id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 8300 Didn't find section 'Peptide bond' in tab 'ISOLDE' stjiafle@… Tristan Croll "{{{ The following bug report has been submitted: Platform: Windows-10-10.0.22000 ChimeraX Version: 1.5 (2022-11-24 00:03:27 UTC) Description it was a sel #1/c-h command Log: Startup Messages --- note | available bundle cache has not been initialized yet UCSF ChimeraX version: 1.5 (2022-11-24) © 2016-2022 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open C:\Users\yayin\Downloads\7ugu.pdb format pdb 7ugu.pdb title: Structure of enolase from streptococcus pyogenes [more info...] Chain information for 7ugu.pdb #1 --- Chain | Description | UniProt A B C D E F G H | enolase | A3F8V6_STRPY > select #1/a,b 13188 atoms, 13294 bonds, 872 residues, 1 model selected > interfaces select & ~solvent Missing or invalid ""atoms"" argument: invalid atoms specifier > toolshed show Downloading bundle SEQCROW-1.5.10-py3-none-any.whl [Repeated 1 time(s)] Errors may have occurred when running pip: pip standard error: \--- [notice] A new release of pip available: 22.2.2 -> 22.3.1 [notice] To update, run: C:\Program Files\ChimeraX\bin\ChimeraX.exe -m pip install --upgrade pip \--- pip standard output: \--- Looking in indexes: https://pypi.org/simple, https://cxtoolshed.rbvi.ucsf.edu/pypi/ Processing c:\users\yayin\downloads\seqcrow-1.5.10-py3-none-any.whl Requirement already satisfied: scipy in c:\program files\chimerax\bin\lib\site-packages (from SEQCROW==1.5.10) (1.9.0) Requirement already satisfied: ChimeraX-Core<=1.6,>=1.2 in c:\program files\chimerax\bin\lib\site-packages (from SEQCROW==1.5.10) (1.5) Requirement already satisfied: psutil in c:\program files\chimerax\bin\lib\site-packages (from SEQCROW==1.5.10) (5.9.1) Requirement already satisfied: jinja2 in c:\program files\chimerax\bin\lib\site-packages (from SEQCROW==1.5.10) (3.1.2) Collecting Send2Trash Using cached Send2Trash-1.8.0-py3-none-any.whl (18 kB) Requirement already satisfied: MarkupSafe>=2.0 in c:\program files\chimerax\bin\lib\site-packages (from jinja2->SEQCROW==1.5.10) (2.1.1) Requirement already satisfied: numpy<1.25.0,>=1.18.5 in c:\program files\chimerax\bin\lib\site-packages (from scipy->SEQCROW==1.5.10) (1.23.1) Installing collected packages: Send2Trash, SEQCROW Successfully installed SEQCROW-1.5.10 Send2Trash-1.8.0 \--- Successfully installed SEQCROW-1.5.10 Send2Trash-1.8.0 Installed SEQCROW (1.5.10) Downloading bundle ChimeraX_StrudelScore-0.2-py3-none-any.whl Errors may have occurred when running pip: pip standard error: \--- [notice] A new release of pip available: 22.2.2 -> 22.3.1 [notice] To update, run: C:\Program Files\ChimeraX\bin\ChimeraX.exe -m pip install --upgrade pip \--- pip standard output: \--- Looking in indexes: https://pypi.org/simple, https://cxtoolshed.rbvi.ucsf.edu/pypi/ Processing c:\users\yayin\downloads\chimerax_strudelscore-0.2-py3-none-any.whl Collecting ChimeraX-Clipper>=0.15.0 Downloading https://cxtoolshed.rbvi.ucsf.edu/media/chimeraxclipper/releases/0.19.0/ChimeraX_Clipper-0.19.0-cp39-cp39-win_amd64.whl (7.4 MB) \---------------------------------------- 7.4/7.4 MB 4.0 MB/s eta 0:00:00 Collecting biopython>=1.77 Downloading biopython-1.80-cp39-cp39-win_amd64.whl (2.7 MB) \---------------------------------------- 2.7/2.7 MB 10.8 MB/s eta 0:00:00 Collecting ChimeraX-ISOLDE>=1.2 Downloading https://cxtoolshed.rbvi.ucsf.edu/media/chimeraxisolde/releases/1.5/ChimeraX_ISOLDE-1.5-cp39-cp39-win_amd64.whl (90.9 MB) \---------------------------------------- 90.9/90.9 MB 6.9 MB/s eta 0:00:00 Collecting pandas>=0.24 Downloading pandas-1.5.2-cp39-cp39-win_amd64.whl (10.9 MB) \--------------------------------------- 10.9/10.9 MB 11.1 MB/s eta 0:00:00 Requirement already satisfied: ChimeraX-Core<1.6 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-StrudelScore==0.2) (1.5) Collecting mrcfile>=1.1 Downloading mrcfile-1.4.3-py2.py3-none-any.whl (43 kB) \---------------------------------------- 43.9/43.9 kB ? eta 0:00:00 Collecting threed-strudel>0.9 Downloading threed_strudel-0.9.18-py3-none-any.whl (7.1 MB) \---------------------------------------- 7.1/7.1 MB 12.2 MB/s eta 0:00:00 Collecting recordtype>=1.3 Downloading recordtype-1.4-py2.py3-none-any.whl (13 kB) Requirement already satisfied: numpy in c:\program files\chimerax\bin\lib\site-packages (from biopython>=1.77->ChimeraX- StrudelScore==0.2) (1.23.1) Requirement already satisfied: ChimeraX-AtomicLibrary~=8.