id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 19535 Crash on Mac waking from sleep croal939@… Tom Goddard "{{{ The following bug report has been submitted: Platform: macOS-15.7.1-arm64-arm-64bit ChimeraX Version: 1.10.1 (2025-07-24 20:15:27 UTC) Description Last time you used ChimeraX it crashed. This is a known crash that we are unable to fix. Here is information that may help you avoid this crash. The Qt window toolkit crashed due to a display configuration change, typically when waking from sleep or when an external display is disconnected or connected. This has only been seen on Mac computers. We hope a newer version of Qt will fix it. We update ChimeraX daily builds whenever a new Qt is released. You can check here https://www.cgl.ucsf.edu/chimerax/docs/troubleshoot.html#macdisplay to see if it has been fixed in a newer ChimeraX. 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], ""experiments"" : [ ] } } ===== Log before crash start ===== UCSF ChimeraX version: 1.10.1 (2025-07-24) © 2016-2025 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open ""/Users/croal939/Library/CloudStorage/OneDrive- > UniversityofOtago/PCH45/PCH45 Master Chimerax Workspaces/PCH45 > Neck/PCH45_NeckFitting_6.cxs"" Opened PCH45_Neck_C6_3_40A_map_sharp.mrc as #3, grid size 416,416,416, pixel 1.37, shown at level 0.236, step 1, values float32 Opened Sheath[Unrefined]_C6Ring_R4?_ as #9, grid size 416,416,416, pixel 1.37, shown at level 0.889, step 1, values float32 Opened Unnaccounted_for_Volumes as #14, grid size 416,416,416, pixel 1.37, shown at level 0.662, step 1, values float32 Opened PCH45_Neck_C6_3_40A_map_sharp.mrc zone as #13, grid size 416,416,416, pixel 1.37, shown at level 0.604, step 1, values float32 Opened Unaccounted_volumes_updated as #15, grid size 416,416,416, pixel 1.37, shown at level 0.537, step 1, values float32 Opened PCH45_Neck_C6_3_40A_map_sharp.mrc zone as #18, grid size 416,416,416, pixel 1.37, shown at level 0.887, step 1, values float32 Opened Unaccounted3 as #19, grid size 416,416,416, pixel 1.37, shown at level 0.457, step 1, values float32 Opened Gp24[Adaptor]_C6Ring_R4 as #24, grid size 416,416,416, pixel 1.37, shown at level 0.82, step 1, values float32 Opened PCH45_Rough_Segmap cry.mrc as #23, grid size 416,416,416, pixel 1.37, shown at level 0.497, step 1, values float32 Opened PCH45_Neck_C6_3_40A_map_sharp.mrc zone as #2, grid size 416,416,416, pixel 1.37, shown at level 0.585, step 1, values float32 Opened PCH45_Neck_C6_3_40A_map_sharp.mrc zone as #25, grid size 416,416,416, pixel 1.37, shown at level 0.585, step 1, values float32 Opened PCH45_Neck_C6_3_40A_map_sharp.mrc zone as #30, grid size 416,416,416, pixel 1.37, shown at level 0.42, step 1, values float32 Opened PCH45_Gp182_AboveSheath_.mrc as #31, grid size 405,360,416, pixel 1.37,1.37,1.37, shown at level 0.431, step 1, values float32 > view name session-start opened ChimeraX session > hide #27 models > lighting simple > ui tool show ""Side View"" > hide #29 models > show #29 models > volume #!9,13,24-25,30-31 showOutlineBox false > hide #!30 models > show #!30 models > hide #!30 models > show #!30 models > hide #!30 models > select add #30 1177 atoms, 1199 bonds, 146 residues, 3 models selected > select add #31 1177 atoms, 1199 bonds, 146 residues, 5 models selected > transparency sel & #31.1 50 > select subtract #30 1177 atoms, 1199 bonds, 146 residues, 3 models selected > show #!30 models > hide #!30 models > show #!18 models > hide #!18 models > show #!18 models > hide #!18 models > hide #!13 models > show #!13 models > hide #!12 models > show #!12 models > hide #!9 models > show #!9 models > select add #9 1177 atoms, 1199 bonds, 146 residues, 5 models selected > select subtract #5 4 models selected > vop subtract #9 #31 minrms True Opened volume difference as #32, grid size 