id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 19005 GPU failure after large image save chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: Windows-10-10.0.26100 ChimeraX Version: 1.10.dev202503060250 (2025-03-06 02:50:10 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. Windows fatal exception: access violation Current thread 0x0000ede0 (most recent call first): File ""C:\Program Files\ChimeraX 1.10.dev202503060250\bin\Lib\site-packages\chimerax\ui\gui.py"", line 339 in event_loop File ""C:\Program Files\ChimeraX 1.10.dev202503060250\bin\Lib\site-packages\chimerax\core\__main__.py"", line 1054 in init File ""C:\Program Files\ChimeraX 1.10.dev202503060250\bin\Lib\site-packages\chimerax\core\__main__.py"", line 1217 in File """", line 88 in _run_code File """", line 198 in _run_module_as_main ===== Log before crash start ===== Startup Messages --- note | available bundle cache has not been initialized yet UCSF ChimeraX version: 1.10.dev202503060250 (2025-03-06) © 2016-2025 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open 5ED2 fromDatabase pdb format mmcif 5ed2 title: Human Adenosine Deaminase Acting on dsRNA (ADAR2) mutant E488Q bound to dsRNA sequence derived from human GLI1 gene [more info...] Chain information for 5ed2 #1 --- Chain | Description | UniProt A D | Double-stranded RNA-specific editase 1 | RED1_HUMAN 299-701 B E | RNA (5'-R(P*GP*CP*UP*CP*GP*CP*GP*AP*UP*GP*CP*UP*(8AZ)P*GP*AP*GP*GP*GP*CP*UP*CP*UP*G)-3') | C F | RNA (5'-R(P*CP*AP*GP*AP*GP*CP*CP*CP*CP*CP*CP*AP*GP*CP*AP*UP*CP*GP*CP*GP*AP*GP*C)-3') | Non-standard residues in 5ed2 #1 --- 8AZ — 8-aza-nebularine-5'-monophosphate IHP — inositol hexakisphosphate (myo-inositol hexakisphosphate; inositol 1,2,3,4,5,6-hexakisphosphate) ZN — zinc ion 5ed2 mmCIF Assemblies --- 1| author_and_software_defined_assembly 2| author_and_software_defined_assembly 1 atoms have alternate locations. Control/examine alternate locations with Altloc Explorer [start tool...] or the altlocs command. Drag select of 571 atoms, 6 pseudobonds > select up 796 atoms, 833 bonds, 6 pseudobonds, 76 residues, 2 models selected > select up 1745 atoms, 1864 bonds, 6 pseudobonds, 149 residues, 2 models selected > select up 3994 atoms, 4169 bonds, 6 pseudobonds, 431 residues, 2 models selected > delete atoms (#!1 & sel) > delete bonds (#!1 & sel) Drag select of 37 atoms, 36 bonds > delete atoms sel > delete bonds sel > hide atoms > show cartoons > nucleotides atoms > style nucleic stick Changed 975 atom styles > nucleotides ladder > show atoms > hide atoms Drag select of 9 residues > select up 975 atoms, 1088 bonds, 46 residues, 1 model selected > show sel atoms > select clear > open 9B84 fromDatabase pdb format mmcif Summary of feedback from opening 9B84 fetched from pdb --- note | Fetching compressed mmCIF 9b84 from http://files.rcsb.org/download/9b84.cif 9b84 title: Cryo-EM structure of human ADAR1 in complex with dsRNA derived from HT2C gene [more info...] Chain information for 9b84 #2 --- Chain | Description | UniProt A B | Maltodextrin-binding protein,Double-stranded RNA-specific adenosine deaminase | C3SHQ8_ECOLX -264-101, DSRAD_HUMAN 127-1226 F | RNA (66-MER) | Non-standard residues in 9b84 #2 --- 8AZ — 8-aza-nebularine-5'-monophosphate IHP — inositol hexakisphosphate (myo-inositol hexakisphosphate; inositol 1,2,3,4,5,6-hexakisphosphate) ZN — zinc ion > ui tool show Matchmaker Drag select of 64 residues > matchmaker #!2 to #1 Computing secondary structure 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 5ed2, chain A (#1) with 9b84, chain A (#2), sequence alignment score = 864.1 RMSD between 283 pruned atom pairs is 1.104 angstroms; (across all 367 pairs: 4.016) > matchmaker #!2 to #1 Computing secondary structure 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 5ed2, chain A (#1) with 9b84, chain A (#2), sequence alignment score = 864.1 RMSD between 283 pruned atom pairs is 1.104 angstroms; (across all 367 pairs: 4.016) > matchmaker #!2 to #1 Computing secondary structure 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 5ed2, chain A (#1) with 9b84, chain A (#2), sequence alignment score = 864.1 RMSD between 283 pruned atom pairs is 1.104 angstroms; (across all 367 pairs: 4.016) Drag select of 156 atoms, 266 residues, 5 pseudobonds, 141 bonds > select up 2473 atoms, 2515 bonds, 5 pseudobonds, 321 residues, 3 models selected > select up 2749 atoms, 2799 bonds, 5 pseudobonds, 357 residues, 3 models selected > delete atoms (#!2 & sel) > delete bonds (#!2 & sel) Drag select of 1 atoms > delete atoms sel > delete bonds sel > hide #!1 models > show #!1 models > hide #!2 models Drag select of 4 residues, 6 shapes > select up 975 atoms, 1088 bonds, 46 residues, 1 model selected > hide sel cartoons > hide sel atoms > select clear > show #!2 models Drag select of 7 residues, 1 pseudobonds, 20 shapes > select up 238 atoms, 263 bonds, 1 pseudobond, 11 residues, 2 models selected > select up 1231 atoms, 1374 bonds, 1 pseudobond, 58 residues, 2 models selected > hide sel atoms > hide sel cartoons Alignment identifier is 2/F > select clear Alignment identifier is 1/A Alignment identifier is 1/B Alignment identifier is 1/C Alignment