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Clipper>=0.15.0->ChimeraX- StrudelScore==0.2) (8.0.3) Requirement already satisfied: ChimeraX-Arrays~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Clipper>=0.15.0->ChimeraX- StrudelScore==0.2) (1.0) Requirement already satisfied: ChimeraX-Atomic~=1.36 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Clipper>=0.15.0->ChimeraX- StrudelScore==0.2) (1.41.5) Requirement already satisfied: pytz>=2020.1 in c:\program files\chimerax\bin\lib\site-packages (from pandas>=0.24->ChimeraX- StrudelScore==0.2) (2022.6) Requirement already satisfied: python-dateutil>=2.8.1 in c:\program files\chimerax\bin\lib\site-packages (from pandas>=0.24->ChimeraX- StrudelScore==0.2) (2.8.2) Requirement already satisfied: six in c:\program files\chimerax\bin\lib\site- packages (from recordtype>=1.3->ChimeraX-StrudelScore==0.2) (1.16.0) Requirement already satisfied: scipy in c:\program files\chimerax\bin\lib\site-packages (from threed-strudel>0.9->ChimeraX- StrudelScore==0.2) (1.9.0) Requirement already satisfied: psutil in c:\program files\chimerax\bin\lib\site-packages (from threed-strudel>0.9->ChimeraX- StrudelScore==0.2) (5.9.1) Requirement already satisfied: ChimeraX-ConnectStructure~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic~=1.36->ChimeraX- Clipper>=0.15.0->ChimeraX-StrudelScore==0.2) (2.0.1) Requirement already satisfied: ChimeraX-PDBLibrary~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic~=1.36->ChimeraX- Clipper>=0.15.0->ChimeraX-StrudelScore==0.2) (1.0.2) Requirement already satisfied: ChimeraX-Nucleotides~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic~=1.36->ChimeraX- Clipper>=0.15.0->ChimeraX-StrudelScore==0.2) (2.0.3) Requirement already satisfied: ChimeraX-Graphics~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic~=1.36->ChimeraX- Clipper>=0.15.0->ChimeraX-StrudelScore==0.2) (1.1) Requirement already satisfied: ChimeraX-PDB~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic~=1.36->ChimeraX- Clipper>=0.15.0->ChimeraX-StrudelScore==0.2) (2.6.8) Requirement already satisfied: ChimeraX-mmCIF~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic~=1.36->ChimeraX- Clipper>=0.15.0->ChimeraX-StrudelScore==0.2) (2.8) Requirement already satisfied: ChimeraX-Geometry~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic~=1.36->ChimeraX- Clipper>=0.15.0->ChimeraX-StrudelScore==0.2) (1.2) Requirement already satisfied: ChimeraX-SaveCommand~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-mmCIF~=2.0->ChimeraX- Atomic~=1.36->ChimeraX-Clipper>=0.15.0->ChimeraX-StrudelScore==0.2) (1.5.1) Requirement already satisfied: ChimeraX-OpenCommand~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-mmCIF~=2.0->ChimeraX- Atomic~=1.36->ChimeraX-Clipper>=0.15.0->ChimeraX-StrudelScore==0.2) (1.9.1) Requirement already satisfied: ChimeraX-DataFormats~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-mmCIF~=2.0->ChimeraX- Atomic~=1.36->ChimeraX-Clipper>=0.15.0->ChimeraX-StrudelScore==0.2) (1.2.2) Requirement already satisfied: ChimeraX-UI~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- Nucleotides~=2.0->ChimeraX-Atomic~=1.36->ChimeraX-Clipper>=0.15.0->ChimeraX- StrudelScore==0.2) (1.24.3) Requirement already satisfied: ChimeraX-Surface~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- Nucleotides~=2.0->ChimeraX-Atomic~=1.36->ChimeraX-Clipper>=0.15.0->ChimeraX- StrudelScore==0.2) (1.0) Requirement already satisfied: ChimeraX-IO~=1.0.1 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-PDB~=2.0->ChimeraX- Atomic~=1.36->ChimeraX-Clipper>=0.15.0->ChimeraX-StrudelScore==0.2) (1.0.1) Requirement already satisfied: ChimeraX-StdCommands~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Surface~=1.0->ChimeraX- Nucleotides~=2.0->ChimeraX-Atomic~=1.36->ChimeraX-Clipper>=0.15.0->ChimeraX- StrudelScore==0.2) (1.10) Requirement already satisfied: ChimeraX-Map~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Surface~=1.0->ChimeraX- Nucleotides~=2.0->ChimeraX-Atomic~=1.36->ChimeraX-Clipper>=0.15.0->ChimeraX- StrudelScore==0.2) (1.1.2) Requirement already satisfied: ChimeraX-MapData~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Surface~=1.0->ChimeraX- Nucleotides~=2.0->ChimeraX-Atomic~=1.36->ChimeraX-Clipper>=0.15.0->ChimeraX- StrudelScore==0.2) (2.0) Requirement already satisfied: ChimeraX-SelInspector~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-UI~=1.0->ChimeraX- Nucleotides~=2.0->ChimeraX-Atomic~=1.36->ChimeraX-Clipper>=0.15.0->ChimeraX- StrudelScore==0.2) (1.0) Requirement already satisfied: ChimeraX-MouseModes~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-UI~=1.0->ChimeraX- Nucleotides~=2.0->ChimeraX-Atomic~=1.36->ChimeraX-Clipper>=0.15.0->ChimeraX- StrudelScore==0.2) (1.1.1) Requirement already satisfied: ChimeraX-MapSeries~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Map~=1.0->ChimeraX- Surface~=1.0->ChimeraX-Nucleotides~=2.0->ChimeraX-Atomic~=1.36->ChimeraX- Clipper>=0.15.0->ChimeraX-StrudelScore==0.2) (2.1.1) Requirement already satisfied: ChimeraX-MapFilter~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Map~=1.0->ChimeraX- Surface~=1.0->ChimeraX-Nucleotides~=2.0->ChimeraX-Atomic~=1.36->ChimeraX- Clipper>=0.15.0->ChimeraX-StrudelScore==0.2) (2.0) Requirement already satisfied: ChimeraX-ItemsInspection~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- SelInspector~=1.0->ChimeraX-UI~=1.0->ChimeraX-Nucleotides~=2.0->ChimeraX- Atomic~=1.36->ChimeraX-Clipper>=0.15.0->ChimeraX-StrudelScore==0.2) (1.0.1) Requirement already satisfied: ChimeraX-MapFit~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- StdCommands~=1.0->ChimeraX-Surface~=1.0->ChimeraX-Nucleotides~=2.0->ChimeraX- Atomic~=1.36->ChimeraX-Clipper>=0.15.0->ChimeraX-StrudelScore==0.2) (2.0) Requirement