #1.2/c:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:41@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/b:349@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:42@CA #1.2/:41@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/s:46@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:41@CA #1.2/:27@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:145@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/s:46@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/b:349@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:8@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:217@CA #1.2/:225@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:118@CA #1.2/c:382@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/c:382@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/c:382@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:217@CA #1.2/:225@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/b:349@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/c:339@CA #1.2/c:382@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:183@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:41@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:41@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:42@CA #1.2/:41@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:41@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:42@CA #1.2/s:46@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:217@CA #1.2/:225@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:42@CA #1.2/:27@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:8@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:8@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:41@CA #1.2/:27@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/b:349@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:42@CA #1.2/s:46@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/s:46@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:42@CA #1.2/:26@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/s:46@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:26@CA #1.2/:274@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:217@CA #1.2/:225@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:145@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:212@CA #1.2/:205@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:41@CA #1.2/:27@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:182@CA #1.2/:192@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:145@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:8@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:26@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/b:349@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/c:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:41@CA #1.2/s:46@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:183@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:217@CA #1.2/:225@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/b:349@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:217@CA #1.2/:225@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:212@CA #1.2/:205@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:68@CA #1.2/:42@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:182@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:217@CA #1.2/:225@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:217@CA #1.2/:225@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:41@CA #1.2/s:46@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/b:349@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:26@CA #1.2/:274@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/c:382@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:145@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/b:349@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:228@CA #1.2/:67@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:457@CA #1.2/:387@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/b:349@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:172@CA #1.2/:147@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/c:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:212@CA #1.2/:205@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:212@CA #1.2/:205@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/c:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:27@CA #1.2/:438@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:216@CA #1.2/:239@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/c:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/c:339@CA #1.2/c:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/c:339@CA #1.2/c:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:111@CA #1.2/:99@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:212@CA #1.2/:205@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:239@CA #1.2/:243@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:145@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:145@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:212@CA #1.2/:205@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/c:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:27@CA #1.2/:438@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/c:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/b:349@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:42@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:239@CA #1.2/:243@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/s:46@CA #1.2/s:39@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:216@CA #1.2/:239@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:172@CA #1.2/:147@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/c:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:111@CA #1.2/:99@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:41@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:247@CA #1.2/:243@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/s:46@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:242@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:42@CA #1.2/:441@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:192@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:90@CA #1.2/:481@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:90@CA #1.2/:230@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:90@CA #1.2/:230@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/s:44@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:216@CA #1.2/:239@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:41@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:169@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:182@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:9@CA #1.2/:79@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:145@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:441@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:382@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/c:339@CA #1.2/c:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:169@CA #1.2/:162@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:83@CA #1.2/:306@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/:244@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:42@CA #1.2/:77@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:77@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:216@CA #1.2/:239@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:242@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:242@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/c:381@CA radius 0.5 dashes 20 color gold

crosslinks #1.2/:228@CA #1.2/b:349@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:27@CA #1.2/:186@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:27@CA #1.2/:117@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:212@CA #1.2/:205@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:169@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:54@CA #1.2/:265@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:77@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:8@CA #1.2/:85@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:77@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:27@CA #1.2/:22@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:27@CA #1.2/:69@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:41@CA #1.2/:242@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:42@CA #1.2/:28@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:27@CA #1.2/:22@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:182@CA #1.2/:253@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:247@CA #1.2/:243@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:90@CA #1.2/:230@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:90@CA #1.2/:230@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:26@CA #1.2/:45@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:26@CA #1.2/:45@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/c:339@CA #1.2/:228@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/c:339@CA #1.2/:555@CA radius 0.5 dashes 20 color gold

Expected a keyword  

crosslinks #1.2/:42@CA #1.2/:182@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:16@CA #1.2/:35@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:27@CA #1.2/:22@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:27@CA #1.2/:22@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:228@CA #1.2/:44@CA radius 0.5 dashes 20 color gold