identifier is 2/A Alignment identifier is 2/F > hide atoms > select ::name=""8AZ""::name=""IHP""::name=""ZN"" 119 atoms, 120 bonds, 1 pseudobond, 7 residues, 3 models selected > show sel atoms > select clear > select up 2 atoms, 1 bond, 1 residue, 1 model selected > select up 22 atoms, 24 bonds, 1 residue, 1 model selected > select up 490 atoms, 547 bonds, 23 residues, 1 model selected > select down 22 atoms, 24 bonds, 1 residue, 1 model selected > select up 490 atoms, 547 bonds, 23 residues, 1 model selected > hide sel atoms > hide sel cartoons > hide sel surfaces > select #2/F:6@N9 1 atom, 1 residue, 1 model selected > select up 22 atoms, 24 bonds, 1 residue, 1 model selected > select up 1231 atoms, 1374 bonds, 58 residues, 1 model selected > hide sel atoms > select #1/A:459 7 atoms, 7 bonds, 1 residue, 1 model selected > select #1/A:459-472 115 atoms, 120 bonds, 14 residues, 1 model selected > show sel atoms > style sel stick Changed 115 atom styles > color sel lime > select clear > hide #!2 models > show #!2 models > hide #!2 models Drag select of 4 residues > select up 192 atoms, 198 bonds, 22 residues, 1 model selected > select up 3019 atoms, 3081 bonds, 385 residues, 1 model selected > color sel cyan > select clear > color #1 #82c9dcff Destroying pre-existing alignment with identifier 1/A Alignment identifier is 1/A Alignment identifier is 1/B Alignment identifier is 1/C Alignment identifier is 2/A Alignment identifier is 2/F > select #1/A:459 7 atoms, 7 bonds, 1 residue, 1 model selected > select #1/A:459-472 115 atoms, 120 bonds, 14 residues, 1 model selected > color sel #06cb17ff > select clear > hide #!1 atoms > select add #1 4031 atoms, 4205 bonds, 58 pseudobonds, 433 residues, 3 models selected > select subtract #1 Nothing selected > select clear > select ::name=""IHP"" 72 atoms, 72 bonds, 2 residues, 2 models selected > show sel & #!1 atoms > color (#!1 & sel) orange > color (#!1 & sel) byhetero > select clear Drag select of 1 residues > show sel atoms > color sel blue > select clear Drag select of 1 residues > show sel atoms > color sel red > select clear > set bgColor white > set bgColor #ffffff00 > lighting simple > lighting soft > lighting shadows true intensity 0.5 > lighting shadows false > lighting shadows true > graphics silhouettes true > lighting shadows false > lighting shadows true > lighting shadows false > lighting flat > graphics silhouettes false > graphics silhouettes true > graphics silhouettes false > graphics silhouettes true > lighting shadows true intensity 0.5 > graphics silhouettes false > graphics silhouettes true > lighting soft > lighting shadows true intensity 0.5 > hide #!1 models > show #!2 models > show #!1 models > hide #!1 models > color #2 #51a8ebff > select clear > select ::name=""8AZ""::name=""IHP""::name=""ZN"" 119 atoms, 120 bonds, 1 pseudobond, 7 residues, 3 models selected > hide sel & #!2 atoms > select ::name=""IHP"" 72 atoms, 72 bonds, 2 residues, 2 models selected > show sel & #!2 atoms > color (#!2 & sel) orange > color (#!2 & sel) byhetero > select clear Drag select of 1 residues > show sel atoms > style sel sphere Changed 8 atom styles > color sel red Drag select of 1 residues > show sel atoms > style sel sphere Changed 11 atom styles > color sel blue > select clear > select #2/A:977 6 atoms, 5 bonds, 1 residue, 1 model selected > select #2/A:977 6 atoms, 5 bonds, 1 residue, 1 model selected > select #2/A:977-985 55 atoms, 54 bonds, 9 residues, 1 model selected > select #2/A:986 6 atoms, 5 bonds, 1 residue, 1 model selected > select #2/A:986-990 39 atoms, 40 bonds, 5 residues, 1 model selected > select #2/A:973 5 atoms, 4 bonds, 1 residue, 1 model selected > select #2/A:973 5 atoms, 4 bonds, 1 residue, 1 model selected > select > #2/A:840-856,860-864,910-930,967-971,973-977,1021-1027,1036-1046,1049-1054,1072-1082,1089-1095,1157-1179,1181-1206 1148 atoms, 1159 bonds, 144 residues, 1 model selected > select #2/A:988 10 atoms, 10 bonds, 1 residue, 1 model selected > select #2/A:988-990 22 atoms, 23 bonds, 3 residues, 1 model selected > select #2/A:974-975 11 atoms, 10 bonds, 2 residues, 1 model selected > select #2/A:974-990 111 atoms, 112 bonds, 17 residues, 1 model selected > select #2/A:990-991 14 atoms, 14 bonds, 2 residues, 1 model selected > select #2/A:990-991 14 atoms, 14 bonds, 2 residues, 1 model selected > select #2/A:973 5 atoms, 4 bonds, 1 residue, 1 model selected > select #2/A:973-991 123 atoms, 124 bonds, 19 residues, 1 model selected > show #!1 models > hide #!1 models > select #2/A:973 5 atoms, 4 bonds, 1 residue, 1 model selected > select #2/A:973-993 143 atoms, 145 bonds, 21 residues, 1 model selected > color sel lime > select clear > show #!1 models > hide #!2 models > show #!2 models > hide #!1 models > show #!1 models > hide #!2 models > show #!2 models > hide #!1 models > show #!1 models > hide #!2 models > show #!2 models > hide #!1 models > show #!1 models > hide #!2 models > show #!2 models > hide #!1 models > hide #!2 models > show #!2 models > show #!1 models > hide #!2 models > show #!2 models > hide #!1 models > show #!1 models > hide #!2 models > show #!2 models > hide #!1 models > show #!1 models > hide #!2 models > lighting flat > lighting full > graphics silhouettes false > graphics silhouettes true > lighting shadows false > lighting soft > lighting shadows true intensity 0.5 > lighting shadows false > lighting shadows true > lighting shadows false > save ""C:/Users/alexm/OneDrive/Documents/2024__ADAR_paper/ADOBE IMAGES > NEW/CHIMERA EXPORT/ADAR2_vs_ADAR1__ADAR2.png"" width 859 height 570 > supersample 3 > show #!2 models > hide #!1 models > save ""C:/Users/alexm/OneDrive/Documents/2024__ADAR_paper/ADOBE IMAGES > NEW/CHIMERA EXPORT/ADAR2_vs_ADAR1__ADAR1.png"" width 859 height 570 > supersample 3 > hide #!2 models > show #!1 models > save ""C:/Users/alexm/OneDrive/Documents/2024__ADAR_paper/ADOBE IMAGES > NEW/CHIMERA EXPORT/ADAR2_vs_ADAR1__ADAR2.png"" width 6400 height 4247 > supersample 1 > hide #!1 models > show #!2 models > save ""C:/Users/alexm/OneDrive/Documents/2024__ADAR_paper/ADOBE IMAGES > NEW/CHIMERA EXPORT/ADAR2_vs_ADAR1__ADAR1.png"" width 6400 height 4247 > supersample 1 > show #!1 models > hide #!2 models Drag select of 75 residues > color sel #82c9dcff > select clear > select #1/C:23 20 atoms, 21 bonds, 1 residue, 1 model selected > select #1/C 485 atoms, 541 bonds, 23 residues, 1 model selected > select #1/B:23 23 atoms, 25 bonds, 1 residue, 1 model selected > select #1/B 490 atoms, 547 bonds, 23 residues, 1 model selected > show sel cartoons > select #1/C:23 20 atoms, 21 bonds, 1 residue, 1 model selected > select #1/C 485 atoms, 541 bonds, 23 residues, 1 model selected > show sel cartoons Drag select of 4 residues > select up 975 atoms, 1088 bonds, 46 residues, 1 model selected > show sel atoms > color sel dark gray > select clear > select #1/A:468 5 atoms, 4 bonds, 1 residue, 1 model selected > select #1/A:468-469 13 atoms, 12 bonds, 2 residues, 1 model selected > show sel atoms > style sel sphere Changed 13 atom styles > color sel lime > select clear > select #1/A:340 8 atoms, 7 bonds, 1 residue, 1 model selected > select #1/A:340-341 16 atoms, 15 bonds, 2 residues, 1 model selected > show sel atoms > color sel #55007fff > color sel #4f027fff > color sel #4b037fff > color sel #46057fff > color sel #38097fff > color sel #300b7fff > color sel #2d0d7fff > color sel #2e0e7fff > color sel #2c107fff > color sel #30107fff > color sel #33107fff > color sel #35107fff > color sel #3f117fff > color sel #42117fff > color sel #44117fff > color sel #48117fff > color sel #4c117fff > color sel #4e117fff > color sel #5b1d7fff > color sel #5f297fff > color sel #64357fff > color sel #65397fff > color sel #663c7fff > color sel #673c7fff > color sel #653c7fff > color sel #633c7fff > color sel #55346dff > color sel #54336cff > color sel #53326aff > color sel #4e2f64ff > color sel #4d2f63ff > color sel #4c2e61ff > color sel #4a2d5fff > color sel #4c2e61ff > color sel #4d2f62ff > color sel #ffffffff > color sel #cf3effff > color sel #cf3dffff > color sel #c637ffff > color sel #c635ffff > color sel #ba2fffff > color sel #b22cffff > color sel #b12bffff > color sel #b12affff > color sel #c227ffff > color sel #d426ffff > color sel #db25ffff > color sel #de23ffff > color sel #e522ffff > color sel #e521ffff > color sel #ec21ffff > color sel #e521ffff > color sel #da21ffff > color sel #cf22ffff > color sel #c430ffff > color sel #c533ffff > color sel #b355ffff > color sel #a95dffff > color sel #a860ffff > color sel #a362ffff > color sel #a463ffff > color sel #aa65ffff > color sel #b265ffff > color sel #b866ffff > color sel #c067ffff > color sel #a95be1ff > color sel #a85adfff > color sel #a458daff > color sel #8a4ab8ff > color sel #7941a1ff > color sel #68388aff > color sel #4d2a67ff > color sel #47265fff > color sel #47265eff > color sel #5c6369ff > color sel #515151ff > color sel #ffffffff > color sel #98ebffff > color sel #b6ffffff > color sel #b7ffffff > color sel #b9ffffff > color sel #baffffff > color sel #47265eff > select clear > select #1/A:360 4 atoms, 3 bonds, 1 residue, 1 model selected > select #1/A:360-361 11 atoms, 10 bonds, 2 residues, 1 model selected > show sel atoms > color sel #4a2862ff > color sel #4a2863ff > color sel #4b2864ff > color sel #4d2966ff > color sel #4d2a67ff > color sel #4e2a68ff > color sel #502b6aff > color sel #502b6bff > color sel #512c6cff > color sel #522c6dff > color sel #572f74ff > color sel #593076ff > color sel #5a3078ff > color sel #613481ff > color sel #69398cff > select clear > select #1/A:416 8 atoms, 7 bonds, 1 residue, 1 model selected > select #1/A:416-417 16 atoms, 15 bonds, 2 residues, 1 model selected > select #1/A:417 8 atoms, 7 bonds, 1 residue, 1 model selected > select #1/A:417-418 17 atoms, 16 bonds, 2 residues, 1 model selected > show sel atoms > color sel #78409fff > color sel #7941a1ff > color sel #7d43a6ff > color sel #8447afff > color sel #8748b3ff > color sel #8749b4ff > select clear > select #1/A:430 9 atoms, 8 bonds, 1 residue, 1 model selected > select #1/A:430-431 20 atoms, 19 bonds, 2 residues, 1 model selected > show sel atoms > color sel #8c4bbaff > color sel #8d4cbcff > color sel #8f4dbeff > color sel #924ec2ff > color sel #934fc3ff > color sel #9450c5ff > color sel #9550c6ff > color sel #9650c7ff > color sel #9852caff > color sel #9b53ceff > color sel #9c54d0ff > color sel #9d54d1ff > color sel #9f55d3ff > color sel #9f56d4ff > color sel #a056d5ff > color sel #a257d8ff > color sel #a358d9ff > color sel #a458daff > select clear > select #1/A:495 6 atoms, 5 bonds, 1 residue, 1 model selected > select #1/A:495-496 14 atoms, 13 bonds, 2 residues, 1 model selected > show sel atoms > color sel #ad5de6ff > color sel #ae5de7ff > color sel #b360eeff > color sel #b762f3ff > color sel #b763f4ff > color sel #ba64f8ff > color sel #bc65faff > color sel #be66fdff > color sel #bf67feff > color sel #c067ffff > select clear > select #1/A:495 6 atoms, 5 bonds, 1 residue, 1 model selected > select #1/A:495-496 14 atoms, 13 bonds, 2 residues, 1 model selected > color sel #df69ffff > color sel #df6affff > color sel #e26cffff > color sel #ff7efdff > color sel #ff83f5ff > color sel #ff86f5ff > color sel #ff89efff > color sel #ff8cecff > color sel #ff8cf0ff > color sel #ff8cf4ff > color sel #ff8cf9ff > color sel #ff8cfdff > color sel #fb8cffff > select clear > select #1/A:585 6 atoms, 5 bonds, 1 residue, 1 model selected > select #1/A:585-586 14 atoms, 13 bonds, 2 residues, 1 model selected > show sel atoms > color sel #ee8effff > color sel #e493ffff > color sel #d895ffff > color sel #d898ffff > color sel #d899ffff > color sel #de9bffff > color sel #e7a0ffff > color sel #f7a4ffff > color sel #f9a5ffff > color sel #ffa5ffff > color sel #ffa6ffff > color sel #ffa7ffff > color sel #ffa9ffff > color sel #ffaaffff > color sel #ffacffff > color sel #ffafffff > color sel #ffb2ffff > color sel #ffb3feff > color sel #ffb4feff > color sel #ffb4fbff > color sel #ffb4feff > color sel #ffb3feff > color sel #ffb2ffff > color sel #ffaeffff > color sel #ffacffff > color sel #ffabffff > color sel #ffaaffff > color sel #ffa9ffff > color sel #fca7ffff > color sel #f9a6ffff > color sel #f9a5ffff > color sel #f9a4ffff > color sel #f9a2ffff > color sel #f9a1ffff > select clear > select #1/A:620 9 atoms, 8 bonds, 1 residue, 1 model selected > select #1/A:620-621 17 atoms, 16 bonds, 2 residues, 1 model selected > show sel atoms > style sel sphere Changed 17 atom styles > color sel #f79dffff > color sel #f79effff > color sel #ffb3ffff > color sel #ffb8ffff > color sel #ffb9ffff > color sel #ffbcffff > color sel #ffc1ffff > color sel #ffc2ffff > color sel #ffc4ffff > color sel #fbc5ffff > color sel #f8c6ffff > color sel #fbbeffff > color sel #fbbdffff > color sel #f9b8ffff > color sel #f7b7ffff > select clear > select #1/A:644 7 atoms, 7 bonds, 1 residue, 1 model selected > select #1/A:644-645 13 atoms, 13 bonds, 2 residues, 1 model selected > show sel atoms > color sel #f5b9ffff > color sel #f5bcffff > color sel #f8c6ffff > color sel #fac6ffff > color sel #fccdffff > color sel #fccfffff > color sel #fcd2ffff > color sel #fed3ffff > color sel #ffd4feff > color sel #ffd7feff > color sel #ffd8feff > select clear > select #1/A:654-655 16 atoms, 16 bonds, 2 residues, 1 model selected > select #1/A:654-655 16 atoms, 16 bonds, 2 residues, 1 model selected > show sel atoms > color sel #ffd9fbff > color sel #ffd9fcff > color sel #ffe5fcff > color sel #ffebfcff > color sel #fff0fdff > color sel #fff3fdff > color sel #fff4fdff > color sel #fff4feff > select clear > view orient > view > view orient > ui tool show ""Side View"" > view orient > lighting simple > lighting shadows true > lighting shadows false > lighting flat > lighting full > lighting soft > lighting simple > lighting shadows true > lighting shadows false > lighting soft > lighting shadows true intensity 0.5 > lighting shadows false > save ""C:/Users/alexm/OneDrive/Documents/2024__ADAR_paper/ADOBE IMAGES > NEW/CHIMERA EXPORT/ADAR2_split_sites_view1.png"" width 6400 height 4649 > supersample 1 > turn > preset ""overall look"" ""publication 1 (silhouettes)"" Using preset: Overall Look / Publication 1 (Silhouettes) Preset expands to these ChimeraX commands: set bg white graphics silhouettes t lighting depthCue f > lighting depthCue true > save ""C:/Users/alexm/OneDrive/Documents/2024__ADAR_paper/ADOBE IMAGES > NEW/CHIMERA EXPORT/ADAR2_split_sites_view1.png"" width 6400 height 4649 > supersample 1 > turn > save ""C:/Users/alexm/OneDrive/Documents/2024__ADAR_paper/ADOBE IMAGES > NEW/CHIMERA EXPORT/ADAR2_split_sites_view2.png"" width 6400 height 4649 > supersample 1 QWindowsWindow::setGeometry: Unable to set geometry 708x1046+1860+604 (frame: 734x1117+1847+546) on QWidgetWindow/""QDockWidgetClassWindow"" on ""\\\\.\DISPLAY1"". Resulting geometry: 698x1014+1865+631 (frame: 724x1085+1852+573) margins: 13, 58, 13, 13 minimum size: 70x42 maximum size: 524287x524287 MINMAXINFO(maxSize=POINT(x=0, y=0), maxpos=POINT(x=0, y=0), maxtrack=POINT(x=1048600, y=1048645), mintrack=POINT(x=166, y=155))) QWindowsWindow::setGeometry: Unable to set geometry 690x232+2308+436 (frame: 716x303+2295+378) on QWidgetWindow/""QDockWidgetClassWindow"" on ""\\\\.\DISPLAY1"". Resulting geometry: 680x200+2313+463 (frame: 706x271+2300+405) margins: 13, 58, 13, 13 minimum size: 70x42 maximum size: 524287x524287 MINMAXINFO(maxSize=POINT(x=0, y=0), maxpos=POINT(x=0, y=0), maxtrack=POINT(x=1048600, y=1048645), mintrack=POINT(x=166, y=155))) QWindowsWindow::setGeometry: Unable to set geometry 690x232+2262+722 (frame: 716x303+2249+664) on QWidgetWindow/""QDockWidgetClassWindow"" on ""\\\\.