XMAS tool: AttributeError: 'Tabular' object has no attribute 'peptide_pairs'

[emilio.cirri@…]

The following bug report has been submitted:
Platform:        Windows-10-10.0.19044
ChimeraX Version: 1.9rc202411230619 (2024-11-23 06:19:23 UTC)
Description
I am trying to import results from pLink 3.0.17, but I am not able to do it. Could you please help me?

Log:
Startup Messages  
---  
note | available bundle cache has not been initialized yet  
  
UCSF ChimeraX version: 1.9rc202411230619 (2024-11-23)  
© 2016-2024 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> ui tool show XMAS

> open F:\M52_SDA_Test\SDA_Test_Jena\BSA.cif format mmcif

BSA.cif title:  
Crystal structure of Bovine Serum Albumin [more info...]  
  
Chain information for BSA.cif #1  
---  
Chain | Description | UniProt  
A B | Serum albumin | ALBU_BOVIN 1-583  
  
Non-standard residues in BSA.cif #1  
---  
ACT — acetate ion  
CA — calcium ion  
  
BSA.cif mmCIF Assemblies  
---  
1| author_and_software_defined_assembly  
2| author_and_software_defined_assembly  
  
18 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.  
Unsupported evidence file format  
Traceback (most recent call last):  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 290, in <lambda>  
function = lambda _, s=selector, t=key: self.map_button_clicked(s, t)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 447, in map_button_clicked  
self.map_crosslinks(self.checked_models, checked_files)  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 460, in map_crosslinks  
evidence = Evidence(evidence_file)  
^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 38, in __init__  
self.peptide_pairs = evidence.peptide_pairs  
^^^^^^^^^^^^^^^^^^^^^^  
AttributeError: 'Tabular' object has no attribute 'peptide_pairs'  
  
AttributeError: 'Tabular' object has no attribute 'peptide_pairs'  
  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 38, in __init__  
self.peptide_pairs = evidence.peptide_pairs  
^^^^^^^^^^^^^^^^^^^^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 290, in <lambda>  
function = lambda _, s=selector, t=key: self.map_button_clicked(s, t)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 447, in map_button_clicked  
self.map_crosslinks(self.checked_models, checked_files)  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 460, in map_crosslinks  
evidence = Evidence(evidence_file)  
^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 37, in __init__  
evidence = cls(evidence_file)  
^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 101, in __init__  
df = self.make_df(evidence_file, delimiter, header)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 300, in make_df  
df = pd.read_csv(evidence_file, sep=delimiter, header=0,  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\readers.py", line 1026, in read_csv  
return _read(filepath_or_buffer, kwds)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\readers.py", line 626, in _read  
return parser.read(nrows)  
^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\readers.py", line 1923, in read  
) = self._engine.read( # type: ignore[attr-defined]  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\c_parser_wrapper.py", line 234, in read  
chunks = self._reader.read_low_memory(nrows)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "pandas/_libs/parsers.pyx", line 838, in
pandas._libs.parsers.TextReader.read_low_memory  
File "pandas/_libs/parsers.pyx", line 921, in
pandas._libs.parsers.TextReader._read_rows  
File "pandas/_libs/parsers.pyx", line 983, in
pandas._libs.parsers.TextReader._convert_column_data  
pandas.errors.ParserError: Too many columns specified: expected 25 and found
24  
  
pandas.errors.ParserError: Too many columns specified: expected 25 and found
24  
  
File "pandas/_libs/parsers.pyx", line 983, in
pandas._libs.parsers.TextReader._convert_column_data  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 290, in <lambda>  
function = lambda _, s=selector, t=key: self.map_button_clicked(s, t)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 447, in map_button_clicked  
self.map_crosslinks(self.checked_models, checked_files)  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 460, in map_crosslinks  
evidence = Evidence(evidence_file)  
^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 37, in __init__  
evidence = cls(evidence_file)  
^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 101, in __init__  
df = self.make_df(evidence_file, delimiter, header)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 300, in make_df  
df = pd.read_csv(evidence_file, sep=delimiter, header=0,  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\readers.py", line 1026, in read_csv  
return _read(filepath_or_buffer, kwds)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\readers.py", line 626, in _read  
return parser.read(nrows)  
^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\readers.py", line 1923, in read  
) = self._engine.read( # type: ignore[attr-defined]  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\c_parser_wrapper.py", line 234, in read  
chunks = self._reader.read_low_memory(nrows)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "pandas/_libs/parsers.pyx", line 838, in
pandas._libs.parsers.TextReader.read_low_memory  
File "pandas/_libs/parsers.pyx", line 921, in
pandas._libs.parsers.TextReader._read_rows  
File "pandas/_libs/parsers.pyx", line 983, in
pandas._libs.parsers.TextReader._convert_column_data  
pandas.errors.ParserError: Too many columns specified: expected 25 and found
24  
  