already satisfied: ChimeraX-Dssp~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- StdCommands~=1.0->ChimeraX-Surface~=1.0->ChimeraX-Nucleotides~=2.0->ChimeraX- Atomic~=1.36->ChimeraX-Clipper>=0.15.0->ChimeraX-StrudelScore==0.2) (2.0) Requirement already satisfied: ChimeraX-DistMonitor~=1.2 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- StdCommands~=1.0->ChimeraX-Surface~=1.0->ChimeraX-Nucleotides~=2.0->ChimeraX- Atomic~=1.36->ChimeraX-Clipper>=0.15.0->ChimeraX-StrudelScore==0.2) (1.3) Installing collected packages: recordtype, mrcfile, biopython, threed-strudel, pandas, ChimeraX-Clipper, ChimeraX-ISOLDE, ChimeraX-StrudelScore Successfully installed ChimeraX-Clipper-0.19.0 ChimeraX-ISOLDE-1.5 ChimeraX- StrudelScore-0.2 biopython-1.80 mrcfile-1.4.3 pandas-1.5.2 recordtype-1.4 threed-strudel-0.9.18 \--- Successfully installed ChimeraX-Clipper-0.19.0 ChimeraX-ISOLDE-1.5 ChimeraX- StrudelScore-0.2 biopython-1.80 mrcfile-1.4.3 pandas-1.5.2 recordtype-1.4 threed-strudel-0.9.18 Installed ChimeraX-Clipper (0.19.0) Installed ChimeraX-ISOLDE (1.5) Installed ChimeraX-StrudelScore (0.2) Downloading bundle ChimeraX_RMF-0.11-cp39-cp39-win_amd64.whl Errors may have occurred when running pip: pip standard error: \--- [notice] A new release of pip available: 22.2.2 -> 22.3.1 [notice] To update, run: C:\Program Files\ChimeraX\bin\ChimeraX.exe -m pip install --upgrade pip \--- pip standard output: \--- Looking in indexes: https://pypi.org/simple, https://cxtoolshed.rbvi.ucsf.edu/pypi/ Processing c:\users\yayin\downloads\chimerax_rmf-0.11-cp39-cp39-win_amd64.whl Requirement already satisfied: ChimeraX-Core>=1.3 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-RMF==0.11) (1.5) Requirement already satisfied: ChimeraX-Atomic>=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-RMF==0.11) (1.41.5) Requirement already satisfied: ChimeraX-UI>=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-RMF==0.11) (1.24.3) Requirement already satisfied: ChimeraX-Nucleotides~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic>=1.0->ChimeraX- RMF==0.11) (2.0.3) Requirement already satisfied: ChimeraX-Arrays~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic>=1.0->ChimeraX- RMF==0.11) (1.0) Requirement already satisfied: ChimeraX-AtomicLibrary~=8.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic>=1.0->ChimeraX- RMF==0.11) (8.0.3) Requirement already satisfied: ChimeraX-PDBLibrary~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic>=1.0->ChimeraX- RMF==0.11) (1.0.2) Requirement already satisfied: ChimeraX-PDB~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic>=1.0->ChimeraX- RMF==0.11) (2.6.8) Requirement already satisfied: ChimeraX-ConnectStructure~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic>=1.0->ChimeraX- RMF==0.11) (2.0.1) Requirement already satisfied: ChimeraX-Geometry~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic>=1.0->ChimeraX- RMF==0.11) (1.2) Requirement already satisfied: ChimeraX-mmCIF~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic>=1.0->ChimeraX- RMF==0.11) (2.8) Requirement already satisfied: ChimeraX-Graphics~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic>=1.0->ChimeraX- RMF==0.11) (1.1) Requirement already satisfied: ChimeraX-SelInspector~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-UI>=1.0->ChimeraX- RMF==0.11) (1.0) Requirement already satisfied: ChimeraX-MouseModes~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-UI>=1.0->ChimeraX- RMF==0.11) (1.1.1) Requirement already satisfied: ChimeraX-SaveCommand~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-mmCIF~=2.0->ChimeraX- Atomic>=1.0->ChimeraX-RMF==0.11) (1.5.1) Requirement already satisfied: ChimeraX-OpenCommand~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-mmCIF~=2.0->ChimeraX- Atomic>=1.0->ChimeraX-RMF==0.11) (1.9.1) Requirement already satisfied: ChimeraX-DataFormats~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-mmCIF~=2.0->ChimeraX- Atomic>=1.0->ChimeraX-RMF==0.11) (1.2.2) Requirement already satisfied: ChimeraX-Surface~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- Nucleotides~=2.0->ChimeraX-Atomic>=1.0->ChimeraX-RMF==0.11) (1.0) Requirement already satisfied: ChimeraX-IO~=1.0.1 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-PDB~=2.0->ChimeraX- Atomic>=1.0->ChimeraX-RMF==0.11) (1.0.1) Requirement already satisfied: ChimeraX-ItemsInspection~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- SelInspector~=1.0->ChimeraX-UI>=1.0->ChimeraX-RMF==0.11) (1.0.1) Requirement already satisfied: ChimeraX-Map~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Surface~=1.0->ChimeraX- Nucleotides~=2.0->ChimeraX-Atomic>=1.0->ChimeraX-RMF==0.11) (1.1.2) Requirement already satisfied: ChimeraX-MapData~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Surface~=1.0->ChimeraX- Nucleotides~=2.0->ChimeraX-Atomic>=1.0->ChimeraX-RMF==0.11) (2.0) Requirement already satisfied: ChimeraX-StdCommands~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Surface~=1.0->ChimeraX- Nucleotides~=2.0->ChimeraX-Atomic>=1.0->ChimeraX-RMF==0.11) (1.10) Requirement already satisfied: ChimeraX-MapSeries~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Map~=1.0->ChimeraX- Surface~=1.0->ChimeraX-Nucleotides~=2.0->ChimeraX-Atomic>=1.0->ChimeraX- RMF==0.11) (2.1.1) Requirement already satisfied: ChimeraX-MapFilter~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Map~=1.0->ChimeraX- Surface~=1.0->ChimeraX-Nucleotides~=2.0->ChimeraX-Atomic>=1.0->ChimeraX- RMF==0.11) (2.0) Requirement already satisfied: ChimeraX-Dssp~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- StdCommands~=1.0->ChimeraX-Surface~=1.0->ChimeraX-Nucleotides~=2.0->ChimeraX- Atomic>=1.0->ChimeraX-RMF==0.11) (2.0) Requirement already satisfied: ChimeraX-MapFit~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- StdCommands~=1.0->ChimeraX-Surface~=1.0->ChimeraX-Nucleotides~=2.0->ChimeraX- Atomic>=1.0->ChimeraX-RMF==0.11) (2.0) Requirement already satisfied: ChimeraX-DistMonitor~=1.2 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- StdCommands~=1.0->ChimeraX-Surface~=1.0->ChimeraX-Nucleotides~=2.0->ChimeraX- Atomic>=1.0->ChimeraX-RMF==0.11) (1.3) Installing collected packages: ChimeraX-RMF Successfully installed ChimeraX-RMF-0.11 \--- Successfully installed ChimeraX-RMF-0.11 Installed ChimeraX-RMF (0.11) Downloading bundle ChimeraX_XMAS-1.1.2-py3-none-any.whl Errors may have occurred when running pip: pip standard error: \--- [notice] A new release of pip available: 22.2.2 -> 22.3.1 [notice] To update, run: C:\Program Files\ChimeraX\bin\ChimeraX.exe -m pip install --upgrade pip \--- pip standard output: \--- Looking in indexes: https://pypi.org/simple, https://cxtoolshed.rbvi.ucsf.edu/pypi/ Processing c:\users\yayin\downloads\chimerax_xmas-1.1.2-py3-none-any.whl Collecting seaborn Downloading seaborn-0.12.2-py3-none-any.whl (293 kB) \-------------------------------------- 293.3/293.3 kB 4.5 MB/s eta 0:00:00 Collecting openpyxl Downloading openpyxl-3.0.10-py2.py3-none-any.whl (242 kB) \-------------------------------------- 242.1/242.1 kB 7.5 MB/s eta 0:00:00 Collecting qtrangeslider Downloading QtRangeSlider-0.1.5-py3-none-any.whl (33 kB) Requirement already satisfied: ChimeraX-Core~=1.3 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-XMAS==1.1.2) (1.5) Requirement already satisfied: pandas in c:\users\yayin\appdata\local\ucsf\chimerax\1.5\site-packages (from ChimeraX- XMAS==1.1.2) (1.5.2) Requirement already satisfied: ChimeraX-UI~=1.3 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-XMAS==1.1.2) (1.24.3) Requirement already satisfied: ChimeraX-Graphics~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-UI~=1.3->ChimeraX- XMAS==1.1.2) (1.1) Requirement already satisfied: ChimeraX-SelInspector~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-UI~=1.3->ChimeraX- XMAS==1.1.2) (1.0) Requirement already satisfied: ChimeraX-MouseModes~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-UI~=1.3->ChimeraX- XMAS==1.1.2) (1.1.1) Collecting et-xmlfile Downloading et_xmlfile-1.1.0-py3-none-any.whl (4.7 kB) Requirement already satisfied: python-dateutil>=2.8.1 in c:\program files\chimerax\bin\lib\site-packages (from pandas->ChimeraX-XMAS==1.1.2) (2.8.2) Requirement already satisfied: pytz>=2020.1 in c:\program files\chimerax\bin\lib\site-packages (from pandas->ChimeraX-XMAS==1.1.2) (2022.6) Requirement already satisfied: numpy>=1.20.3 in c:\program files\chimerax\bin\lib\site-packages (from pandas->ChimeraX-XMAS==1.1.2) (1.23.1) Requirement already satisfied: matplotlib!=3.6.1,>=3.1 in c:\program files\chimerax\bin\lib\site-packages (from seaborn->ChimeraX-XMAS==1.1.2) (3.5.2) Requirement already satisfied: ChimeraX-Arrays~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Graphics~=1.0->ChimeraX- UI~=1.3->ChimeraX-XMAS==1.1.2) (1.0) Requirement already satisfied: ChimeraX-Geometry~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Graphics~=1.0->ChimeraX- UI~=1.3->ChimeraX-XMAS==1.1.2) (1.2) Requirement already satisfied: ChimeraX-ItemsInspection~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- SelInspector~=1.0->ChimeraX-UI~=1.3->ChimeraX-XMAS==1.1.2) (1.0.1) Requirement already satisfied: pyparsing>=2.2.1 in c:\program files\chimerax\bin\lib\site-packages (from matplotlib!=3.6.1,>=3.1->seaborn->ChimeraX-XMAS==1.1.2) (3.0.9) Requirement already satisfied: fonttools>=4.22.0 in c:\program files\chimerax\bin\lib\site-packages (from matplotlib!=3.6.1,>=3.1->seaborn->ChimeraX-XMAS==1.1.2) (4.38.0) Requirement already satisfied: cycler>=0.10 in c:\program files\chimerax\bin\lib\site-packages (from matplotlib!=3.6.1,>=3.1->seaborn->ChimeraX-XMAS==1.1.2) (0.11.0) Requirement already satisfied: pillow>=6.2.0 in c:\program files\chimerax\bin\lib\site-packages (from matplotlib!=3.6.1,>=3.1->seaborn->ChimeraX-XMAS==1.1.2) (9.2.0) Requirement already satisfied: packaging>=20.0 in c:\program files\chimerax\bin\lib\site-packages (from matplotlib!=3.6.1,>=3.1->seaborn->ChimeraX-XMAS==1.1.2) (21.3) Requirement already satisfied: kiwisolver>=1.0.1 in c:\program files\chimerax\bin\lib\site-packages (from matplotlib!