\DISPLAY1"". Resulting geometry: 680x200+2267+749 (frame: 706x271+2254+691) margins: 13, 58, 13, 13 minimum size: 70x42 maximum size: 524287x524287 MINMAXINFO(maxSize=POINT(x=0, y=0), maxpos=POINT(x=0, y=0), maxtrack=POINT(x=1048600, y=1048645), mintrack=POINT(x=166, y=155))) > select #1/A:360 4 atoms, 3 bonds, 1 residue, 1 model selected > select #1/A:360-361 11 atoms, 10 bonds, 2 residues, 1 model selected > select #1/A:585@CB 1 atom, 1 residue, 1 model selected Drag select of 3 atoms, 1 residues > select clear Drag select of 2 atoms > select clear Drag select of 4 atoms Drag select of 9 residues > select up 356 atoms, 361 bonds, 41 residues, 1 model selected > select up 3019 atoms, 3081 bonds, 385 residues, 1 model selected > ui tool show ""Color Actions"" > select clear Drag select of 7 residues > select up 257 atoms, 262 bonds, 32 residues, 1 model selected > select up 3019 atoms, 3081 bonds, 385 residues, 1 model selected > ui tool show ""Render/Select by Attribute"" > color byattribute a:bfactor #!1-2 target abcs palette > 0.63,#06cb17:96.665,#fbff00:192.7,red Collection has bfactors 8263 atoms, 878 residues, atom bfactor range 0.63 to 193 > select clear Drag select of 9 residues, 7 shapes > select up 975 atoms, 1088 bonds, 46 residues, 1 model selected > select up 4031 atoms, 4205 bonds, 433 residues, 1 model selected > select down 975 atoms, 1088 bonds, 46 residues, 1 model selected > color sel dark gray > select clear > color byattribute a:bfactor #!1-2 target abcs palette > 0.63,#06cb17:96.665,#fbff00:137.286,red Collection has bfactors 8263 atoms, 878 residues, atom bfactor range 0.63 to 193 > color byattribute a:bfactor #!1-2 target abcs palette > 0.63,#06cb17:96.665,#fbff00:160.297,red Collection has bfactors 8263 atoms, 878 residues, atom bfactor range 0.63 to 193 > color byattribute a:bfactor #!1-2 target abcs palette > 58.3919,#06cb17:96.665,#fbff00:160.297,red Collection has bfactors 8263 atoms, 878 residues, atom bfactor range 0.63 to 193 > color byattribute a:bfactor #!1-2 target abcs palette > 58.3919,#06cb17:109.814,#fbff00:160.297,red Collection has bfactors 8263 atoms, 878 residues, atom bfactor range 0.63 to 193 Drag select of 6 residues, 4 shapes > select up 975 atoms, 1088 bonds, 46 residues, 1 model selected > color sel dark gray > select clear > turn > select #1/A:801@C3 1 atom, 1 residue, 1 model selected > undo Drag select of 1 atoms > select clear > select up 2 atoms, 1 bond, 1 residue, 1 model selected > select up 36 atoms, 36 bonds, 1 residue, 1 model selected > color sel orange > color sel byhetero > select clear > color byattribute a:bfactor #!1-2 target abcs palette > 58.3919,#06cb17:109.814,white:160.297,#aa55ff Collection has bfactors 8263 atoms, 878 residues, atom bfactor range 0.63 to 193 Drag select of 2 residues, 3 shapes > select up 975 atoms, 1088 bonds, 46 residues, 1 model selected > color sel dark gray > select clear > turn > color byattribute a:bfactor #!1-2 target abcs palette > 58.3919,#06cb17:98.0738,white:160.297,#aa55ff Collection has bfactors 8263 atoms, 878 residues, atom bfactor range 0.63 to 193 > color byattribute a:bfactor #!1-2 target abcs palette > 66.8448,#06cb17:98.0738,white:160.297,#aa55ff Collection has bfactors 8263 atoms, 878 residues, atom bfactor range 0.63 to 193 > turn > color byattribute a:bfactor #!1-2 target abcs palette > 66.8448,#06cb17:105.118,white:160.297,#aa55ff Collection has bfactors 8263 atoms, 878 residues, atom bfactor range 0.63 to 193 > color byattribute a:bfactor #!1-2 target abcs palette > 66.8448,#06cb17:105.118,white:151.374,#aa55ff Collection has bfactors 8263 atoms, 878 residues, atom bfactor range 0.63 to 193 > turn Drag select of 2 residues, 1 shapes > select up 485 atoms, 541 bonds, 23 residues, 1 model selected > select up 4031 atoms, 4205 bonds, 433 residues, 1 model selected > select clear Drag select of 2 residues, 1 shapes > select up 485 atoms, 541 bonds, 23 residues, 1 model selected > select up 4031 atoms, 4205 bonds, 433 residues, 1 model selected > select clear Drag select of 8 residues, 9 shapes > select up 975 atoms, 1088 bonds, 46 residues, 1 model selected > color sel dark gray > select clear > select ::name=""IHP"" 72 atoms, 72 bonds, 2 residues, 2 models selected > color (#!1 & sel) orange > color (#!1 & sel) byhetero > select clear > save ""C:/Users/alexm/OneDrive/Documents/2024__ADAR_paper/ADOBE IMAGES > NEW/CHIMERA EXPORT/ADAR2_split_sites_BFactor_view1.png"" width 859 height 624 > supersample 3 > turn > save ""C:/Users/alexm/OneDrive/Documents/2024__ADAR_paper/ADOBE IMAGES > NEW/CHIMERA EXPORT/ADAR2_split_sites_BFactor_view2.png"" width 859 height 624 > supersample 3 > turn > save ""C:/Users/alexm/OneDrive/Documents/2024__ADAR_paper/ADOBE IMAGES > NEW/CHIMERA EXPORT/ADAR2_split_sites_BFactor_view1.png"" width 6400 height > 4649 supersample 1 > turn > save ""C:/Users/alexm/OneDrive/Documents/2024__ADAR_paper/ADOBE IMAGES > NEW/CHIMERA EXPORT/ADAR2_split_sites_BFactor_view2.png"" width 6400 height > 4649 supersample 1 > turn > save ""C:/Users/alexm/OneDrive/Documents/2024__ADAR_paper/ADOBE IMAGES > NEW/CHIMERA EXPORT/ADAR2_split_sites_BFactor_view1.png"" width 6400 height > 4649 supersample 1 > ui tool show ""Color Key"" > ui mousemode right ""color key"" > key delete > select clear > ui tool show ""Color Key"" > ui mousemode right ""color key"" > key blue:min white: #565d62:max > key blue:min white: #4c4c4c:max > key blue:min white: #9d9d90:max > key blue:min white: #c8c5a9:max > key blue:min white: #4d4d4d:max > key blue:min white: #a6e2ff:max > key blue:min white: #4d4d4d:max > key blue:min white: #2d2d2d:max > key blue:min white: #4b4b4b:max > key blue:min white: black:max > key blue:min white: #06cb17:max > key blue:min #575e64: #06cb17:max > key blue:min #4d4d4d: #06cb17:max > key blue:min #bfc8a5: #06cb17:max > key blue:min black: #06cb17:max > key blue:min white: #06cb17:max > key blue:min black: #06cb17:max > key blue:min white: #06cb17:max > key #565c62:min white: #06cb17:max > key #674c4c:min white: #06cb17:max > key #b7c8b1:min white: #06cb17:max > key #4b4b4b:min white: #06cb17:max > key #dfc0ff:min white: #06cb17:max > key #4b4b4b:min white: #06cb17:max > key #171717:min white: #06cb17:max > key black:min white: #06cb17:max > key #2d2d2d:min white: #06cb17:max > key black:min white: #06cb17:max > key #2d2d2d:min white: #06cb17:max > key black:min white: #06cb17:max > key #aa55ff:min white: #06cb17:max > key #06cb17:max white: #aa55ff:min > key #06cb17:1 white: #aa55ff:min > key #06cb17:15 white: #aa55ff:min > key #06cb17:150 white: #aa55ff:min > key #06cb17:150 white: #aa55ff:1 > key #06cb17:150 white: #aa55ff:15 > key #06cb17:150 white: #aa55ff:150 > key #06cb17:7 white: #aa55ff:150 > key #06cb17:70 white: #aa55ff:150 > key #06cb17:6 white: #aa55ff:150 > key #06cb17:65 white: #aa55ff:150 > key #06cb17:65 white:1 #aa55ff:150 > key #06cb17:65 white:10 #aa55ff:150 > key #06cb17:65 white:105 #aa55ff:150 > color byattribute a:bfactor #!1-2 target abcs palette > 65,#06cb17:105,white:145,#aa55ff Collection has bfactors 8263 atoms, 878 residues, atom bfactor range 0.63 to 193 > key #06cb17:65 white: #aa55ff:150 > undo > key pos 0.7,0.08 > key pos 0.705821,0.815577 > key pos 0.745052,0.146635 size 0.0389988,0.435096 > key pos 0.844004,0.459936 > color byattribute a:bfactor #!1-2 target abcs palette > 70,#06cb17:105,white:145,#aa55ff Collection has bfactors 8263 atoms, 878 residues, atom bfactor range 0.63 to 193 > color byattribute a:bfactor #!1-2 target abcs palette > 70,#06cb17:105,white:140,#aa55ff Collection has bfactors 8263 atoms, 878 residues, atom bfactor range 0.63 to 193 > color byattribute a:bfactor #!1-2 target abcs palette > 70,#06cb17:105,white:140,#aa55ff Collection has bfactors 8263 atoms, 878 residues, atom bfactor range 0.63 to 193 > color byattribute a:bfactor #!1-2 target abcs palette > 70,#06cb17:105,white:140,#aa55ff Collection has bfactors 8263 atoms, 878 residues, atom bfactor range 0.63 to 193 > ui tool show ""Color Key"" > ui mousemode right ""color key"" > key #06cb17:65 white: #aa55ff:1 > key #06cb17:65 white: #aa55ff:14 > key #06cb17:65 white: #aa55ff:140 > key #06cb17:7 white: #aa55ff:140 > key #06cb17:70 white: #aa55ff:140 > ui mousemode right translate > ui mousemode middle 'color key' > ui mousemode middle translate > ui mousemode right 'color key' > key border false > key borderColor #bfbfbf > key borderColor default > key labelSide right/bottom > turn Drag select of 7 residues, 6 shapes > select up 975 atoms, 1088 bonds, 46 residues, 1 model selected > color sel dark gray > select clear > select ::name=""IHP"" 72 atoms, 72 bonds, 2 residues, 2 models selected > color (#!1 & sel) orange > color (#!1 & sel) byhetero > turn > select clear > turn > save ""C:/Users/alexm/OneDrive/Documents/2024__ADAR_paper/ADOBE IMAGES > NEW/CHIMERA EXPORT/ADAR2_split_sites_BFactor_view1.png"" width 6400 height > 4649 supersample 1 > turn > save ""C:/Users/alexm/OneDrive/Documents/2024__ADAR_paper/ADOBE IMAGES > NEW/CHIMERA EXPORT/ADAR2_split_sites_BFactor_view2.png"" width 6400 height > 4649 supersample 1 > turn > save ""C:/Users/alexm/OneDrive/Documents/2024__ADAR_paper/ADOBE IMAGES > NEW/CHIMERA EXPORT/ADAR2_split_sites_BFactor_view1.png"" width 6400 height > 4649 supersample 1 > turn Drag select of 1 atoms, 1 residues > select clear Drag select of 5 residues > select clear Drag select of 2 atoms, 1 residues, 4 shapes Drag select of 2 atoms, 4 residues, 1 bonds > select clear > select #1/A:316 5 atoms, 4 bonds, 1 residue, 1 model selected > select #1/A:316-317 10 atoms, 9 bonds, 2 residues, 1 model selected > color sel blue > undo > select clear > select #1/A:316@CB 1 atom, 1 residue, 1 model selected > select up 5 atoms, 4 bonds, 1 residue, 1 model selected > color sel blue > select clear > turn > select #1/A:700@CA 1 atom, 1 residue, 1 model selected > select up 7 atoms, 6 bonds, 1 residue, 1 model selected > color sel red > select clear > turn > save ""C:/Users/alexm/OneDrive/Documents/2024__ADAR_paper/ADOBE IMAGES > NEW/CHIMERA EXPORT/ADAR2_split_sites_BFactor_view1.png"" width 6400 height > 4649 supersample 3 > turn > save ""C:/Users/alexm/OneDrive/Documents/2024__ADAR_paper/ADOBE IMAGES > NEW/CHIMERA EXPORT/ADAR2_split_sites_BFactor_view2.png"" width 6400 height > 4649 supersample 3 ""Unable to open monitor interface to \\\\\\\\.