416,416,416, pixel 1.37, shown at step 1, values float32 Minimum RMS scale factor for ""PCH45_Gp182_AboveSheath_.mrc #31"" above level 0.43098 is 0.63051 > select add #32 6 models selected > show #!31 models > select subtract #31 4 models selected > select add #31 6 models selected > select subtract #9 4 models selected > vop subtract #31 #32 minrms True Opened volume difference as #33, grid size 405,360,416, pixel 1.37,1.37,1.37, shown at step 1, values float32 Minimum RMS scale factor for ""volume difference #32"" above level 0.88852 is 0 > hide #!33 models > show #!33 models > surface dust #13 size 13.7 > surface dust #24 size 13.7 > surface dust #25 size 13.7 > surface dust #33 size 13.7 > select add #33 6 models selected > transparency sel & #33.1 50 > rename #33 PutativeGp183_C6Map > select clear > select add #33 2 models selected > volume* threshold .82 Unknown command: volume* threshold .82 > volume threshold .82 Missing or invalid ""volumes"" argument: invalid density maps specifier > volume threshold* .82 Expected a density maps specifier or a keyword > volume threshold #* .82 Expected a keyword > show #!32 models > volume threshold #* level .82 Expected a keyword > volume level #* .82 Invalid ""level"" argument: Expected a number > volume threshold #* 0.82 Expected a keyword > volume #* level 0.82 > volume #* transparency 0.25 > volume #* transparency 1 > volume #* transparency 0.75 > select clear > volume #33 level 0.4049 > hide #1 models > show #1 models > hide #1 models > show #1 models > hide #1 models > hide #21 models > hide #!24 models > hide #!22 models > hide #!25 models > show #!25 models > hide #!25 models > show #!25 models > hide #!25 models > show #!25 models > hide #!25 models > hide #26 models > show #26 models > hide #26 models > show #26 models > hide #26 models > hide #29 models > hide #!12 models > show #!12 models > hide #!12 models > hide #!13 models > hide #11 models > hide #!8 models > surface dust #32 size 13.7 > surface dust #33 size 13.7 > hide #!33 models > show #!33 models > hide #!33 models > show #1 models > select add #4 1177 atoms, 1199 bonds, 146 residues, 1 model selected > select add #1 258897 atoms, 267139 bonds, 31925 residues, 2 models selected > hide #4 models > select subtract #4 257720 atoms, 265940 bonds, 31779 residues, 1 model selected > hide #5 models > select clear > select add #1 257720 atoms, 265940 bonds, 31779 residues, 1 model selected > hide #1 models > select subtract #1 Nothing selected > show #5 models > show #1 models > hide #5 models > show #4 models > hide #4 models > show #4 models > show #!2 models > hide #!2 models > show #!2 models > hide #!2 models > show #!2 models > hide #!2 models > show #!2 models > close #2 > hide #4 models > show #4 models > hide #4 models > show #5 models > hide #5 models > show #!6 models > hide #!6 models > show #!6 models > select add #6 16068 atoms, 16236 bonds, 2208 residues, 13 models selected > close #6 > show #!7 models > hide #!7 models > show #!7 models > hide #!7 models > show #!7 models > hide #!32 models > show #!32 models > hide #!32 models > show #!32 models > hide #!32 models > show #!32 models > select add #32 2 models selected > color #32 #ff00bbff models > select clear > show #!30 models > hide #!30 models > show #!30 models > hide #!30 models > show #27 models > hide #27 models > show #!24 models > hide #!24 models > show #!24 models > hide #!24 models > show #!24 models > show #11 models > hide #11 models > select add #1 257720 atoms, 265940 bonds, 31779 residues, 1 model selected > color #32 #d6d6d6ff models > select clear > undo > hide #11 models > hide #!32 models > show #!32 models > hide #!7 models > show #!7 models > hide #!7 models > show #!7 models > hide #!7 models > show #!7 models > color #32 #ff009cff models > select clear > show #!3 models > volume #!3,24,32 showOutlineBox false > select add #3 2 models selected > select clear > select add #3 2 models selected > volume #* level 0.5 > select clear > hide #!7 models > show #!7 models > hide #!7 models > show #!7 models > show #!8 models > hide #!8 models > show #!8 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > show #10 models > hide #10 models > show #10 models > select add #10 3715 atoms, 3815 bonds, 462 residues, 1 model selected Alignment identifier is 10/A > select clear > select #10/A:1 8 atoms, 7 bonds, 1 residue, 1 model selected > select #10/A:1-206 1653 atoms, 1694 bonds, 206 residues, 1 model selected > select #10/A:201 14 atoms, 15 bonds, 1 residue, 1 model selected > select #10/A:1-201 1609 atoms, 1648 bonds, 201 residues, 1 model selected > hide #!32 models > show #!32 models > select clear > select #10/A:1 8 atoms, 7 bonds, 1 residue, 1 model selected > select #10/A:1-200 1595 atoms, 1632 bonds, 200 residues, 1 model selected > delete sel > open ""/Users/croal939/Library/CloudStorage/OneDrive- > UniversityofOtago/PCH45/PCH45 Alphafolded > Proteins/fold_pch45_gp25trimmed_first_1_200aa/fold_pch45_gp25trimmed_first_1_200aa_model_0.cif"" Chain information for fold_pch45_gp25trimmed_first_1_200aa_model_0.cif #2 --- Chain | Description A | . > open ""/Users/croal939/Library/CloudStorage/OneDrive- > UniversityofOtago/PCH45/PCH45 Alphafolded > Proteins/fold_pch45_gp25trimmed_first_1_200aa/fold_pch45_gp25trimmed_first_1_200aa_model_1.cif"" Chain information for fold_pch45_gp25trimmed_first_1_200aa_model_1.cif #6 --- Chain | Description A | . > open ""/Users/croal939/Library/CloudStorage/OneDrive- > UniversityofOtago/PCH45/PCH45 Alphafolded > Proteins/fold_pch45_gp25trimmed_first_1_200aa/fold_pch45_gp25trimmed_first_1_200aa_model_2.cif"" Chain information for fold_pch45_gp25trimmed_first_1_200aa_model_2.cif #34 --- Chain | Description A | . > open ""/Users/croal939/Library/CloudStorage/OneDrive- > UniversityofOtago/PCH45/PCH45 Alphafolded > Proteins/fold_pch45_gp25trimmed_first_1_200aa/fold_pch45_gp25trimmed_first_1_200aa_model_3.cif"" Chain information for fold_pch45_gp25trimmed_first_1_200aa_model_3.cif #35 --- Chain | Description A | . > open ""/Users/croal939/Library/CloudStorage/OneDrive- > UniversityofOtago/PCH45/PCH45 Alphafolded > Proteins/fold_pch45_gp25trimmed_first_1_200aa/fold_pch45_gp25trimmed_first_1_200aa_model_4.cif"" Chain information for fold_pch45_gp25trimmed_first_1_200aa_model_4.cif #36 --- Chain | Description A | . Computing secondary structure > hide #2 models > show #2 models > show #4 models > hide #4 models > show #4 models > hide #4 models > show #5 models > hide #5 models > show #4 models > hide #4 models > show #5 models > hide #5 models > hide #6 models > show #6 models > show #!9 models > hide #!9 models > show #!9 models > hide #!9 models > close #9 > rename #10 Gp25_volzon10-coot11_200-462AA > show #11 models > hide #11 models > show #11 models > hide #!32 models > show #!32 models > hide #!32 models > show #!32 models > hide #!32 models > show #!32 models > show #!12 models > hide #!12 models > show #!12 models > hide #!12 models > show #!12 models > hide #11 models > show #11 models > hide #!12 models > show #!12 models > hide #11 models > show #11 models > hide #11 models > show #11 models > hide #11 models > hide #!8 models > show #!8 models > hide #!8 models > hide #!12 models > show #!12 models > hide #!32 models > show #!32 models > hide #!32 models > hide #!3 models > show #11 models > hide #11 models > show #!13 models > hide #!13 models > color #12 #002a9bff models > show #!13 models > hide #!13 models > show #!13 models > color #13 #003ba5ff models > show #!14 models > hide #!14 models > show #!14 models > hide #!14 models > show #!14 models > hide #!14 models > show #!14 models > hide #!14 models > show #!14 models > hide #!14 models > close #14 > show #!15 models > hide #!15 models > show #!15 models > hide #!15 models > show #!15 models > hide #!15 models > show #!19 models > hide #!19 models > show #!15 models > select add #15 2 models selected > close #15 > show #16 models > hide #16 models > show #16 models > hide #16 models > show #!17 models > hide #!17 models > show #!17 models > hide #!17 models > show #16 models > hide #16 models > show #16 models > hide #!13 models > hide #!12 models > show #!17 models > hide #!17 models > show #!17 models > hide #!17 models > show #!17 models > hide #!17 models > hide #16 models > show #16 models > show #!18 models > hide #!18 models > show #!18 models > hide #!18 models > show #!18 models > hide #!18 models > hide #16 models > show #16 models > show #11 models > hide #11 models > show #11 models > hide #11 models > hide #16 models > show #16 models > hide #16 models > show #16 models > hide #16 models > show #16 models > hide #16 models > show #!17 models > hide #!17 models > show #!17 models > select add #17 13452 atoms, 13794 bonds, 1722 residues, 7 models selected > hide #!17 models > show #!17 models > hide #!17 models > show #16 models > show #!17 models > hide #!17 models > show #!17 models > hide #!17 models > show #!17 models > hide #!17 models > show #!17 models > hide #!17 models > show #!17 models > hide #!17 models > show #!17 models > hide #!17 models > close #17 > hide #16 models > show #16 models > select add #16 2242 atoms, 2299 bonds, 287 residues, 1 model selected > measure center #3 Center of mass grid index for PCH45_Neck_C6_3_40A_map_sharp.mrc = (208.00, 208.00, 143.67) Center of mass xyz scene coordinates for PCH45_Neck_C6_3_40A_map_sharp.mrc = (284.19, 284.19, 196.30) > sym #16 c6 center 284.19, 284.19, 196.30 Made 6 copies for Tail_tube_monomerfit symmetry c6 > hide #!9 models > show #!9 models > hide #!9 models > show #!8 models > hide #!8 models > show #!8 models > hide #!7 models > show #!7 models > hide #!7 models > hide #!8 models > show #!8 models > hide #!8 models > show #!7 models > hide #!7 models > color #8 #ff009cff models > show #!8 models > hide #!8 models > show #!8 models > show #!7 models > hide #!7 models > show #!7 models > show #!9 models > hide #!8 models > show #!8 models > hide #!8 models > hide #!7 models > show #!7 models > show #!8 models > hide #!8 models > show #!8 models > hide #!9 models > show #!9 models > hide #!9 models > show #!9 models > show #!13 models > hide #!13 models > show #!13 models > show #!12 models > hide #!12 models > show #!12 models > hide #!13 models > hide #!12 models > show #11 models > hide #11 models > show #11 models > hide #11 models > show #11 models > hide #11 models > hide #!9 models > show #11 models > hide #11 models > show #11 models > select add #11 2242 atoms, 2299 bonds, 287 residues, 2 models selected > hide #11 models > show #11 models > close #11 > show #!9 models > hide #!9 models > show #!9 models > show #16 models > hide #16 models > show #16 models > hide #16 models > show #16 models > hide #16 models > show #16 models > hide #16 models > show #!18 models > hide #!18 models > show #!18 models > show #16 models > hide #16 models > select add #9 15694 atoms, 16093 bonds, 2009 residues, 8 models selected > select subtract #9 2242 atoms, 2299 bonds, 287 residues, 1 model selected > select add #9 15694 atoms, 16093 bonds, 2009 residues, 8 models selected > hide #10 models > show #10 models > hide #!9 models > show #!9 models > hide #!18 models > show #!18 models > volume #!18,24 showOutlineBox false > select clear > hide #!18 models > show #!18 models > hide #!18 models > show #!18 models > rename #18 TubeC6ringvolzone > show #!19 models > hide #!19 models > show #!19 models > hide #!19 models > show #20 models > hide #20 models > hide #!18 models > show #!18 models > hide #!18 models > show #!19 models > hide #!19 models > show #20 models > hide #20 models > show #20 models > close #20 > show #21 models > hide #21 models > show #21 models > show #!22 models > hide #!22 models > show #!22 models > hide #!24 models > show #!24 models > hide #!24 models > show #!23 models > hide #!23 models > show #!23 models > hide #!23 models > show #!23 models > hide #!22 models > show #!22 models > hide #!22 models > show #!22 models > hide #!22 models > show #!22 models > hide #!22 models > hide #21 models > show #21 models > show #!22 models > color #22 #51fb86ff models > show #!24 models > hide #!24 models > hide #!23 models > show #!23 models > hide #!23 models > hide #21 models > show #21 models > hide #!22 models > show #!22 models > show #!24 models > color #24 #00f90040 models > color #24 #00fd92ff models > hide #!24 models > show #!24 models > hide #!22 models > show #!22 models > hide #!22 models > hide #!24 models > show #!24 models > color #24 #51fb86ff models > show #!23 models > hide #!23 models > show #!23 models > hide #!23 models > hide #!24 models > show #!24 models > hide #!24 models > show #!24 models > hide #!24 models > show #!23 models > hide #!23 models > show #!23 models > hide #!23 models > show #!23 models > hide #!23 models > show #!23 models > hide #!23 models > show #!23 models > color #23 #d783ffff models > hide #!23 models > show #!23 models > hide #!23 models > show #!23 models > hide #!23 models > show #!25 models > hide #!25 models > show #!25 models > hide #!25 models > show #!25 models > hide #!25 models > show #!25 models > hide #1 models > show #1 models > hide #1 models > hide #2 models > show #2 models > hide #2 models > show #1 models > show #16 models > hide #16 models > show #16 models > hide #16 models > show #!13 models > hide #!13 models > show #!13 models > hide #!13 models > show #!13 models > hide #!13 models > show #!13 models > hide #!13 models > show #!13 models > rename #13 Sheathring_Lowest_Volzon > show #!12 models > hide #!12 models > show #!12 models > hide #!12 models > hide #!13 models > hide #21 models > show #21 models > hide #21 models > hide #!25 models > show #!25 models > hide #!25 models > hide #34 models > show #34 models > hide #34 models > hide #!7 models > show #!7 models > hide #!7 models > hide #!8 models > show #!8 models > hide #!8 models > show #!8 models > hide #!8 models > hide #6 models > show #6 models > hide #6 models > show #6 models > hide #6 models > hide #!9 models > hide #10 models > show #10 models > show #34 models > ui tool show Matchmaker > matchmaker #2 to #1 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker PCH45_C6_3_40_Wholemap_output_output.cif, chain r3 (#1) with fold_pch45_gp25trimmed_first_1_200aa_model_0.cif, chain A (#2), sequence alignment score = 301.2 RMSD between 69 pruned atom pairs is 0.661 angstroms; (across all 95 pairs: 3.337) > show #2 models > hide #2 models > show #2 models > hide #2 models > show #2 models > hide #2 models > show #2 models > hide #2 models > show #2 models > hide #2 models > show #2 models > hide #2 models > show #2 models > hide #2 models > show #2 models > hide #2 models > show #2 models > hide #2 models > show #2 models > hide #2 models > show #2 models > hide #2 models > show #2 models > hide #2 models > show #2 models > hide #2 models > show #2 models > hide #2 models > show #2 models > hide #2 models > show #2 models > hide #2 models > show #2 models > ui tool show Matchmaker > matchmaker #6 to #1 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker PCH45_C6_3_40_Wholemap_output_output.cif, chain r3 (#1) with fold_pch45_gp25trimmed_first_1_200aa_model_1.cif, chain A (#6), sequence alignment score = 301.2 RMSD between 70 pruned atom pairs is 0.691 angstroms; (across all 95 pairs: 3.338) > ui tool