=3.6.1,>=3.1->seaborn->ChimeraX-XMAS==1.1.2) (1.4.4) Requirement already satisfied: six>=1.5 in c:\program files\chimerax\bin\lib\site-packages (from python- dateutil>=2.8.1->pandas->ChimeraX-XMAS==1.1.2) (1.16.0) Installing collected packages: qtrangeslider, et-xmlfile, openpyxl, seaborn, ChimeraX-XMAS Successfully installed ChimeraX-XMAS-1.1.2 et-xmlfile-1.1.0 openpyxl-3.0.10 qtrangeslider-0.1.5 seaborn-0.12.2 \--- Successfully installed ChimeraX-XMAS-1.1.2 et-xmlfile-1.1.0 openpyxl-3.0.10 qtrangeslider-0.1.5 seaborn-0.12.2 Installed ChimeraX-XMAS (1.1.2) Downloading bundle ChimeraX_Phenix-0.3-py3-none-any.whl Errors may have occurred when running pip: pip standard error: \--- [notice] A new release of pip available: 22.2.2 -> 22.3.1 [notice] To update, run: C:\Program Files\ChimeraX\bin\ChimeraX.exe -m pip install --upgrade pip \--- pip standard output: \--- Looking in indexes: https://pypi.org/simple, https://cxtoolshed.rbvi.ucsf.edu/pypi/ Processing c:\users\yayin\downloads\chimerax_phenix-0.3-py3-none-any.whl Requirement already satisfied: ChimeraX-Atomic>=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Phenix==0.3) (1.41.5) Requirement already satisfied: ChimeraX-Core>=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Phenix==0.3) (1.5) Requirement already satisfied: ChimeraX-Geometry~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic>=1.0->ChimeraX- Phenix==0.3) (1.2) Requirement already satisfied: ChimeraX-mmCIF~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic>=1.0->ChimeraX- Phenix==0.3) (2.8) Requirement already satisfied: ChimeraX-Nucleotides~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic>=1.0->ChimeraX- Phenix==0.3) (2.0.3) Requirement already satisfied: ChimeraX-ConnectStructure~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic>=1.0->ChimeraX- Phenix==0.3) (2.0.1) Requirement already satisfied: ChimeraX-PDB~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic>=1.0->ChimeraX- Phenix==0.3) (2.6.8) Requirement already satisfied: ChimeraX-PDBLibrary~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic>=1.0->ChimeraX- Phenix==0.3) (1.0.2) Requirement already satisfied: ChimeraX-Graphics~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic>=1.0->ChimeraX- Phenix==0.3) (1.1) Requirement already satisfied: ChimeraX-AtomicLibrary~=8.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic>=1.0->ChimeraX- Phenix==0.3) (8.0.3) Requirement already satisfied: ChimeraX-Arrays~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic>=1.0->ChimeraX- Phenix==0.3) (1.0) Requirement already satisfied: ChimeraX-SaveCommand~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-mmCIF~=2.0->ChimeraX- Atomic>=1.0->ChimeraX-Phenix==0.3) (1.5.1) Requirement already satisfied: ChimeraX-OpenCommand~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-mmCIF~=2.0->ChimeraX- Atomic>=1.0->ChimeraX-Phenix==0.3) (1.9.1) Requirement already satisfied: ChimeraX-DataFormats~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-mmCIF~=2.0->ChimeraX- Atomic>=1.0->ChimeraX-Phenix==0.3) (1.2.2) Requirement already satisfied: ChimeraX-Surface~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- Nucleotides~=2.0->ChimeraX-Atomic>=1.0->ChimeraX-Phenix==0.3) (1.0) Requirement already satisfied: ChimeraX-UI~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- Nucleotides~=2.0->ChimeraX-Atomic>=1.0->ChimeraX-Phenix==0.3) (1.24.3) Requirement already satisfied: ChimeraX-IO~=1.0.1 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-PDB~=2.0->ChimeraX- Atomic>=1.0->ChimeraX-Phenix==0.3) (1.0.1) Requirement already satisfied: ChimeraX-StdCommands~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Surface~=1.0->ChimeraX- Nucleotides~=2.0->ChimeraX-Atomic>=1.0->ChimeraX-Phenix==0.3) (1.10) Requirement already satisfied: ChimeraX-MapData~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Surface~=1.0->ChimeraX- Nucleotides~=2.0->ChimeraX-Atomic>=1.0->ChimeraX-Phenix==0.3) (2.0) Requirement already satisfied: ChimeraX-Map~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Surface~=1.0->ChimeraX- Nucleotides~=2.0->ChimeraX-Atomic>=1.0->ChimeraX-Phenix==0.3) (1.1.2) Requirement already satisfied: ChimeraX-MouseModes~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-UI~=1.0->ChimeraX- Nucleotides~=2.0->ChimeraX-Atomic>=1.0->ChimeraX-Phenix==0.3) (1.1.1) Requirement already satisfied: ChimeraX-SelInspector~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-UI~=1.0->ChimeraX- Nucleotides~=2.0->ChimeraX-Atomic>=1.0->ChimeraX-Phenix==0.3) (1.0) Requirement already satisfied: ChimeraX-MapFilter~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Map~=1.0->ChimeraX- Surface~=1.0->ChimeraX-Nucleotides~=2.0->ChimeraX-Atomic>=1.0->ChimeraX- Phenix==0.3) (2.0) Requirement already satisfied: ChimeraX-MapSeries~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Map~=1.0->ChimeraX- Surface~=1.0->ChimeraX-Nucleotides~=2.0->ChimeraX-Atomic>=1.0->ChimeraX- Phenix==0.3) (2.1.1) Requirement already satisfied: ChimeraX-ItemsInspection~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- SelInspector~=1.0->ChimeraX-UI~=1.0->ChimeraX-Nucleotides~=2.0->ChimeraX- Atomic>=1.0->ChimeraX-Phenix==0.3) (1.0.1) Requirement already satisfied: ChimeraX-Dssp~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- StdCommands~=1.0->ChimeraX-Surface~=1.0->ChimeraX-Nucleotides~=2.0->ChimeraX- Atomic>=1.0->ChimeraX-Phenix==0.3) (2.0) Requirement already satisfied: ChimeraX-MapFit~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- StdCommands~=1.0->ChimeraX-Surface~=1.0->ChimeraX-Nucleotides~=2.0->ChimeraX- Atomic>=1.0->ChimeraX-Phenix==0.3) (2.0) Requirement already satisfied: ChimeraX-DistMonitor~=1.2 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- StdCommands~=1.0->ChimeraX-Surface~=1.0->ChimeraX-Nucleotides~=2.0->ChimeraX- Atomic>=1.0->ChimeraX-Phenix==0.3) (1.3) Installing collected packages: ChimeraX-Phenix Successfully installed ChimeraX-Phenix-0.3 \--- Successfully installed ChimeraX-Phenix-0.3 Installed ChimeraX-Phenix (0.3) Downloading bundle ChimeraX_PhenixUI-1.0.5-py3-none-any.whl Errors may have occurred when running pip: pip standard error: \--- [notice] A new release of pip available: 22.2.2 -> 22.3.1 [notice] To update, run: C:\Program Files\ChimeraX\bin\ChimeraX.exe -m pip install --upgrade pip \--- pip standard output: \--- Looking in indexes: https://pypi.org/simple, https://cxtoolshed.rbvi.ucsf.edu/pypi/ Processing c:\users\yayin\downloads\chimerax_phenixui-1.0.5-py3-none-any.whl Requirement already satisfied: ChimeraX-UI~=1.21 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-PhenixUI==1.0.5) (1.24.3) Requirement already satisfied: ChimeraX-MapData~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-PhenixUI==1.0.5) (2.0) Requirement already satisfied: ChimeraX-CheckWaters~=1.3 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-PhenixUI==1.0.5) (1.3) Requirement already satisfied: ChimeraX-PDB~=2.6 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-PhenixUI==1.0.5) (2.6.8) Requirement already satisfied: ChimeraX-Atomic~=1.32 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-PhenixUI==1.0.5) (1.41.5) Requirement already satisfied: ChimeraX-Core~=1.5dev1 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-PhenixUI==1.0.5) (1.5) Requirement already satisfied: ChimeraX-Graphics~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic~=1.32->ChimeraX- PhenixUI==1.0.5) (1.1) Requirement already satisfied: ChimeraX-Arrays~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic~=1.32->ChimeraX- PhenixUI==1.0.5) (1.0) Requirement already satisfied: ChimeraX-Geometry~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic~=1.32->ChimeraX- PhenixUI==1.0.5) (1.2) Requirement already satisfied: ChimeraX-Nucleotides~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic~=1.32->ChimeraX- PhenixUI==1.0.5) (2.0.3) Requirement already satisfied: ChimeraX-ConnectStructure~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic~=1.32->ChimeraX- PhenixUI==1.0.5) (2.0.1) Requirement already satisfied: ChimeraX-mmCIF~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic~=1.32->ChimeraX- PhenixUI==1.0.5) (2.8) Requirement already satisfied: ChimeraX-PDBLibrary~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic~=1.32->ChimeraX- PhenixUI==1.0.5) (1.0.2) Requirement already satisfied: ChimeraX-AtomicLibrary~=8.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Atomic~=1.32->ChimeraX- PhenixUI==1.0.5) (8.0.3) Requirement already satisfied: ChimeraX-HBonds~=2.3 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- CheckWaters~=1.3->ChimeraX-PhenixUI==1.0.5) (2.4) Requirement already satisfied: ChimeraX-DataFormats~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-MapData~=2.0->ChimeraX- PhenixUI==1.0.5) (1.2.2) Requirement already satisfied: ChimeraX-IO~=1.0.1 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-PDB~=2.6->ChimeraX- PhenixUI==1.0.5) (1.0.1) Requirement already satisfied: ChimeraX-SaveCommand~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-PDB~=2.6->ChimeraX- PhenixUI==1.0.5) (1.5.1) Requirement already satisfied: ChimeraX-OpenCommand~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-PDB~=2.6->ChimeraX- PhenixUI==1.0.5) (1.9.1) Requirement already satisfied: ChimeraX-MouseModes~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-UI~=1.21->ChimeraX- PhenixUI==1.0.5) (1.1.1) Requirement already satisfied: ChimeraX-SelInspector~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-UI~=1.21->ChimeraX- PhenixUI==1.0.5) (1.0) Requirement already satisfied: ChimeraX-AtomSearch~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-HBonds~=2.3->ChimeraX- CheckWaters~=1.3->ChimeraX-PhenixUI==1.0.5) (2.0.1) Requirement already satisfied: ChimeraX-ChemGroup~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-HBonds~=2.3->ChimeraX- CheckWaters~=1.3->ChimeraX-PhenixUI==1.0.5) (2.0) Requirement already satisfied: ChimeraX-Surface~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- Nucleotides~=2.0->ChimeraX-Atomic~=1.32->ChimeraX-PhenixUI==1.0.5) (1.0) Requirement already satisfied: ChimeraX-ItemsInspection~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- SelInspector~=1.0->ChimeraX-UI~=1.21->ChimeraX-PhenixUI==1.0.5) (1.0.1) Requirement already satisfied: ChimeraX-StdCommands~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Surface~=1.0->ChimeraX- Nucleotides~=2.0->ChimeraX-Atomic~=1.32->ChimeraX-PhenixUI==1.0.5) (1.10) Requirement already satisfied: ChimeraX-Map~=1.