id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 14676 MemoryError saving session after many 'vop zone' commands chimerax-bug-report@… Greg Couch "{{{ The following bug report has been submitted: Platform: Windows-10-10.0.19044 ChimeraX Version: 1.7 (2023-12-19 08:36:03 UTC) Description (Describe the actions that caused this problem to occur here) Log: UCSF ChimeraX version: 1.7 (2023-12-19) © 2016-2023 Regents of the University of California. All rights reserved. > open E:\\\实验室\\\其它\\\14-课题整理\\\文章写作\\\数据整理\\\Helix\\\ligand-1.cxs Opened J1170_UDP_galactose_sharp.mrc as #2, grid size 384,384,384, pixel 1.1, shown at level 0.2, step 1, values float32 Opened J1170_UDP_galactose_sharp.mrc zone as #3, grid size 384,384,384, pixel 1.1, shown at level 0.2, step 1, values float32 Opened J1170_UDP_galactose_sharp.mrc zone as #4, grid size 384,384,384, pixel 1.1, shown at level 0.2, step 1, values float32 Opened J1170_UDP_galactose_sharp.mrc zone as #5, grid size 384,384,384, pixel 1.1, shown at level 0.2, step 1, values float32 Opened J1170_UDP_galactose_sharp.mrc zone as #6, grid size 384,384,384, pixel 1.1, shown at level 0.2, step 1, values float32 Opened J1170_UDP_galactose_sharp.mrc zone as #7, grid size 384,384,384, pixel 1.1, shown at level 0.2, step 1, values float32 Opened J1170_UDP_galactose_sharp.mrc zone as #8, grid size 384,384,384, pixel 1.1, shown at level 0.2, step 1, values float32 Opened J1170_UDP_galactose_sharp.mrc zone as #9, grid size 384,384,384, pixel 1.1, shown at level 0.2, step 1, values float32 Log from Fri Mar 1 10:35:41 2024 Startup Messages --- warning | Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR bundle with that from NMRSTAR bundle UCSF ChimeraX version: 1.7 (2023-12-19) © 2016-2023 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open E:\\\实验室\\\其它\\\14-课题整理\\\文章写作\\\数据整理\\\Helix\\\PLO- > COL_J1170-ABUV-039-coot-3rd.pdb Chain information for PLO-COL_J1170-ABUV-039-coot-3rd.pdb #1 --- Chain | Description A B | No description available U V | No description available > open > E:\\\实验室\\\其它\\\14-课题整理\\\文章写作\\\数据整理\\\Helix\\\J1170_UDP_galactose_sharp.mrc Opened J1170_UDP_galactose_sharp.mrc as #2, grid size 384,384,384, pixel 1.1, shown at level 0.168, step 2, values float32 > volume #2 step 1 > set bgColor white > surface dust #2 size 11 > fitmap #1 inMap #2 Fit molecule PLO-COL_J1170-ABUV-039-coot-3rd.pdb (#1) to map J1170_UDP_galactose_sharp.mrc (#2) using 20968 atoms average map value = 0.7349, steps = 48 shifted from previous position = 0.0362 rotated from previous position = 0.0453 degrees atoms outside contour = 524, contour level = 0.16777 Position of PLO-COL_J1170-ABUV-039-coot-3rd.pdb (#1) relative to J1170_UDP_galactose_sharp.mrc (#2) coordinates: Matrix rotation and translation 0.99999975 0.00010916 0.00069553 -0.15080643 -0.00010941 0.99999993 0.00036115 -0.06983153 -0.00069549 -0.00036122 0.99999969 0.25366731 Axis -0.45645586 0.87896075 -0.13811606 Axis point 359.15309264 0.00000000 235.05042989 Rotation angle (degrees) 0.04533715 Shift along axis -0.02757823 > color red > color byhetero > hide atoms > volume hide > hide cartoons > select #1/B:337-353 146 atoms, 153 bonds, 17 residues, 1 model selected > vop zone #2 near sel range 1.7 newmap 1 Opened J1170_UDP_galactose_sharp.mrc zone as #3, grid size 384,384,384, pixel 1.1, shown at step 1, values float32 > hide sel atoms > volume #!3 hide > select ::name=""AKG"" 20 atoms, 18 bonds, 2 residues, 1 model selected > show