\\\DISPLAY1:"" ""The operation completed successfully."" monitorData: Unable to obtain handle for monitor '\\\\.\DISPLAY1', defaulting to 96 DPI. ""Unable to open monitor interface to \\\\\\\\.\\\DISPLAY1:"" ""The operation completed successfully."" monitorData: Unable to obtain handle for monitor '\\\\.\DISPLAY1', defaulting to 96 DPI. ""Unable to open monitor interface to \\\\\\\\.\\\DISPLAY1:"" ""The operation completed successfully."" monitorData: Unable to obtain handle for monitor '\\\\.\DISPLAY1', defaulting to 96 DPI. ""Unable to open monitor interface to \\\\\\\\.\\\DISPLAY1:"" ""The operation completed successfully."" monitorData: Unable to obtain handle for monitor '\\\\.\DISPLAY1', defaulting to 96 DPI. ""Unable to open monitor interface to \\\\\\\\.\\\DISPLAY1:"" ""The operation completed successfully."" monitorData: Unable to obtain handle for monitor '\\\\.\DISPLAY1', defaulting to 96 DPI. ""Unable to open monitor interface to \\\\\\\\.\\\DISPLAY1:"" ""The operation completed successfully."" monitorData: Unable to obtain handle for monitor '\\\\.\DISPLAY1', defaulting to 96 DPI. ""Unable to open monitor interface to \\\\\\\\.\\\DISPLAY1:"" ""The operation completed successfully."" monitorData: Unable to obtain handle for monitor '\\\\.\DISPLAY1', defaulting to 96 DPI. ""Unable to open monitor interface to \\\\\\\\.\\\DISPLAY1:"" ""The operation completed successfully."" monitorData: Unable to obtain handle for monitor '\\\\.\DISPLAY1', defaulting to 96 DPI. ""Unable to open monitor interface to \\\\\\\\.\\\DISPLAY1:"" ""The operation completed successfully."" monitorData: Unable to obtain handle for monitor '\\\\.\DISPLAY1', defaulting to 96 DPI. ""Unable to open monitor interface to \\\\\\\\.\\\DISPLAY1:"" ""The operation completed successfully."" monitorData: Unable to obtain handle for monitor '\\\\.\DISPLAY1', defaulting to 96 DPI. ""Unable to open monitor interface to \\\\\\\\.\\\DISPLAY1:"" ""The operation completed successfully."" monitorData: Unable to obtain handle for monitor '\\\\.\DISPLAY1', defaulting to 96 DPI. ""Unable to open monitor interface to \\\\\\\\.\\\DISPLAY1:"" ""The operation completed successfully."" monitorData: Unable to obtain handle for monitor '\\\\.\DISPLAY1', defaulting to 96 DPI. ""Unable to open monitor interface to \\\\\\\\.\\\DISPLAY1:"" ""The operation completed successfully."" monitorData: Unable to obtain handle for monitor '\\\\.\DISPLAY1', defaulting to 96 DPI. ""Unable to open monitor interface to \\\\\\\\.\\\DISPLAY1:"" ""The operation completed successfully."" monitorData: Unable to obtain handle for monitor '\\\\.\DISPLAY1', defaulting to 96 DPI. Failed to create 2D texture: COM error 0x887a0005: The GPU device instance has been suspended. Use GetDeviceRemovedReason to determine the appropriate action. QQuickWidget: failed to create resized output texture of size 1718x814 Failed to create depth-stencil buffer: COM error 0x887a0005: The GPU device instance has been suspended. Use GetDeviceRemovedReason to determine the appropriate action. QQuickWidget: failed to create resized depth/stencil buffer of size 1718x814 D3D: Failed to share D3D11 texture (COM error 0x887a0005: The GPU device instance has been suspended. Use GetDeviceRemovedReason to determine the appropriate action.). This will result in failed rendering. Report the bug, and try restarting with QTWEBENGINE_CHROMIUM_FLAGS=--disble-gpu Failed to create 2D texture: COM error 0x887a0005: The GPU device instance has been suspended. Use GetDeviceRemovedReason to determine the appropriate action. QQuickWidget: failed to create resized output texture of size 1150x784 Failed to create depth-stencil buffer: COM error 0x887a0005: The GPU device instance has been suspended. Use GetDeviceRemovedReason to determine the appropriate action. QQuickWidget: failed to create resized depth/stencil buffer of size 1150x784 Device loss detected in ResizeBuffers() Failed to create 2D texture: COM error 0x887a0005: The GPU device instance has been suspended. Use GetDeviceRemovedReason to determine the appropriate action. ===== Log before crash end ===== Log: Startup Messages --- warning | QWindowsWindow::setGeometry: Unable to set geometry 3840x1760-960+116 (frame: 3866x1831-973+58) on QWidgetWindow/""MainWindowClassWindow"" on ""\\\\.