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Surface~=1.0->ChimeraX- Nucleotides~=2.0->ChimeraX-Atomic~=1.32->ChimeraX-PhenixUI==1.0.5) (1.1.2) Requirement already satisfied: ChimeraX-MapFilter~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Map~=1.0->ChimeraX- Surface~=1.0->ChimeraX-Nucleotides~=2.0->ChimeraX-Atomic~=1.32->ChimeraX- PhenixUI==1.0.5) (2.0) Requirement already satisfied: ChimeraX-MapSeries~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX-Map~=1.0->ChimeraX- Surface~=1.0->ChimeraX-Nucleotides~=2.0->ChimeraX-Atomic~=1.32->ChimeraX- PhenixUI==1.0.5) (2.1.1) Requirement already satisfied: ChimeraX-DistMonitor~=1.2 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- StdCommands~=1.0->ChimeraX-Surface~=1.0->ChimeraX-Nucleotides~=2.0->ChimeraX- Atomic~=1.32->ChimeraX-PhenixUI==1.0.5) (1.3) Requirement already satisfied: ChimeraX-Dssp~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- StdCommands~=1.0->ChimeraX-Surface~=1.0->ChimeraX-Nucleotides~=2.0->ChimeraX- Atomic~=1.32->ChimeraX-PhenixUI==1.0.5) (2.0) Requirement already satisfied: ChimeraX-MapFit~=2.0 in c:\program files\chimerax\bin\lib\site-packages (from ChimeraX- StdCommands~=1.0->ChimeraX-Surface~=1.0->ChimeraX-Nucleotides~=2.0->ChimeraX- Atomic~=1.32->ChimeraX-PhenixUI==1.0.5) (2.0) Installing collected packages: ChimeraX-PhenixUI Successfully installed ChimeraX-PhenixUI-1.0.5 \--- Successfully installed ChimeraX-PhenixUI-1.0.5 Installed ChimeraX-PhenixUI (1.0.5) > interfaces select & ~solvent Missing or invalid ""atoms"" argument: invalid atoms specifier > interfaces select #1/a,b Missing required ""contacting"" argument > interfaces select #1/a,b Missing required ""contacting"" argument > interfaces select & ~solvent #1/a,b Missing or invalid ""atoms"" argument: invalid atoms specifier > select c-h Expected an objects specifier or a keyword > select #1/c-h 39564 atoms, 39882 bonds, 2616 residues, 1 model selected Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\triggerset.py"", line 134, in invoke return self._func(self._name, data) File ""C:\Users\yayin\AppData\Local\UCSF\ChimeraX\1.5\site- packages\chimerax\isolde\toolbar.py"", line 299, in _selection_changed_cb self._enable_if_single_peptide_selected_cb() File ""C:\Users\yayin\AppData\Local\UCSF\ChimeraX\1.5\site- packages\chimerax\isolde\toolbar.py"", line 285, in _enable_if_single_peptide_selected_cb self.set_enabled(key, enable) File ""C:\Users\yayin\AppData\Local\UCSF\ChimeraX\1.5\site- packages\chimerax\isolde\toolbar.py"", line 113, in set_enabled self.session.toolbar.set_enabled(enabled, tab, section, display_name) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\toolbar\manager.py"", line 164, in set_enabled tb.set_enabled(enabled, tab_title, section_title, button_title) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\toolbar\tool.py"", line 246, in set_enabled self.ttb.set_enabled(enabled, tab_title, section_title, button_title) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\ui\widgets\tabbedtoolbar.py"", line 496, in set_enabled raise ValueError(f""Didn't find section '{section_title}' in tab '{tab_title}'"") ValueError: Didn't find section 'Peptide bond' in tab 'ISOLDE' Error processing trigger ""selection changed"": ValueError: Didn't find section 'Peptide bond' in tab 'ISOLDE' File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\ui\widgets\tabbedtoolbar.py"", line 496, in set_enabled raise ValueError(f""Didn't find section '{section_title}' in tab '{tab_title}'"") See log for complete Python traceback. OpenGL version: 3.3.0 - Build 27.20.100.8853 OpenGL renderer: Intel(R) Iris(R) Plus Graphics OpenGL vendor: Intel Python: 3.9.11 Locale: en_US.cp1252 Qt version: PyQt6 6.3.1, Qt 6.3.1 Qt runtime version: 6.3.2 Qt platform: windows Manufacturer: SAMSUNG ELECTRONICS CO., LTD. Model: 950QCG OS: Microsoft Windows 11 Home (Build 22000) Memory: 12,635,295,744 MaxProcessMemory: 137,438,953,344 CPU: 8 Intel(R) Core(TM) i7-1065G7 CPU @ 1.30GHz OSLanguage: en-US Installed Packages: alabaster: 0.7.12 appdirs: 1.4.4 asttokens: 2.1.0 Babel: 2.11.0 backcall: 0.2.0 biopython: 1.80 blockdiag: 3.0.0 build: 0.8.0 certifi: 2022.9.24 cftime: 1.6.2 charset-normalizer: 2.1.1 ChimeraX-AddCharge: 1.4 ChimeraX-AddH: 2.2.1 ChimeraX-AlignmentAlgorithms: 2.0 ChimeraX-AlignmentHdrs: 3.2.1 ChimeraX-AlignmentMatrices: 2.0 ChimeraX-Alignments: 2.6 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.0.3 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.0 ChimeraX-Atomic: 1.41.5 ChimeraX-AtomicLibrary: 8.0.3 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.3 ChimeraX-BasicActions: 1.1.2 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 2.1.2 ChimeraX-BondRot: 2.0.1 ChimeraX-BugReporter: 1.0.1 ChimeraX-BuildStructure: 2.7.