pandas.errors.ParserError: Too many columns specified: expected 25 and found
24  
  
File "pandas/_libs/parsers.pyx", line 983, in
pandas._libs.parsers.TextReader._convert_column_data  
  
See log for complete Python traceback.  
  
Unsupported evidence file format  
Traceback (most recent call last):  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 290, in <lambda>  
function = lambda _, s=selector, t=key: self.map_button_clicked(s, t)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 447, in map_button_clicked  
self.map_crosslinks(self.checked_models, checked_files)  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 460, in map_crosslinks  
evidence = Evidence(evidence_file)  
^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 38, in __init__  
self.peptide_pairs = evidence.peptide_pairs  
^^^^^^^^^^^^^^^^^^^^^^  
AttributeError: 'Tabular' object has no attribute 'peptide_pairs'  
  
AttributeError: 'Tabular' object has no attribute 'peptide_pairs'  
  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 38, in __init__  
self.peptide_pairs = evidence.peptide_pairs  
^^^^^^^^^^^^^^^^^^^^^^  
  
See log for complete Python traceback.  
  
Unsupported evidence file format  
Traceback (most recent call last):  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 290, in <lambda>  
function = lambda _, s=selector, t=key: self.map_button_clicked(s, t)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 447, in map_button_clicked  
self.map_crosslinks(self.checked_models, checked_files)  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 460, in map_crosslinks  
evidence = Evidence(evidence_file)  
^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 38, in __init__  
self.peptide_pairs = evidence.peptide_pairs  
^^^^^^^^^^^^^^^^^^^^^^  
AttributeError: 'Tabular' object has no attribute 'peptide_pairs'  
  
AttributeError: 'Tabular' object has no attribute 'peptide_pairs'  
  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 38, in __init__  
self.peptide_pairs = evidence.peptide_pairs  
^^^^^^^^^^^^^^^^^^^^^^  
  
See log for complete Python traceback.  
  
Please check one or more files  
Unsupported evidence file format  
Traceback (most recent call last):  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 290, in <lambda>  
function = lambda _, s=selector, t=key: self.map_button_clicked(s, t)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 447, in map_button_clicked  
self.map_crosslinks(self.checked_models, checked_files)  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 460, in map_crosslinks  
evidence = Evidence(evidence_file)  
^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 38, in __init__  
self.peptide_pairs = evidence.peptide_pairs  
^^^^^^^^^^^^^^^^^^^^^^  
AttributeError: 'Tabular' object has no attribute 'peptide_pairs'  
  
AttributeError: 'Tabular' object has no attribute 'peptide_pairs'  
  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 38, in __init__  
self.peptide_pairs = evidence.peptide_pairs  
^^^^^^^^^^^^^^^^^^^^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 290, in <lambda>  
function = lambda _, s=selector, t=key: self.map_button_clicked(s, t)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 447, in map_button_clicked  
self.map_crosslinks(self.checked_models, checked_files)  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 460, in map_crosslinks  
evidence = Evidence(evidence_file)  
^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 37, in __init__  
evidence = cls(evidence_file)  
^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 101, in __init__  
df = self.make_df(evidence_file, delimiter, header)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 300, in make_df  
df = pd.read_csv(evidence_file, sep=delimiter, header=0,  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\readers.py", line 1026, in read_csv  
return _read(filepath_or_buffer, kwds)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\readers.py", line 626, in _read  
return parser.read(nrows)  
^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\readers.py", line 1923, in read  
) = self._engine.read( # type: ignore[attr-defined]  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\c_parser_wrapper.py", line 234, in read  
chunks = self._reader.read_low_memory(nrows)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "pandas/_libs/parsers.pyx", line 838, in
pandas._libs.parsers.TextReader.read_low_memory  
File "pandas/_libs/parsers.pyx", line 905, in
pandas._libs.parsers.TextReader._read_rows  
File "pandas/_libs/parsers.pyx", line 874, in
pandas._libs.parsers.TextReader._tokenize_rows  
File "pandas/_libs/parsers.pyx", line 891, in
pandas._libs.parsers.TextReader._check_tokenize_status  
File "pandas/_libs/parsers.pyx", line 2061, in
pandas._libs.parsers.raise_parser_error  
pandas.errors.ParserError: Error tokenizing data. C error: Expected 11 fields
in line 4, saw 12  
  