\DISPLAY2"". Resulting geometry: 3840x1759-960+116 (frame: 3866x1830-973+58) margins: 13, 58, 13, 13 minimum size: 63x49 MINMAXINFO(maxSize=POINT(x=0, y=0), maxpos=POINT(x=0, y=0), maxtrack=POINT(x=0, y=0), mintrack=POINT(x=152, y=169))) note | available bundle cache has not been initialized yet UCSF ChimeraX version: 1.10.dev202503060250 (2025-03-06) © 2016-2025 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX OpenGL version: 3.3.0 NVIDIA 560.94 OpenGL renderer: NVIDIA GeForce RTX 4050 Laptop GPU/PCIe/SSE2 OpenGL vendor: NVIDIA Corporation Python: 3.11.4 Locale: en_US.cp1252 Qt version: PyQt6 6.8.1, Qt 6.8.2 Qt runtime version: 6.8.2 Qt platform: windows Manufacturer: SAMSUNG ELECTRONICS CO., LTD. Model: 960XFH OS: Microsoft Windows 11 Home (Build 26100) Memory: 16,717,942,784 MaxProcessMemory: 137,438,953,344 CPU: 20 13th Gen Intel(R) Core(TM) i7-13700H OSLanguage: en-US Installed Packages: alabaster: 1.0.0 appdirs: 1.4.4 asttokens: 3.0.0 auditwheel: 6.2.0 babel: 2.17.0 beautifulsoup4: 4.13.3 blockdiag: 3.0.0 blosc2: 3.2.0 build: 1.2.2.post1 certifi: 2025.1.31 cftime: 1.6.4.post1 charset-normalizer: 3.4.1 ChimeraX-AddCharge: 1.5.18 ChimeraX-AddH: 2.2.6 ChimeraX-AlignmentAlgorithms: 2.0.2 ChimeraX-AlignmentHdrs: 3.6 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 2.19.1 ChimeraX-AlphaFold: 1.0.1 ChimeraX-AltlocExplorer: 1.1.2 ChimeraX-AmberInfo: 1.0 ChimeraX-Aniso: 1.1.1 ChimeraX-Arrays: 1.1 ChimeraX-Atomic: 1.60.5 ChimeraX-AtomicLibrary: 14.1.13 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.4 ChimeraX-BasicActions: 1.1.3 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 3.0.0 ChimeraX-BondRot: 2.0.4 ChimeraX-BugReporter: 1.0.2 ChimeraX-BuildStructure: 2.13.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.4.0 ChimeraX-ButtonPanel: 1.0.1 ChimeraX-CageBuilder: 1.0.1 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.4 ChimeraX-ChangeChains: 1.1 ChimeraX-CheckWaters: 1.4 ChimeraX-ChemGroup: 2.0.1 ChimeraX-Clashes: 2.3 ChimeraX-ColorActions: 1.0.5 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.8 ChimeraX-CommandLine: 1.2.5 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.10.dev202503060250 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 ChimeraX-Help: 1.3 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.1 ChimeraX-ImageFormats: 1.2 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.3 ChimeraX-ItemsInspection: 1.0.1 ChimeraX-IUPAC: 1.0 ChimeraX-KVFinder: 1.5.1 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: 2.1.7 ChimeraX-MCopy: 1.0 ChimeraX-MDcrds: 2.7.2 ChimeraX-MedicalToolbar: 1.1 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.14.2 ChimeraX-MMTF: 2.2 ChimeraX-ModelArchive: 1.0 ChimeraX-Modeller: 1.5.18 ChimeraX-ModelPanel: 1.5 ChimeraX-ModelSeries: 1.0.1 ChimeraX-Mol2: 2.0.3 ChimeraX-Mole: 1.0 ChimeraX-Morph: 1.0.2 ChimeraX-MouseModes: 1.2 ChimeraX-Movie: 1.0 ChimeraX-MutationScores: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nifti: 1.2 ChimeraX-NMRSTAR: 1.0.2 ChimeraX-NRRD: 1.2 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.14.1 ChimeraX-OrthoPick: 1.0.1 ChimeraX-PDB: 2.7.7 ChimeraX-PDBBio: 1.0.1 ChimeraX-PDBLibrary: 1.0.4 ChimeraX-PDBMatrices: 1.0 ChimeraX-PickBlobs: 1.0.1 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.1.2 ChimeraX-ProfileGrids: 1.0.2 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 ChimeraX-Shape: 1.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.2.0 ChimeraX-ShowSequences: 1.0.3 ChimeraX-SideView: 1.0.1 ChimeraX-SimilarStructures: 1.0.1 ChimeraX-Smiles: 2.1.2 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.19.1 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: 1.44 ChimeraX-Umap: 1.0 ChimeraX-uniprot: 2.3.1 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.4.4 ChimeraX-VIPERdb: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0.1 ChimeraX-vrml: 1.0 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0.2 ChimeraX-WebServices: 1.1.4 ChimeraX-Zone: 1.0.1 colorama: 0.4.6 comm: 0.2.2 comtypes: 1.4.5 contourpy: 1.3.1 coverage: 7.6.12 cxservices: 1.2.3 cycler: 0.12.1 Cython: 3.0.12 debugpy: 1.8.13 decorator: 5.2.1 docutils: 0.21.2 executing: 2.2.0 filelock: 3.17.0 fonttools: 4.56.0 funcparserlib: 2.0.0a0 glfw: 2.8.0 grako: 3.16.5 h5py: 3.13.0 html2text: 2024.2.26 idna: 3.10 ihm: 2.2 imagecodecs: 2024.6.1 imagesize: 1.4.1 iniconfig: 2.0.0 ipykernel: 6.29.5 ipython: 8.26.0 ipywidgets: 8.1.5 jedi: 0.19.1 Jinja2: 3.1.5 jupyter_client: 8.6.2 jupyter_core: 5.7.2 jupyterlab_widgets: 3.0.13 kiwisolver: 1.4.8 line_profiler: 4.2.0 lxml: 5.3.1 lz4: 4.4.3 MarkupSafe: 3.0.2 matplotlib: 3.9.2 matplotlib-inline: 0.1.7 msgpack: 1.1.0 narwhals: 1.33.0 ndindex: 1.9.2 nest-asyncio: 1.6.0 netCDF4: 1.6.5 networkx: 3.3 nibabel: 5.2.0 nptyping: 2.5.0 numexpr: 2.10.2 numpy: 2.2.4 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 pickleshare: 0.7.5 pillow: 10.4.0 pip: 25.0.1 pkginfo: 1.11.1 platformdirs: 4.3.6 plotly: 6.0.1 pluggy: 1.5.0 prompt_toolkit: 3.0.50 psutil: 6.0.0 pure_eval: 0.2.3 py-cpuinfo: 9.0.0 pycollada: 0.8 pydicom: 2.4.4 pyelftools: 0.32 Pygments: 2.18.0 pynmrstar: 3.3.5 pynrrd: 1.0.0 PyOpenGL: 3.1.9 PyOpenGL-accelerate: 3.1.9 pyopenxr: 1.0.3401 pyparsing: 3.2.1 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: 8.3.5 pytest-cov: 6.0.0 python-dateutil: 2.9.0.post0 pytz: 2025.1 pywin32: 306 pyzmq: 26.2.1 qtconsole: 5.5.2 QtPy: 2.4.3 qtshim: 1.1 RandomWords: 0.4.0 requests: 2.32.3 scipy: 1.14.0 setuptools: 75.8.2 sfftk-rw: 0.8.1 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 soupsieve: 2.6 Sphinx: 8.1.3 sphinx-autodoc-typehints: 3.0.1 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: 2024.7.24 tinyarray: 1.2.4 toml: 0.10.2 tornado: 6.4.2 traitlets: 5.14.3 typing_extensions: 4.12.2 tzdata: 2025.1 urllib3: 2.3.0 wcwidth: 0.2.13 webcolors: 24.11.1 wheel: 0.45.1 wheel-filename: 1.4.2 widgetsnbextension: 4.0.13 WMI: 1.5.1 }}} " defect closed normal Graphics nonchimerax all ChimeraX