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.2 ChimeraX-ButtonPanel: 1.0.1 ChimeraX-CageBuilder: 1.0.1 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.3.1 ChimeraX-ChangeChains: 1.0.2 ChimeraX-CheckWaters: 1.3 ChimeraX-ChemGroup: 2.0 ChimeraX-Clashes: 2.2.4 ChimeraX-Clipper: 0.19.0 ChimeraX-ColorActions: 1.0.3 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.2 ChimeraX-CommandLine: 1.2.4 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.5 ChimeraX-CoreFormats: 1.1 ChimeraX-coulombic: 1.3.2 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0.1 ChimeraX-DataFormats: 1.2.2 ChimeraX-Dicom: 1.1 ChimeraX-DistMonitor: 1.3 ChimeraX-DockPrep: 1.0 ChimeraX-Dssp: 2.0 ChimeraX-EMDB-SFF: 1.0 ChimeraX-ExperimentalCommands: 1.0 ChimeraX-FileHistory: 1.0.1 ChimeraX-FunctionKey: 1.0.1 ChimeraX-Geometry: 1.2 ChimeraX-gltf: 1.0 ChimeraX-Graphics: 1.1 ChimeraX-Hbonds: 2.4 ChimeraX-Help: 1.2.1 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.1 ChimeraX-ImageFormats: 1.2 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.1 ChimeraX-ISOLDE: 1.5 ChimeraX-ItemsInspection: 1.0.1 ChimeraX-Label: 1.1.7 ChimeraX-ListInfo: 1.1.1 ChimeraX-Log: 1.1.5 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.8.2 ChimeraX-Map: 1.1.2 ChimeraX-MapData: 2.0 ChimeraX-MapEraser: 1.0.1 ChimeraX-MapFilter: 2.0 ChimeraX-MapFit: 2.0 ChimeraX-MapSeries: 2.1.1 ChimeraX-Markers: 1.0.1 ChimeraX-Mask: 1.0.1 ChimeraX-MatchMaker: 2.0.9 ChimeraX-MDcrds: 2.6 ChimeraX-MedicalToolbar: 1.0.2 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1 ChimeraX-mmCIF: 2.8 ChimeraX-MMTF: 2.2 ChimeraX-Modeller: 1.5.6 ChimeraX-ModelPanel: 1.3.6 ChimeraX-ModelSeries: 1.0.1 ChimeraX-Mol2: 2.0 ChimeraX-Mole: 1.0 ChimeraX-Morph: 1.0.1 ChimeraX-MouseModes: 1.1.1 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.9.1 ChimeraX-PDB: 2.6.8 ChimeraX-PDBBio: 1.0 ChimeraX-PDBLibrary: 1.0.2 ChimeraX-PDBMatrices: 1.0 ChimeraX-Phenix: 0.3 ChimeraX-PhenixUI: 1.0.5 ChimeraX-PickBlobs: 1.0.1 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.1 ChimeraX-PubChem: 2.1 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.1 ChimeraX-RemoteControl: 1.0 ChimeraX-RenumberResidues: 1.1 ChimeraX-ResidueFit: 1.0.1 ChimeraX-RestServer: 1.1 ChimeraX-RMF: 0.11 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 2.0.1 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 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.7.2 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.1.1 ChimeraX-ShowSequences: 1.0.1 ChimeraX-SideView: 1.0.1 ChimeraX-Smiles: 2.1 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.10 ChimeraX-STL: 1.0 ChimeraX-Storm: 1.0 ChimeraX-StructMeasure: 1.1 ChimeraX-StrudelScore: 0.2 ChimeraX-Struts: 1.0.1 ChimeraX-Surface: 1.0 ChimeraX-SwapAA: 2.0.1 ChimeraX-SwapRes: 2.1.3 ChimeraX-TapeMeasure: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.1.2 ChimeraX-ToolshedUtils: 1.2.1 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.24.3 ChimeraX-uniprot: 2.2.1 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.1.4 ChimeraX-VIPERdb: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0.1 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0.1 ChimeraX-WebServices: 1.1.0 ChimeraX-XMAS: 1.1.2 ChimeraX-Zone: 1.0.1 colorama: 0.4.5 comtypes: 1.1.10 cxservices: 1.2 cycler: 0.11.0 Cython: 0.29.32 debugpy: 1.6.4 decorator: 5.1.1 docutils: 0.19 entrypoints: 0.4 et-xmlfile: 1.1.0 executing: 1.2.0 filelock: 3.7.1 fonttools: 4.38.0 funcparserlib: 1.0.1 grako: 3.16.5 h5py: 3.7.0 html2text: 2020.1.16 idna: 3.4 ihm: 0.33 imagecodecs: 2022.7.31 imagesize: 1.4.1 importlib-metadata: 5.1.0 ipykernel: 6.15.3 ipython: 8.4.0 ipython-genutils: 0.2.0 jedi: 0.18.1 Jinja2: 3.1.2 jupyter-client: 7.3.4 jupyter-core: 5.1.0 kiwisolver: 1.4.4 line-profiler: 3.5.1 lxml: 4.9.1 lz4: 4.0.2 MarkupSafe: 2.1.1 matplotlib: 3.5.2 matplotlib-inline: 0.1.6 mrcfile: 1.4.3 msgpack: 1.0.4 nest-asyncio: 1.5.6 netCDF4: 1.6.0 networkx: 2.8.5 numexpr: 2.8.4 numpy: 1.23.1 openpyxl: 3.0.10 openvr: 1.23.701 packaging: 21.3 pandas: 1.5.2 ParmEd: 3.4.3 parso: 0.8.3 pep517: 0.13.0 pickleshare: 0.7.5 Pillow: 9.2.0 pip: 22.2.2 pkginfo: 1.8.3 platformdirs: 2.5.4 prompt-toolkit: 3.0.33 psutil: 5.9.1 pure-eval: 0.2.2 pycollada: 0.7.2 pydicom: 2.3.0 Pygments: 2.12.0 PyOpenGL: 3.1.5 PyOpenGL-accelerate: 3.1.5 pyparsing: 3.0.9 PyQt6-commercial: 6.3.1 PyQt6-Qt6: 6.3.2 PyQt6-sip: 13.4.0 PyQt6-WebEngine-commercial: 6.3.1 PyQt6-WebEngine-Qt6: 6.3.2 python-dateutil: 2.8.2 pytz: 2022.6 pywin32: 303 pyzmq: 24.0.1 qtconsole: 5.3.1 QtPy: 2.3.0 QtRangeSlider: 0.1.5 RandomWords: 0.4.0 recordtype: 1.4 requests: 2.28.1 scipy: 1.9.0 seaborn: 0.12.2 Send2Trash: 1.8.0 SEQCROW: 1.5.10 setuptools: 65.1.1 sfftk-rw: 0.7.2 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 Sphinx: 5.1.1 sphinx-autodoc-typehints: 1.19.1 sphinxcontrib-applehelp: 1.0.2 sphinxcontrib-blockdiag: 3.0.0 sphinxcontrib-devhelp: 1.0.2 sphinxcontrib-htmlhelp: 2.0.0 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.3 sphinxcontrib-serializinghtml: 1.1.5 stack-data: 0.6.2 tables: 3.7.0 threed-strudel: 0.9.18 tifffile: 2022.7.31 tinyarray: 1.2.4 tomli: 2.0.1 tornado: 6.2 traitlets: 5.3.0 urllib3: 1.26.13 wcwidth: 0.2.5 webcolors: 1.12 wheel: 0.37.1 wheel-filename: 1.4.1 WMI: 1.5.1 zipp: 3.11.0 }}} " defect closed normal Third Party limitation Greg Couch all ChimeraX