  
pandas.errors.ParserError: Error tokenizing data. C error: Expected 11 fields
in line 4, saw 12  
  
  
File "pandas/_libs/parsers.pyx", line 2061, in
pandas._libs.parsers.raise_parser_error  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 290, in <lambda>  
function = lambda _, s=selector, t=key: self.map_button_clicked(s, t)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 447, in map_button_clicked  
self.map_crosslinks(self.checked_models, checked_files)  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 460, in map_crosslinks  
evidence = Evidence(evidence_file)  
^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 37, in __init__  
evidence = cls(evidence_file)  
^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 101, in __init__  
df = self.make_df(evidence_file, delimiter, header)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 300, in make_df  
df = pd.read_csv(evidence_file, sep=delimiter, header=0,  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\readers.py", line 1026, in read_csv  
return _read(filepath_or_buffer, kwds)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\readers.py", line 626, in _read  
return parser.read(nrows)  
^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\readers.py", line 1923, in read  
) = self._engine.read( # type: ignore[attr-defined]  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\c_parser_wrapper.py", line 234, in read  
chunks = self._reader.read_low_memory(nrows)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "pandas/_libs/parsers.pyx", line 838, in
pandas._libs.parsers.TextReader.read_low_memory  
File "pandas/_libs/parsers.pyx", line 905, in
pandas._libs.parsers.TextReader._read_rows  
File "pandas/_libs/parsers.pyx", line 874, in
pandas._libs.parsers.TextReader._tokenize_rows  
File "pandas/_libs/parsers.pyx", line 891, in
pandas._libs.parsers.TextReader._check_tokenize_status  
File "pandas/_libs/parsers.pyx", line 2061, in
pandas._libs.parsers.raise_parser_error  
pandas.errors.ParserError: Error tokenizing data. C error: Expected 11 fields
in line 4, saw 12  
  
  
pandas.errors.ParserError: Error tokenizing data. C error: Expected 11 fields
in line 4, saw 12  
  
  
File "pandas/_libs/parsers.pyx", line 2061, in
pandas._libs.parsers.raise_parser_error  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 290, in <lambda>  
function = lambda _, s=selector, t=key: self.map_button_clicked(s, t)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 447, in map_button_clicked  
self.map_crosslinks(self.checked_models, checked_files)  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 460, in map_crosslinks  
evidence = Evidence(evidence_file)  
^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 37, in __init__  
evidence = cls(evidence_file)  
^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 101, in __init__  
df = self.make_df(evidence_file, delimiter, header)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 300, in make_df  
df = pd.read_csv(evidence_file, sep=delimiter, header=0,  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\readers.py", line 1026, in read_csv  
return _read(filepath_or_buffer, kwds)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\readers.py", line 626, in _read  
return parser.read(nrows)  
^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\readers.py", line 1923, in read  
) = self._engine.read( # type: ignore[attr-defined]  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\c_parser_wrapper.py", line 234, in read  
chunks = self._reader.read_low_memory(nrows)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "pandas/_libs/parsers.pyx", line 838, in
pandas._libs.parsers.TextReader.read_low_memory  
File "pandas/_libs/parsers.pyx", line 905, in
pandas._libs.parsers.TextReader._read_rows  
File "pandas/_libs/parsers.pyx", line 874, in
pandas._libs.parsers.TextReader._tokenize_rows  
File "pandas/_libs/parsers.pyx", line 891, in
pandas._libs.parsers.TextReader._check_tokenize_status  
File "pandas/_libs/parsers.pyx", line 2061, in
pandas._libs.parsers.raise_parser_error  
pandas.errors.ParserError: Error tokenizing data. C error: Expected 11 fields
in line 4, saw 12  
  
  
pandas.errors.ParserError: Error tokenizing data. C error: Expected 11 fields
in line 4, saw 12  
  
  
File "pandas/_libs/parsers.pyx", line 2061, in
pandas._libs.parsers.raise_parser_error  
  
See log for complete Python traceback.  
  