sel atoms > select clear Drag select of 10 atoms, 9 bonds > name frozen B-AKG sel > hide sel atoms > select clear > hide atoms > select ::name=""FE2"" 2 atoms, 2 residues, 1 model selected > show sel atoms > select clear Drag select of 1 atoms > name frozen B-FE sel > select clear > hide atoms > select ::name=""MN"" 2 atoms, 2 residues, 1 model selected > show sel atoms > select clear Drag select of 1 atoms > name frozen B-MN sel > select clear > hide atoms > select ::name=""NAG"" 126 atoms, 130 bonds, 9 residues, 1 model selected > show sel atoms > select clear Drag select of 28 atoms, 29 bonds > name frozen B-NAG-1 sel > select clear Drag select of 14 atoms, 14 bonds > name frozen B-NAG-2 sel > select clear > hide atoms > select ::name=""UDP"" 50 atoms, 52 bonds, 2 residues, 1 model selected > show sel atoms > select clear Drag select of 25 atoms, 26 bonds > name frozen B-UDP sel > select clear > hide atoms > save E:/实验室/其它/14-课题整理/文章写作/数据整理/Helix/ligand.cxs > select B-AKG 10 atoms, 9 bonds, 1 residue, 1 model selected > vop zone #2 near sel range 1.7 newmap 1 Opened J1170_UDP_galactose_sharp.mrc zone as #4, grid size 384,384,384, pixel 1.1, shown at step 1, values float32 > volume #!4 hide > hide sel atoms > select B-FE 1 atom, 1 residue, 1 model selected > vop zone #2 near sel range 1.7 newmap 1 Opened J1170_UDP_galactose_sharp.mrc zone as #5, grid size 384,384,384, pixel 1.1, shown at step 1, values float32 > hide sel atoms > volume #!5 hide > select B-MN 1 atom, 1 residue, 1 model selected > vop zone #2 near sel range 1.7 newmap 1 Opened J1170_UDP_galactose_sharp.mrc zone as #6, grid size 384,384,384, pixel 1.1, shown at step 1, values float32 > hide sel atoms > volume #!6 hide > select B-NAG-1 28 atoms, 29 bonds, 2 residues, 1 model selected > vop zone #2 near sel range 1.7 newmap 1 Opened J1170_UDP_galactose_sharp.mrc zone as #7, grid size 384,384,384, pixel 1.1, shown at step 1, values float32 > hide sel atoms > volume #!7 hide > select B-NAG-2 14 atoms, 14 bonds, 1 residue, 1 model selected > vop zone #2 near sel range 1.7 newmap 1 Opened J1170_UDP_galactose_sharp.mrc zone as #8, grid size 384,384,384, pixel 1.1, shown at step 1, values float32 > hide sel atoms > volume #!8 hide > select B-UDP 25 atoms, 26 bonds, 1 residue, 1 model selected > vop zone #2 near sel range 1.7 newmap 1 Opened J1170_UDP_galactose_sharp.mrc zone as #9, grid size 384,384,384, pixel 1.1, shown at step 1, values float32 > hide sel atoms > volume #!9 hide > color #3 black models > color #3-9 black models > show #!4 models > hide #!4 models > show #!3 models > volume #!3 style mesh > hide #!3 models > show #!4 models > hide sel cartoons > volume #!4 style mesh > hide #!4 models > show #!3 models > volume all level 0.2 > show #!9 models > hide #!9 models > show #!8 models > hide #!8 models > show #!7 models > hide #!7 models > show #!4 models > save E:/实验室/其它/14-课题整理/文章写作/数据整理/Helix/ligand-1.cxs ——— End of log from Fri Mar 1 10:35:41 2024 ——— opened ChimeraX session > close #4-9 > hide #!3 models > show #1/B:362-364 > vop zone #2 near sel range 1.7 newmap 1 Opened J1170_UDP_galactose_sharp.mrc zone as #4, grid size 384,384,384, pixel 1.1, shown at step 1, values float32 > hide sel atoms > select clear > hide atoms > close #4 > show #1/B:362-364 > vop zone #2 near sel range 1.7 newmap 1 no atoms specified for zone > hide atoms > select #1/B:362-364 25 atoms, 25 bonds, 3 residues, 1 model selected > select #1/B:362-364 25 atoms, 25 bonds, 3 residues, 