show Matchmaker > matchmaker #34-36 to #1 Parameters --- Chain pairing | bb Alignment algorithm | Needleman-Wunsch Similarity matrix | BLOSUM-62 SS fraction | 0.3 Gap open (HH/SS/other) | 18/18/6 Gap extend | 1 SS matrix | | | H | S | O ---|---|---|--- H | 6 | -9 | -6 S | | 6 | -6 O | | | 4 Iteration cutoff | 2 Matchmaker PCH45_C6_3_40_Wholemap_output_output.cif, chain r3 (#1) with fold_pch45_gp25trimmed_first_1_200aa_model_2.cif, chain A (#34), sequence alignment score = 301.2 RMSD between 71 pruned atom pairs is 0.699 angstroms; (across all 95 pairs: 3.295) Matchmaker PCH45_C6_3_40_Wholemap_output_output.cif, chain r3 (#1) with fold_pch45_gp25trimmed_first_1_200aa_model_3.cif, chain A (#35), sequence alignment score = 301.2 RMSD between 70 pruned atom pairs is 0.682 angstroms; (across all 95 pairs: 3.321) Matchmaker PCH45_C6_3_40_Wholemap_output_output.cif, chain r3 (#1) with fold_pch45_gp25trimmed_first_1_200aa_model_4.cif, chain A (#36), sequence alignment score = 301.2 RMSD between 70 pruned atom pairs is 0.679 angstroms; (across all 95 pairs: 3.332) > show #6 models > hide #6 models > show #6 models > hide #6 models > show #6 models > hide #6 models > show #6 models > hide #6 models > show #6 models > hide #6 models > show #6 models > hide #6 models > show #6 models > hide #6 models > show #6 models > hide #6 models > show #6 models > select add #10 2120 atoms, 2182 bonds, 262 residues, 1 model selected > select clear ===== Log before crash end ===== Log: UCSF ChimeraX version: 1.10.1 (2025-07-24) © 2016-2025 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX OpenGL version: 4.1 Metal - 89.4 OpenGL renderer: Apple M3 OpenGL vendor: Apple Python: 3.11.4 Locale: en_US.UTF-8 Qt version: PyQt6 6.8.1, Qt 6.8.2 Qt runtime version: 6.8.2 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Pro Model Identifier: Mac15,3 Model Number: Z1C80004VX/A Chip: Apple M3 Total Number of Cores: 8 (4 performance and 4 efficiency) Memory: 16 GB System Firmware Version: 13822.1.2 OS Loader Version: 11881.140.96 Software: System Software Overview: System Version: macOS 15.7.1 (24G231) Kernel Version: Darwin 24.6.0 Time since boot: 1 hour, 32 minutes Graphics/Displays: Apple M3: Chipset Model: Apple M3 Type: GPU Bus: Built-In Total Number of Cores: 10 Vendor: Apple (0x106b) Metal Support: Metal 3 Displays: Color LCD: Display Type: Built-in Liquid Retina XDR Display Resolution: 3024 x 1964 Retina Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: Yes Connection Type: Internal VN2410C: Resolution: 1920 x 1080 (1080p FHD - Full High Definition) UI Looks like: 1920 x 1080 @ 144.00Hz Mirror: Off Online: Yes Rotation: Supported Installed Packages: alabaster: 1.0.0 appdirs: 1.4.4 appnope: 0.1.4 asttokens: 3.0.0 babel: 2.17.0 beautifulsoup4: 4.13.3 blockdiag: 3.0.0 blosc2: 3.6.1 build: 1.2.2.post1 certifi: 2023.11.17 cftime: 1.6.4.post1 charset-normalizer: 3.4.2 ChimeraX-AddCharge: 1.5.19 ChimeraX-AddH: 2.2.7 ChimeraX-AlignmentAlgorithms: 2.0.2 ChimeraX-AlignmentHdrs: 3.6.1 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 2.20.2 ChimeraX-AlphaFold: 1.0.1 ChimeraX-AltlocExplorer: 1.1.2 ChimeraX-AmberInfo: 1.0 ChimeraX-Aniso: 1.1.4 ChimeraX-Arrays: 1.1 ChimeraX-Atomic: 1.60.7 ChimeraX-AtomicLibrary: 14.1.19 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.4 ChimeraX-BasicActions: 1.1.3 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 3.0.0 ChimeraX-Boltz: 1.0 ChimeraX-BondRot: 2.0.4 ChimeraX-BugReporter: 1.0.2 ChimeraX-BuildStructure: 2.13.