Unsupported evidence file format  
Traceback (most recent call last):  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 290, in <lambda>  
function = lambda _, s=selector, t=key: self.map_button_clicked(s, t)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 447, in map_button_clicked  
self.map_crosslinks(self.checked_models, checked_files)  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 460, in map_crosslinks  
evidence = Evidence(evidence_file)  
^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 38, in __init__  
self.peptide_pairs = evidence.peptide_pairs  
^^^^^^^^^^^^^^^^^^^^^^  
AttributeError: 'Tabular' object has no attribute 'peptide_pairs'  
  
AttributeError: 'Tabular' object has no attribute 'peptide_pairs'  
  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 38, in __init__  
self.peptide_pairs = evidence.peptide_pairs  
^^^^^^^^^^^^^^^^^^^^^^  
  
See log for complete Python traceback.  
  
Unsupported evidence file format  
Traceback (most recent call last):  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 290, in <lambda>  
function = lambda _, s=selector, t=key: self.map_button_clicked(s, t)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 447, in map_button_clicked  
self.map_crosslinks(self.checked_models, checked_files)  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 460, in map_crosslinks  
evidence = Evidence(evidence_file)  
^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 38, in __init__  
self.peptide_pairs = evidence.peptide_pairs  
^^^^^^^^^^^^^^^^^^^^^^  
AttributeError: 'Tabular' object has no attribute 'peptide_pairs'  
  
AttributeError: 'Tabular' object has no attribute 'peptide_pairs'  
  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 38, in __init__  
self.peptide_pairs = evidence.peptide_pairs  
^^^^^^^^^^^^^^^^^^^^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 290, in <lambda>  
function = lambda _, s=selector, t=key: self.map_button_clicked(s, t)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 447, in map_button_clicked  
self.map_crosslinks(self.checked_models, checked_files)  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 460, in map_crosslinks  
evidence = Evidence(evidence_file)  
^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 37, in __init__  
evidence = cls(evidence_file)  
^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 101, in __init__  
df = self.make_df(evidence_file, delimiter, header)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 300, in make_df  
df = pd.read_csv(evidence_file, sep=delimiter, header=0,  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\readers.py", line 1026, in read_csv  
return _read(filepath_or_buffer, kwds)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\readers.py", line 626, in _read  
return parser.read(nrows)  
^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\readers.py", line 1923, in read  
) = self._engine.read( # type: ignore[attr-defined]  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\c_parser_wrapper.py", line 234, in read  
chunks = self._reader.read_low_memory(nrows)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "pandas/_libs/parsers.pyx", line 838, in
pandas._libs.parsers.TextReader.read_low_memory  
File "pandas/_libs/parsers.pyx", line 905, in
pandas._libs.parsers.TextReader._read_rows  
File "pandas/_libs/parsers.pyx", line 874, in
pandas._libs.parsers.TextReader._tokenize_rows  
File "pandas/_libs/parsers.pyx", line 891, in
pandas._libs.parsers.TextReader._check_tokenize_status  
File "pandas/_libs/parsers.pyx", line 2061, in
pandas._libs.parsers.raise_parser_error  
pandas.errors.ParserError: Error tokenizing data. C error: Expected 11 fields
in line 4, saw 12  
  
  
pandas.errors.ParserError: Error tokenizing data. C error: Expected 11 fields
in line 4, saw 12  
  