1 model selected > vop zone #2 near sel range 1.7 newmap 1 Opened J1170_UDP_galactose_sharp.mrc zone as #4, grid size 384,384,384, pixel 1.1, shown at step 1, values float32 > volume #!4 hide > hide sel atoms > select #1/B:368-380 98 atoms, 98 bonds, 13 residues, 1 model selected > vop zone #2 near sel range 1.7 newmap 1 Opened J1170_UDP_galactose_sharp.mrc zone as #5, grid size 384,384,384, pixel 1.1, shown at step 1, values float32 > volume #!5 hide > select #1/B:402-409 68 atoms, 67 bonds, 8 residues, 1 model selected > vop zone #2 near sel range 1.7 newmap 1 Opened J1170_UDP_galactose_sharp.mrc zone as #6, grid size 384,384,384, pixel 1.1, shown at step 1, values float32 > volume #!6 hide > select #1/B:444-448 43 atoms, 43 bonds, 5 residues, 1 model selected > vop zone #2 near sel range 1.7 newmap 1 Opened J1170_UDP_galactose_sharp.mrc zone as #7, grid size 384,384,384, pixel 1.1, shown at step 1, values float32 > volume #!7 hide > select #1/B:469-474 46 atoms, 45 bonds, 6 residues, 1 model selected > vop zone #2 near sel range 1.7 newmap 1 Opened J1170_UDP_galactose_sharp.mrc zone as #8, grid size 384,384,384, pixel 1.1, shown at step 1, values float32 > volume #!8 hide > select #1/B:489-500 99 atoms, 101 bonds, 12 residues, 1 model selected > vop zone #2 near sel range 1.7 newmap 1 Opened J1170_UDP_galactose_sharp.mrc zone as #9, grid size 384,384,384, pixel 1.1, shown at step 1, values float32 > volume #!9 hide > select #1/B:528-531 37 atoms, 39 bonds, 4 residues, 1 model selected > vop zone #2 near sel range 1.7 newmap 1 Opened J1170_UDP_galactose_sharp.mrc zone as #10, grid size 384,384,384, pixel 1.1, shown at step 1, values float32 > volume #!10 hide > select #1/B:537-544 75 atoms, 78 bonds, 8 residues, 1 model selected > vop zone #2 near sel range 1.7 newmap 1 Opened J1170_UDP_galactose_sharp.mrc zone as #11, grid size 384,384,384, pixel 1.1, shown at step 1, values float32 > volume #!11 hide > select #1/B:549-554 51 atoms, 51 bonds, 6 residues, 1 model selected > vop zone #2 near sel range 1.7 newmap 1 Opened J1170_UDP_galactose_sharp.mrc zone as #12, grid size 384,384,384, pixel 1.1, shown at step 1, values float32 > volume #!12 hide > select #1/B:574-587 117 atoms, 118 bonds, 14 residues, 1 model selected > vop zone #2 near sel range 1.7 newmap 1 Opened J1170_UDP_galactose_sharp.mrc zone as #13, grid size 384,384,384, pixel 1.1, shown at step 1, values float32 > volume #!13 hide > hide sel atoms > select #1/B:614-617 33 atoms, 32 bonds, 4 residues, 1 model selected > vop zone #2 near sel range 1.7 newmap 1 Opened J1170_UDP_galactose_sharp.mrc zone as #14, grid size 384,384,384, pixel 1.1, shown at step 1, values float32 > volume #!14 hide > select #1/B:620-630 103 atoms, 105 bonds, 11 residues, 1 model selected > vop zone #2 near sel range 1.7 newmap 1 Opened J1170_UDP_galactose_sharp.mrc zone as #15, grid size 384,384,384, pixel 1.1, shown at step 1, values float32 > volume #!15 hide > select #1/B:632-638 49 atoms, 49 bonds, 7 residues, 1 model selected > vop zone #2 near sel range 1.7 newmap 1 Opened J1170_UDP_galactose_sharp.mrc zone as #16, grid size 384,384,384, pixel 1.1, shown at step 1, values float32 > close #16 > save E:/实验室/其它/14-课题整理/文章写作/数据整理/Helix/plod-2.cxs Traceback (most recent call last): File ""D:\ChimeraX\ChimeraX\bin\Lib\site-packages\chimerax\core\session.py"", line 912, in save session.save(output, version=version, include_maps=include_maps) File ""D:\ChimeraX\ChimeraX\bin\Lib\site-packages\chimerax\core\session.py"", line 641, in save fserialize(stream, data) File ""D:\ChimeraX\ChimeraX\bin\Lib\site-packages\chimerax\core\serialize.py"", line 76, in msgpack_serialize stream.write(packer.pack(obj)) File ""D:\ChimeraX\ChimeraX\bin\Lib\site-packages\chimerax\core\safesave.py"", line 147, in write self._f.write(buf) File ""D:\ChimeraX\ChimeraX\bin\Lib\site-packages\lz4\frame\\__init__.py"", line 740, in write compressed = self._compressor.compress(data) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""D:\ChimeraX\ChimeraX\bin\Lib\site-packages\lz4\frame\\__init__.py"", line 258, in compress result = compress_chunk( ^^^^^^^^^^^^^^^ MemoryError MemoryError File ""D:\ChimeraX\ChimeraX\bin\Lib\site-packages\lz4\frame\\__init__.py"", line 258, in compress result = compress_chunk( ^^^^^^^^^^^^^^^ See log for complete Python traceback. Traceback (most recent call last): File ""D:\ChimeraX\ChimeraX\bin\Lib\site-packages\chimerax\toolbar\tool.py"", line 165, in callback bundle_info.run_provider(session, name, session.toolbar, display_name=display_name) File ""D:\ChimeraX\ChimeraX\bin\Lib\site- packages\chimerax\core\toolshed\info.py"", line 397, in run_provider return api._api_caller.run_provider(api, session, name, mgr, **kw) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""D:\ChimeraX\ChimeraX\bin\Lib\site- packages\chimerax\core\toolshed\\__init__.py"", line 1302, in run_provider return cls._get_func(api, ""run_provider"")(session, name, mgr, **kw) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""D:\ChimeraX\ChimeraX\bin\Lib\site- packages\chimerax\toolbar\\__init__.py"", line 37, in run_provider providers.run_provider(session, name) File ""D:\ChimeraX\ChimeraX\bin\Lib\site- packages\chimerax\toolbar\providers.py"", line 56, in run_provider what(session) File ""D:\ChimeraX\ChimeraX\bin\Lib\site- packages\chimerax\toolbar\providers.py"", line 38, in _file_save show_save_file_dialog(session) File ""D:\ChimeraX\ChimeraX\bin\Lib\site- packages\chimerax\save_command\dialog.py"", line 138, in show_save_file_dialog _dlg.display(session, **kw) File ""D:\ChimeraX\ChimeraX\bin\Lib\site- packages\chimerax\save_command\dialog.py"", line 62, in display run(session, cmd) File ""D:\ChimeraX\ChimeraX\bin\Lib\site- packages\chimerax\core\commands\run.py"", line 49, in run results = command.run(text, log=log, return_json=return_json) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""D:\ChimeraX\ChimeraX\bin\Lib\site- packages\chimerax\core\commands\cli.py"", line 2908, in run result = ci.function(session, **kw_args) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""D:\ChimeraX\ChimeraX\bin\Lib\site- packages\chimerax\save_command\cmd.py"", line 86, in cmd_save Command(session, registry=registry).run(provider_cmd_text, log=log) File ""D:\ChimeraX\ChimeraX\bin\Lib\site- packages\chimerax\core\commands\cli.py"", line 2908, in run result = ci.function(session, **kw_args) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""D:\ChimeraX\ChimeraX\bin\Lib\site- packages\chimerax\save_command\cmd.py"", line 101, in provider_save saver_info.save(session, path, **provider_kw) File ""D:\ChimeraX\ChimeraX\bin\Lib\site- packages\chimerax\core_formats\\__init__.py"", line 95, in save return cxs_save(session, path, **kw) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""D:\ChimeraX\ChimeraX\bin\Lib\site-packages\chimerax\core\session.py"", line 912, in save session.save(output, version=version, include_maps=include_maps) File ""D:\ChimeraX\ChimeraX\bin\Lib\site-packages\chimerax\core\session.py"", line 641, in save fserialize(stream, data) File ""D:\ChimeraX\ChimeraX\bin\Lib\site-packages\chimerax\core\serialize.py"", line 76, in msgpack_serialize stream.write(packer.pack(obj)) File ""D:\ChimeraX\ChimeraX\bin\Lib\site-packages\chimerax\core\safesave.py"", line 147, in write self._f.write(buf) File ""D:\ChimeraX\ChimeraX\bin\Lib\site-packages\lz4\frame\\__init__.py"", line 740, in write compressed = self._compressor.compress(data) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""D:\ChimeraX\ChimeraX\bin\Lib\site-packages\lz4\frame\\__init__.py"", line 258, in compress result = compress_chunk( ^^^^^^^^^^^^^^^ MemoryError MemoryError File ""D:\ChimeraX\ChimeraX\bin\Lib\site-packages\lz4\frame\\__init__.py"", line 258, in compress result = compress_chunk( ^^^^^^^^^^^^^^^ See log for complete Python traceback. OpenGL version: 3.3.0 NVIDIA 536.99 OpenGL renderer: NVIDIA GeForce RTX 4060 Laptop GPU/PCIe/SSE2 OpenGL vendor: NVIDIA Corporation Python: 3.11.2 Locale: zh_CN.cp936 Qt version: PyQt6 6.3.1, Qt 6.3.1 Qt runtime version: 6.3.2 Qt platform: windows Manufacturer: Acer Model: Predator PHN16-71 OS: Microsoft Windows 10 专业版 (Build 19044) Memory: 16,886,128,640 MaxProcessMemory: 137,438,953,344 CPU: 20 13th Gen Intel(R) Core(TM) i5-13500HX OSLanguage: zh-CN Installed Packages: alabaster: 0.7.13 appdirs: 1.4.4 asttokens: 2.4.1 Babel: 2.14.0 backcall: 0.2.0 beautifulsoup4: 4.11.2 blockdiag: 3.0.0 blosc2: 2.0.0 build: 0.10.0 certifi: 2023.11.17 cftime: 1.6.3 charset-normalizer: 3.3.2 ChimeraX-AddCharge: 1.5.13 ChimeraX-AddH: 2.2.5 ChimeraX-AlignmentAlgorithms: 2.0.1 ChimeraX-AlignmentHdrs: 3.4.1 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 2.12.1 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.1.1 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.1 ChimeraX-Atomic: 1.49.1 ChimeraX-AtomicLibrary: 12.1.3 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.3.2 ChimeraX-BasicActions: 1.1.2 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 2.1.2 ChimeraX-BondRot: 2.0.4 ChimeraX-BugReporter: 1.0.1 ChimeraX-BuildStructure: 2.10.5 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.2.2 ChimeraX-ButtonPanel: 1.0.1 ChimeraX-CageBuilder: 1.0.1 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.3.2 ChimeraX-ChangeChains: 1.1 ChimeraX-CheckWaters: 1.3.2 ChimeraX-ChemGroup: 2.0.1 ChimeraX-Clashes: 2.2.4 ChimeraX-ColorActions: 1.0.3 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.5 ChimeraX-CommandLine: 1.2.5 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.7 ChimeraX-CoreFormats: 1.2 ChimeraX-coulombic: 1.4.2 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0.1 ChimeraX-DataFormats: 1.2.3 ChimeraX-Dicom: 1.2 ChimeraX-DistMonitor: 1.4 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: 1.1.1 ChimeraX-Hbonds: 2.4 ChimeraX-Help: 1.2.2 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.1 ChimeraX-ImageFormats: 1.2 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.1 ChimeraX-ItemsInspection: 1.0.1 ChimeraX-IUPAC: 1.0 ChimeraX-Label: 1.1.8 ChimeraX-ListInfo: 1.2.2 ChimeraX-Log: 1.1.6 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.9.1 ChimeraX-Map: 1.1.4 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: 2.1.2 ChimeraX-MCopy: 1.0 ChimeraX-MDcrds: 2.6 ChimeraX-MedicalToolbar: 1.0.2 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.12.1 ChimeraX-MMTF: 2.2 ChimeraX-Modeller: 1.5.13 ChimeraX-ModelPanel: 