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.5.1 ChimeraX-ButtonPanel: 1.0.1 ChimeraX-CageBuilder: 1.0.1 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.4 ChimeraX-ChangeChains: 1.1 ChimeraX-CheckWaters: 1.5 ChimeraX-ChemGroup: 2.0.2 ChimeraX-Clashes: 2.3 ChimeraX-Clipper: 0.25.2 ChimeraX-ColorActions: 1.0.5 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.8 ChimeraX-CommandLine: 1.3 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.10.1 ChimeraX-CoreFormats: 1.2 ChimeraX-coulombic: 1.4.5 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0.1 ChimeraX-DataFormats: 1.2.4 ChimeraX-Dicom: 1.2.7 ChimeraX-DistMonitor: 1.4.2 ChimeraX-DockPrep: 1.1.4 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: 2.5.1 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-ISOLDE: 1.10.1 ChimeraX-ItemsInspection: 1.0.1 ChimeraX-IUPAC: 1.0 ChimeraX-KVFinder: 1.6.2 ChimeraX-Label: 1.1.14 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: 2.2.2 ChimeraX-MCopy: 1.0 ChimeraX-MDcrds: 2.10.1 ChimeraX-MedicalToolbar: 1.1 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.16 ChimeraX-MMTF: 2.2 ChimeraX-ModelArchive: 1.0 ChimeraX-Modeller: 1.5.19 ChimeraX-ModelPanel: 1.5.1 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: 1.14.1 ChimeraX-OrthoPick: 1.0.1 ChimeraX-PDB: 2.7.10 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: 1.1.3 ChimeraX-ProfileGrids: 1.1.3 ChimeraX-PubChem: 2.2 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.2 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.6.3 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: 2.0.3 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0.1 ChimeraX-Segmentations: 3.5.7 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.17.1 ChimeraX-Shape: 1.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.2.1 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: 1.19.1 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: 2.5.2 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: 1.45.2 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: 1.1.5 ChimeraX-Zone: 1.0.1 colorama: 0.4.6 comm: 0.2.2 contourpy: 1.3.2 coverage: 7.10.0 cxservices: 1.2.3 cycler: 0.12.1 Cython: 3.0.12 debugpy: 1.8.15 decorator: 5.2.1 docutils: 0.21.2 executing: 2.2.0 filelock: 3.18.0 fonttools: 4.59.0 funcparserlib: 2.0.0a0 glfw: 2.9.0 grako: 3.16.5 h5py: 3.14.0 html2text: 2024.2.26 idna: 3.10 ihm: 2.2 imagecodecs: 2024.6.1 imagesize: 1.4.1 iniconfig: 2.1.0 ipykernel: 6.29.5 ipython: 8.26.0 ipywidgets: 8.1.7 jedi: 0.19.1 Jinja2: 3.1.6 jupyter_client: 8.6.3 jupyter_core: 5.8.1 jupyterlab_widgets: 3.0.15 kiwisolver: 1.4.8 line_profiler: 4.2.0 lxml: 5.3.1 lz4: 4.3.2 MarkupSafe: 3.0.2 matplotlib: 3.10.1 matplotlib-inline: 0.1.7 msgpack: 1.1.0 ndindex: 1.10.0 nest-asyncio: 1.6.0 netCDF4: 1.6.5 networkx: 3.3 nibabel: 5.2.0 nptyping: 2.5.0 numexpr: 2.11.0 numpy: 1.26.4 OpenMM: 8.2.0 openvr: 1.26.701 packaging: 24.2 ParmEd: 4.2.2 parso: 0.8.4 pep517: 0.13.1 pexpect: 4.9.0 pickleshare: 0.7.5 pillow: 10.4.0 pip: 25.0.1 pkginfo: 1.11.1 platformdirs: 4.3.8 pluggy: 1.6.0 prompt_toolkit: 3.0.51 psutil: 7.0.0 ptyprocess: 0.7.0 pure_eval: 0.2.3 py-cpuinfo: 9.0.0 pycollada: 0.8 pydicom: 2.4.4 Pygments: 2.18.0 pynmrstar: 3.3.5 pynrrd: 1.0.0 PyOpenGL: 3.1.9 PyOpenGL-accelerate: 3.1.9 pyopenxr: 1.1.4501 pyparsing: 3.2.3 pyproject_hooks: 1.2.0 PyQt6-commercial: 6.8.1 PyQt6-Qt6: 6.8.2 PyQt6-WebEngine-commercial: 6.8.0 PyQt6-WebEngine-Qt6: 6.8.2 PyQt6_sip: 13.10.0 pytest: 8.4.1 pytest-cov: 6.2.1 python-dateutil: 2.9.0.post0 pytz: 2025.2 pyzmq: 27.0.0 qtconsole: 5.5.2 QtPy: 2.4.3 qtshim: 1.1 RandomWords: 0.4.0 requests: 2.32.3 roman-numerals-py: 3.1.0 scipy: 1.14.0 setuptools: 78.1.0 sfftk-rw: 0.8.1 six: 1.16.0 snowballstemmer: 3.0.1 sortedcontainers: 2.4.0 soupsieve: 2.7 Sphinx: 8.2.3 sphinx-autodoc-typehints: 3.1.0 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: 0.7.1 tables: 3.10.2 tcia_utils: 1.5.1 tifffile: 2025.3.13 tinyarray: 1.2.4 tornado: 6.5.1 traitlets: 5.14.3 typing_extensions: 4.14.1 tzdata: 2025.2 urllib3: 2.5.0 wcwidth: 0.2.13 webcolors: 24.11.1 wheel: 0.45.1 wheel-filename: 1.4.2 widgetsnbextension: 4.0.14 }}} " defect closed normal Window Toolkit duplicate all ChimeraX