  
File "pandas/_libs/parsers.pyx", line 2061, in
pandas._libs.parsers.raise_parser_error  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 290, in <lambda>  
function = lambda _, s=selector, t=key: self.map_button_clicked(s, t)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 447, in map_button_clicked  
self.map_crosslinks(self.checked_models, checked_files)  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\tool.py", line 460, in map_crosslinks  
evidence = Evidence(evidence_file)  
^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 37, in __init__  
evidence = cls(evidence_file)  
^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 101, in __init__  
df = self.make_df(evidence_file, delimiter, header)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\chimerax\XMAS\read_evidence.py", line 300, in make_df  
df = pd.read_csv(evidence_file, sep=delimiter, header=0,  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\readers.py", line 1026, in read_csv  
return _read(filepath_or_buffer, kwds)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\readers.py", line 626, in _read  
return parser.read(nrows)  
^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\readers.py", line 1923, in read  
) = self._engine.read( # type: ignore[attr-defined]  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Users\research_ori\AppData\Local\UCSF\ChimeraX\1.9\Python311\site-
packages\pandas\io\parsers\c_parser_wrapper.py", line 234, in read  
chunks = self._reader.read_low_memory(nrows)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "pandas/_libs/parsers.pyx", line 838, in
pandas._libs.parsers.TextReader.read_low_memory  
File "pandas/_libs/parsers.pyx", line 905, in
pandas._libs.parsers.TextReader._read_rows  
File "pandas/_libs/parsers.pyx", line 874, in
pandas._libs.parsers.TextReader._tokenize_rows  
File "pandas/_libs/parsers.pyx", line 891, in
pandas._libs.parsers.TextReader._check_tokenize_status  
File "pandas/_libs/parsers.pyx", line 2061, in
pandas._libs.parsers.raise_parser_error  
pandas.errors.ParserError: Error tokenizing data. C error: Expected 11 fields
in line 4, saw 12  
  
  
pandas.errors.ParserError: Error tokenizing data. C error: Expected 11 fields
in line 4, saw 12  
  
  
File "pandas/_libs/parsers.pyx", line 2061, in
pandas._libs.parsers.raise_parser_error  
  
See log for complete Python traceback.  
  




OpenGL version: 3.3.0 NVIDIA 556.39
OpenGL renderer: NVIDIA T400 4GB/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation

Python: 3.11.4
Locale: en_US.cp65001
Qt version: PyQt6 6.7.1, Qt 6.7.1
Qt runtime version: 6.7.3
Qt platform: windows

Manufacturer: Dell Inc.
Model: Precision 5820 Tower
OS: Microsoft Windows 10 Enterprise LTSC (Build 19044)
Memory: 137,106,837,504
MaxProcessMemory: 137,438,953,344
CPU: 36 Intel(R) Xeon(R) W-2295 CPU @ 3.00GHz
OSLanguage: en-US