1.4 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-Neuron: 1.0 ChimeraX-Nifti: 1.1 ChimeraX-NRRD: 1.1 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.13.1 ChimeraX-PDB: 2.7.3 ChimeraX-PDBBio: 1.0.1 ChimeraX-PDBLibrary: 1.0.3 ChimeraX-PDBMatrices: 1.0 ChimeraX-PickBlobs: 1.0.1 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.1 ChimeraX-PubChem: 2.1 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.2 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.1 ChimeraX-RenumberResidues: 1.1 ChimeraX-ResidueFit: 1.0.1 ChimeraX-RestServer: 1.2 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-SelInspector: 1.0 ChimeraX-SeqView: 2.11 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.1.1 ChimeraX-ShowSequences: 1.0.2 ChimeraX-SideView: 1.0.1 ChimeraX-Smiles: 2.1.2 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.12.3 ChimeraX-STL: 1.0.1 ChimeraX-Storm: 1.0 ChimeraX-StructMeasure: 1.1.2 ChimeraX-Struts: 1.0.1 ChimeraX-Surface: 1.0.1 ChimeraX-SwapAA: 2.0.1 ChimeraX-SwapRes: 2.2.2 ChimeraX-TapeMeasure: 1.0 ChimeraX-TaskManager: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.1.2 ChimeraX-ToolshedUtils: 1.2.4 ChimeraX-Topography: 1.0 ChimeraX-ToQuest: 1.0 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.33.2 ChimeraX-uniprot: 2.3 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.3.2 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: 1.1.3 ChimeraX-Zone: 1.0.1 colorama: 0.4.6 comm: 0.2.0 comtypes: 1.1.14 contourpy: 1.2.0 cxservices: 1.2.2 cycler: 0.12.1 Cython: 0.29.33 debugpy: 1.8.0 decorator: 5.1.1 docutils: 0.19 executing: 2.0.1 filelock: 3.9.0 fonttools: 4.47.0 funcparserlib: 2.0.0a0 glfw: 2.6.4 grako: 3.16.5 h5py: 3.10.0 html2text: 2020.1.16 idna: 3.6 ihm: 0.38 imagecodecs: 2023.9.18 imagesize: 1.4.1 ipykernel: 6.23.2 ipython: 8.14.0 ipython-genutils: 0.2.0 ipywidgets: 8.1.1 jedi: 0.18.2 Jinja2: 3.1.2 jupyter-client: 8.2.0 jupyter-core: 5.5.1 jupyterlab-widgets: 3.0.9 kiwisolver: 1.4.5 line-profiler: 4.0.2 lxml: 4.9.2 lz4: 4.3.2 MarkupSafe: 2.1.3 matplotlib: 3.7.2 matplotlib-inline: 0.1.6 msgpack: 1.0.4 nest-asyncio: 1.5.8 netCDF4: 1.6.2 networkx: 3.1 nibabel: 5.0.1 nptyping: 2.5.0 numexpr: 2.8.8 numpy: 1.25.1 openvr: 1.23.701 packaging: 23.2 ParmEd: 3.4.3 parso: 0.8.3 pep517: 0.13.0 pickleshare: 0.7.5 Pillow: 10.0.1 pip: 23.0 pkginfo: 1.9.6 platformdirs: 4.1.0 prompt-toolkit: 3.0.43 psutil: 5.9.5 pure-eval: 0.2.2 py-cpuinfo: 9.0.0 pycollada: 0.7.2 pydicom: 2.3.0 Pygments: 2.16.1 pynrrd: 1.0.0 PyOpenGL: 3.1.7 PyOpenGL-accelerate: 3.1.7 pyopenxr: 1.0.2801 pyparsing: 3.0.9 pyproject-hooks: 1.0.0 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: 2023.3.post1 pywin32: 305 pyzmq: 25.1.2 qtconsole: 5.4.3 QtPy: 2.4.1 RandomWords: 0.4.0 requests: 2.31.0 scipy: 1.11.1 setuptools: 67.4.0 sfftk-rw: 0.7.3 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 soupsieve: 2.5 sphinx: 6.1.3 sphinx-autodoc-typehints: 1.22 sphinxcontrib-applehelp: 1.0.7 sphinxcontrib-blockdiag: 3.0.0 sphinxcontrib-devhelp: 1.0.5 sphinxcontrib-htmlhelp: 2.0.4 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.6 sphinxcontrib-serializinghtml: 1.1.9 stack-data: 0.6.3 superqt: 0.5.0 tables: 3.8.0 tcia-utils: 1.5.1 tifffile: 2023.7.18 tinyarray: 1.2.4 tomli: 2.0.1 tornado: 6.4 traitlets: 5.9.0 typing-extensions: 4.9.0 tzdata: 2023.3 urllib3: 2.1.0 wcwidth: 0.2.12 webcolors: 1.12 wheel: 0.38.4 wheel-filename: 1.4.1 widgetsnbextension: 4.0.9 WMI: 1.5.1 }}} " defect assigned normal Sessions Tom Goddard all ChimeraX