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

crosslinks #1.2/:83@CA #1.2/:306@CA radius 0.5 das

Missing or invalid "pbonds" argument: only initial part "#1.2" of atom
specifier valid  

help help:user

crosslinks histogram

Missing or invalid "pbonds" argument: empty atom specifier  

crosslinks network pbonds

Traceback (most recent call last):  
  File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\cmd_line\tool.py", line 205, in execute  
    cmd.run(cmd_text)  
  File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2561, in run  
    result = ci.function(session, **kw_args)  
  File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\crosslinks\crosslinks.py", line 63, in crosslinks_network  
    cnodes, edges = chains_and_edges(pbonds)  
  File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\crosslinks\chainplot.py", line 96, in chains_and_edges  
    chains = [(a.structure, a.chain_id) for a in pb.atoms]  
  File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\crosslinks\chainplot.py", line 96, in <listcomp>  
    chains = [(a.structure, a.chain_id) for a in pb.atoms]  
  File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\atomic\attr_registration.py", line 39, in __getattr__  
    return look_in_class._attr_registration.get_attr(attr_name)  
  File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\atomic\attr_registration.py", line 66, in get_attr  
    raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None  
AttributeError: 'Atom' object has no attribute 'chain_id'  
  

AttributeError: 'Atom' object has no attribute 'chain_id'  
  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\atomic\attr_registration.py", line 66, in get_attr  
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None  
  
See log for complete Python traceback.  
  
If you wish to report this error, send mail to chimerax-bugs@cgl.ucsf.edu and
describe what you were doing and include a copy of the contents of the log.
Don't include any data you wish to remain private since a publicly viewable
bug report will be created.  

crosslinks histogram pbonds

crosslinks network pbonds

Traceback (most recent call last):  
  File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\cmd_line\tool.py", line 205, in execute  
    cmd.run(cmd_text)  
  File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2561, in run  
    result = ci.function(session, **kw_args)  
  File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\crosslinks\crosslinks.py", line 63, in crosslinks_network  
    cnodes, edges = chains_and_edges(pbonds)  
  File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\crosslinks\chainplot.py", line 96, in chains_and_edges  
    chains = [(a.structure, a.chain_id) for a in pb.atoms]  
  File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\crosslinks\chainplot.py", line 96, in <listcomp>  
    chains = [(a.structure, a.chain_id) for a in pb.atoms]  
  File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\atomic\attr_registration.py", line 39, in __getattr__  
    return look_in_class._attr_registration.get_attr(attr_name)  
  File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\atomic\attr_registration.py", line 66, in get_attr  
    raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None  
AttributeError: 'Atom' object has no attribute 'chain_id'  
  

AttributeError: 'Atom' object has no attribute 'chain_id'  
  
File "C:\Program Files\ChimeraX\bin\lib\site-
packages\chimerax\atomic\attr_registration.py", line 66, in get_attr  
raise AttributeError("'%s' object has no attribute '%s'" %
(self.class_.__name__, attr_name)) from None  
  
See log for complete Python traceback.  
  
If you wish to report this error, send mail to chimerax-bugs@cgl.ucsf.edu and
describe what you were doing and include a copy of the contents of the log.
Don't include any data you wish to remain private since a publicly viewable
bug report will be created.  




OpenGL version: 3.3.0 NVIDIA 388.75
OpenGL renderer: GeForce 940M/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation

Change History (5)

comment:1 by pett, 7 years ago

Component: UnassignedStructure Analysis
Description: modified (diff)
Owner: set to pett
Platform: all
Project: ChimeraX
Status: newaccepted
Summary: ChimeraX bug report submissioncrosslinks and sequence viewer problems

comment:2 by pett, 7 years ago

Resolution: fixed
Status: acceptedclosed

Hi Pascal,

Thanks for reporting the problem. The issue was that some programming interfaces had changed and the crosslinks code hadn't been updated to match the changes. I have fixed this and the fix will be in tomorrow's build. I also fixed the problem with the sequence viewer that occurred much earlier in your session.

--Eric

Eric Pettersen
UCSF Computer Graphics Lab

in reply to:  3 ; comment:3 by pascal.albanese@…, 7 years ago

Awesome, thanks!

Il giorno gio 23 ago 2018 alle ore 22:16 ChimeraX <
ChimeraX-bugs-admin@cgl.ucsf.edu> ha scritto:


in reply to:  4 ; comment:4 by pascal.albanese@…, 7 years ago

Hi Eric,

sorry for writing you again but the daily build do not lunch on my PC, i
tried to install it twice actually but it doesn't work.

I also had this problem randomly with the daily builds, some days is
working, some day not.

Bests,
P

Il giorno gio 23 ago 2018 alle ore 23:28 Pascal Albanese <
pascal.albanese@polito.it> ha scritto:

comment:5 by pett, 7 years ago

I am able to run the current daily build both on my mac and on a Windows 10 machine in my lab. What does "doesn't work" mean exactly? Do you get any error messages?

--Eric

Note: See TracTickets for help on using tickets.