Installed Packages:
    alabaster: 1.0.0
    appdirs: 1.4.4
    asttokens: 2.4.1
    auditwheel: 6.1.0
    autocommand: 2.2.2
    babel: 2.16.0
    backports.tarfile: 1.2.0
    beautifulsoup4: 4.12.3
    blockdiag: 3.0.0
    blosc2: 2.7.1
    build: 1.2.1
    certifi: 2024.8.30
    cftime: 1.6.4.post1
    charset-normalizer: 3.4.0
    ChimeraX-AddCharge: 1.5.18
    ChimeraX-AddH: 2.2.6
    ChimeraX-AlignmentAlgorithms: 2.0.2
    ChimeraX-AlignmentHdrs: 3.5
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.16.1
    ChimeraX-AlphaFold: 1.0.1
    ChimeraX-AltlocExplorer: 1.1.2
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.58.7
    ChimeraX-AtomicLibrary: 14.1.11
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.4
    ChimeraX-BasicActions: 1.1.2
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 2.4.7
    ChimeraX-BondRot: 2.0.4
    ChimeraX-BugReporter: 1.0.1
    ChimeraX-BuildStructure: 2.13.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.4.0
    ChimeraX-ButtonPanel: 1.0.1
    ChimeraX-CageBuilder: 1.0.1
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.4
    ChimeraX-ChangeChains: 1.1
    ChimeraX-CheckWaters: 1.4
    ChimeraX-ChemGroup: 2.0.1
    ChimeraX-Clashes: 2.3
    ChimeraX-ColorActions: 1.0.5
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.6
    ChimeraX-CommandLine: 1.2.5
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.9rc202411230619
    ChimeraX-CoreFormats: 1.2
    ChimeraX-coulombic: 1.4.4
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.3
    ChimeraX-Dicom: 1.2.6
    ChimeraX-DistMonitor: 1.4.2
    ChimeraX-DockPrep: 1.1.3
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ESMFold: 1.0
    ChimeraX-FileHistory: 1.0.1
    ChimeraX-FunctionKey: 1.0.1
    ChimeraX-Geometry: 1.3
    ChimeraX-gltf: 1.0
    ChimeraX-Graphics: 1.4.1
    ChimeraX-Hbonds: 2.5
    ChimeraX-Help: 1.3
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.3
    ChimeraX-ItemsInspection: 1.0.1
    ChimeraX-IUPAC: 1.0
    ChimeraX-KVFinder: 1.2.1
    ChimeraX-Label: 1.1.11
    ChimeraX-ListInfo: 1.2.2
    ChimeraX-Log: 1.2
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.9.1
    ChimeraX-Map: 1.3
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0.1
    ChimeraX-MapFilter: 2.0.1
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.1.1
    ChimeraX-Markers: 1.0.1
    ChimeraX-Mask: 1.0.2
    ChimeraX-MatchMaker: 2.1.6
    ChimeraX-MCopy: 1.0
    ChimeraX-MDcrds: 2.7.2
    ChimeraX-MedicalToolbar: 1.1
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.14.2
    ChimeraX-MMTF: 2.2
    ChimeraX-ModelArchive: 1.0
    ChimeraX-Modeller: 1.5.18
    ChimeraX-ModelPanel: 1.5
    ChimeraX-ModelSeries: 1.0.1
    ChimeraX-Mol2: 2.0.3
    ChimeraX-Mole: 1.0
    ChimeraX-Morph: 1.0.2
    ChimeraX-MouseModes: 1.2
    ChimeraX-Movie: 1.0
    ChimeraX-MutationScores: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nifti: 1.2
    ChimeraX-NMRSTAR: 1.0.2
    ChimeraX-NRRD: 1.2
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.14
    ChimeraX-OrthoPick: 1.0.1
    ChimeraX-PDB: 2.7.6
    ChimeraX-PDBBio: 1.0.1
    ChimeraX-PDBLibrary: 1.0.4
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PickBlobs: 1.0.1
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.1.2
    ChimeraX-PubChem: 2.2
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.2
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.6.2
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.3.1
    ChimeraX-RNALayout: 1.0
    ChimeraX-RotamerLibMgr: 4.0
    ChimeraX-RotamerLibsDunbrack: 2.0
    ChimeraX-RotamerLibsDynameomics: 2.0
    ChimeraX-RotamerLibsRichardson: 2.0
    ChimeraX-SaveCommand: 1.5.1
    ChimeraX-SchemeMgr: 1.0
    ChimeraX-SDF: 2.0.2
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0.1
    ChimeraX-Segmentations: 3.3.0
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.14
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0.1
    ChimeraX-Shortcuts: 1.2.0
    ChimeraX-ShowSequences: 1.0.3
    ChimeraX-SideView: 1.0.1
    ChimeraX-SimilarStructures: 1.0.1
    ChimeraX-Smiles: 2.1.2
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.18.1
    ChimeraX-STL: 1.0.1
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.2.1
    ChimeraX-Struts: 1.0.1
    ChimeraX-Surface: 1.0.1
    ChimeraX-SwapAA: 2.0.1
    ChimeraX-SwapRes: 2.5
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-TaskManager: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.2.3
    ChimeraX-ToolshedUtils: 1.2.4
    ChimeraX-Topography: 1.0
    ChimeraX-ToQuest: 1.0
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.41
    ChimeraX-Umap: 1.0
    ChimeraX-uniprot: 2.3.1
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.4.4
    ChimeraX-VIPERdb: 1.0
    ChimeraX-Vive: 1.1
    ChimeraX-VolumeMenu: 1.0.1
    ChimeraX-vrml: 1.0
    ChimeraX-VTK: 1.0
    ChimeraX-WavefrontOBJ: 1.0
    ChimeraX-WebCam: 1.0.2
    ChimeraX-WebServices: 1.1.4
    ChimeraX-XMAS: 1.1.3
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.6
    comm: 0.2.2
    comtypes: 1.4.5
    contourpy: 1.3.1
    cxservices: 1.2.3
    cycler: 0.12.1
    Cython: 3.0.10
    debugpy: 1.8.9
    decorator: 5.1.1
    docutils: 0.21.2
    et_xmlfile: 2.0.0
    executing: 2.1.0
    filelock: 3.15.4
    fonttools: 4.55.0
    funcparserlib: 2.0.0a0
    glfw: 2.8.0
    grako: 3.16.5
    h5py: 3.12.1
    html2text: 2024.2.26
    idna: 3.10
    ihm: 1.3
    imagecodecs: 2024.6.1
    imagesize: 1.4.1
    importlib_metadata: 8.0.0
    importlib_resources: 6.4.0
    inflect: 7.3.1
    ipykernel: 6.29.5
    ipython: 8.26.0
    ipywidgets: 8.1.5
    jaraco.context: 5.3.0
    jaraco.functools: 4.0.1
    jaraco.text: 3.12.1
    jedi: 0.19.1
    Jinja2: 3.1.4
    jupyter_client: 8.6.2
    jupyter_core: 5.7.2
    jupyterlab_widgets: 3.0.13
    kiwisolver: 1.4.7
    line_profiler: 4.1.3
    lxml: 5.2.2
    lz4: 4.3.3
    MarkupSafe: 3.0.2
    matplotlib: 3.9.2
    matplotlib-inline: 0.1.7
    more-itertools: 10.3.0
    msgpack: 1.0.8
    ndindex: 1.9.2
    nest-asyncio: 1.6.0
    netCDF4: 1.6.5
    networkx: 3.3
    nibabel: 5.2.0
    nptyping: 2.5.0
    numexpr: 2.10.2
    numpy: 1.26.4
    openpyxl: 3.1.5
    openvr: 1.26.701
    ordered-set: 4.1.0
    packaging: 23.2
    packaging: 24.1
    pandas: 2.3.1
    ParmEd: 4.2.2
    parso: 0.8.4
    pep517: 0.13.1
    pillow: 10.4.0
    pip: 24.2
    pkginfo: 1.11.1
    platformdirs: 4.3.6
    platformdirs: 4.2.2
    prompt_toolkit: 3.0.48
    psutil: 6.0.0
    pure_eval: 0.2.3
    py-cpuinfo: 9.0.0
    pycollada: 0.8
    pydicom: 2.4.4
    pyelftools: 0.31
    Pygments: 2.18.0
    pynmrstar: 3.3.4
    pynrrd: 1.0.0
    PyOpenGL: 3.1.7
    PyOpenGL-accelerate: 3.1.7
    pyopenxr: 1.0.3401
    pyparsing: 3.2.0
    pyproject_hooks: 1.2.0
    PyQt6-commercial: 6.7.1
    PyQt6-Qt6: 6.7.3
    PyQt6-WebEngine-commercial: 6.7.0
    PyQt6-WebEngine-Qt6: 6.7.3
    PyQt6-WebEngineSubwheel-Qt6: 6.7.3
    PyQt6_sip: 13.8.0
    python-dateutil: 2.9.0.post0
    pytz: 2024.2
    pywin32: 306
    pyzmq: 26.2.0
    qtconsole: 5.5.2
    QtPy: 2.4.2
    QtRangeSlider: 0.1.5
    qtshim: 1.0
    RandomWords: 0.4.0
    requests: 2.32.3
    scipy: 1.14.0
    seaborn: 0.13.2
    setuptools: 72.1.0
    sfftk-rw: 0.8.1
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    soupsieve: 2.6
    Sphinx: 8.0.2
    sphinx-autodoc-typehints: 2.2.3
    sphinxcontrib-applehelp: 2.0.0
    sphinxcontrib-blockdiag: 3.0.0
    sphinxcontrib-devhelp: 2.0.0
    sphinxcontrib-htmlhelp: 2.1.0
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 2.0.0
    sphinxcontrib-serializinghtml: 2.0.0
    stack-data: 0.6.3
    superqt: 0.6.3
    tables: 3.10.1
    tcia_utils: 1.5.1
    tifffile: 2024.7.24
    tinyarray: 1.2.4
    tomli: 2.0.1
    tornado: 6.4.2
    traitlets: 5.14.3
    typeguard: 4.3.0
    typing_extensions: 4.12.2
    typing_extensions: 4.12.2
    tzdata: 2024.2
    urllib3: 2.2.3
    wcwidth: 0.2.13
    webcolors: 24.6.0
    wheel: 0.43.0
    wheel: 0.43.0
    wheel-filename: 1.4.1
    widgetsnbextension: 4.0.13
    WMI: 1.5.1
    zipp: 3.19.2