id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 18198 Crash on Mac waking from sleep chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: macOS-15.1.1-arm64-arm-64bit ChimeraX Version: 1.9rc202412041747 (2024-12-04 17:47:20 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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[ ] } } ===== Log before crash start ===== Startup Messages --- note | available bundle cache has not been initialized yet UCSF ChimeraX version: 1.9rc202412041747 (2024-12-04) © 2016-2024 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open /Users/huan/Downloads/17-3.pdb Chain information for 17-3.pdb #1 --- Chain | Description A | No description available > open ""/Users/huan/Downloads/Template-guided Structure > Prediction/rank_001.pdb"" Chain information for rank_001.pdb #2 --- Chain | Description A | No description available Computing secondary structure > ui tool show Matchmaker > 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 17-3.pdb, chain A (#1) with rank_001.pdb, chain A (#2), sequence alignment score = 5760.4 RMSD between 1186 pruned atom pairs is 0.637 angstroms; (across all 1235 pairs: 2.696) > set bgColor white > lighting soft > lighting simple > lighting soft > lighting flat > lighting soft > open /Users/huan/Documents/Projects/Nav1.6/open-loop-CTD.pdb Chain information for open-loop-CTD.pdb #3 --- Chain | Description A | No description available B | No description available C | No description available > ui tool show Matchmaker > matchmaker #2#!3 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 17-3.pdb, chain A (#1) with rank_001.pdb, chain A (#2), sequence alignment score = 5760.4 RMSD between 1186 pruned atom pairs is 0.637 angstroms; (across all 1235 pairs: 2.696) Matchmaker 17-3.pdb, chain A (#1) with open-loop-CTD.pdb, chain A (#3), sequence alignment score = 6262.9 RMSD between 1202 pruned atom pairs is 0.064 angstroms; (across all 1209 pairs: 1.613) > select #3/B 1487 atoms, 1520 bonds, 178 residues, 1 model selected > delete atoms sel > delete bonds sel > select #3/C 975 atoms, 999 bonds, 119 residues, 1 model selected > delete atoms sel > delete bonds sel > open /Users/huan/Downloads/rank_002_alphafold2_ptm_model_4_seed_000.pdb Chain information for rank_002_alphafold2_ptm_model_4_seed_000.pdb #4 --- Chain | Description A | No description available Computing secondary structure > ui tool show Matchmaker > matchmaker #2,4#!3 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 17-3.pdb, chain A (#1) with rank_001.pdb, chain A (#2), sequence alignment score = 5760.4 RMSD between 1186 pruned atom pairs is 0.637 angstroms; (across all 1235 pairs: 2.696) Matchmaker 17-3.pdb, chain A (#1) with rank_002_alphafold2_ptm_model_4_seed_000.pdb, chain A (#4), sequence alignment score = 5676.4 RMSD between 627 pruned atom pairs is 1.102 angstroms; (across all 1235 pairs: 4.349) Matchmaker 17-3.pdb, chain A (#1) with open-loop-CTD.pdb, chain A (#3), sequence alignment score = 6262.9 RMSD between 1202 pruned atom pairs is 0.064 angstroms; (across all 1209 pairs: 1.613) > hide #2 models > hide #1 models > hide #4 models > show #4 models > hide #4 models > view > ui tool show ""Side View"" > show #2 models > hide #2 models > show #4 models > hide #4 models > show #4 models > hide #4 models > show #2 models > hide #!3 models > show #4 models > hide #4 models > show #!3 models > hide #2#!3 atoms > select down Nothing selected > select down Nothing selected > transparency 10 surfaces > cartoon style width 1.0 thickness 0.5 > transparency 60 cartoons > transparency 30 cartoons > ui tool show Matchmaker > matchmaker #!3 to #2 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 rank_001.pdb, chain A (#2) with open-loop-CTD.pdb, chain A (#3), sequence alignment score = 6292.3 RMSD between 1325 pruned atom pairs is 0.736 angstroms; (across all 1342 pairs: 0.813) > show #4 models > hide #2 models > hide #4 models > show #!3 surfaces > show #2 models > show #2#!3 surfaces > hide #!3 models > show #!3 models > hide #!3 models > show #!3 models > hide #!2 models > show #!2 models > hide #!3 models > hide #!2 models > show #4 models > show #4 surfaces > open /Users/huan/Downloads/pdbs/rank_001.pdb Chain information for rank_001.pdb #5 --- Chain | Description A | No description available > open /Users/huan/Downloads/pdbs/rank_002.pdb Chain information for rank_002.pdb #6 --- Chain | Description A | No description available > open /Users/huan/Downloads/pdbs/rank_003.pdb Chain information for rank_003.pdb #7 --- Chain | Description A | No description available > open /Users/huan/Downloads/pdbs/rank_004.pdb Chain information for rank_004.pdb #8 --- Chain | Description A | No description available > open /Users/huan/Downloads/pdbs/rank_005.pdb Chain information for rank_005.pdb #9 --- Chain | Description A | No description available Computing secondary structure > hide #!4 models > ui tool show Matchmaker > matchmaker #1,5-9#!3-4 to #2 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 rank_001.pdb, chain A (#2) with 17-3.pdb, chain A (#1), sequence alignment score = 5760.4 RMSD between 1186 pruned atom pairs is 0.637 angstroms; (across all 1235 pairs: 2.696) Matchmaker rank_001.pdb, chain A (#2) with rank_001.pdb, chain A (#5), sequence alignment score = 10228.7 RMSD between 1988 pruned atom pairs is 0.000 angstroms; (across all 1988 pairs: 0.000) Matchmaker rank_001.pdb, chain A (#2) with rank_002.pdb, chain A (#6), sequence alignment score = 10006.7 RMSD between 1395 pruned atom pairs is 0.472 angstroms; (across all 1988 pairs: 17.820) Matchmaker rank_001.pdb, chain A (#2) with rank_003.pdb, chain A (#7), sequence alignment score = 9877.1 RMSD between 731 pruned atom pairs is 1.030 angstroms; (across all 1988 pairs: 24.345) Matchmaker rank_001.pdb, chain A (#2) with rank_004.pdb, chain A (#8), sequence alignment score = 9899.9 RMSD between 754 pruned atom pairs is 1.008 angstroms; (across all 1988 pairs: 26.552) Matchmaker rank_001.pdb, chain A (#2) with rank_005.pdb, chain A (#9), sequence alignment score = 9911.9 RMSD between 772 pruned atom pairs is 1.044 angstroms; (across all 1988 pairs: 29.660) Matchmaker rank_001.pdb, chain A (#2) with open-loop-CTD.pdb, chain A (#3), sequence alignment score = 6292.3 RMSD between 1325 pruned atom pairs is 0.736 angstroms; (across all 1342 pairs: 0.813) Matchmaker rank_001.pdb, chain A (#2) with rank_002_alphafold2_ptm_model_4_seed_000.pdb, chain A (#4), sequence alignment score = 9871.1 RMSD between 716 pruned atom pairs is 1.149 angstroms; (across all 1988 pairs: 27.885) > hide #8 models > hide #6 models > hide #7 models > hide #9 models > show #!3 models > hide #5#!3 surfaces > show #9 models > hide #9 models > show #9 models > show #8 models > hide #8 models > show #8 models > hide #9 models > hide #8 models > show #8 models > hide #8 models > show #8 models > show #7 models > hide #8 models > hide #7 models > show #7 models > hide #!3 models > show #6 models > hide #6 models > hide #5 models > show #5 models > show #6 models > show #8 models > show #9 models > hide #9 models > show #9 models > hide #9 models > hide #8 models > show #8 models > hide #7 models > hide #6 models > open /Users/huan/Downloads/rank_005_alphafold2_ptm_model_5_seed_000.pdb Chain information for rank_005_alphafold2_ptm_model_5_seed_000.pdb #10 --- Chain | Description A | No description available Computing secondary structure > ui tool show Matchmaker > matchmaker #10 to #5 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 rank_001.pdb, chain A (#5) with rank_005_alphafold2_ptm_model_5_seed_000.pdb, chain A (#10), sequence alignment score = 9845.9 RMSD between 845 pruned atom pairs is 1.073 angstroms; (across all 1988 pairs: 31.906) > hide #5 models > show #5 models > hide #8 models > hide #10 models > show #10 models > show #!3 models > hide #5 models > color #10 #1f8e40ff > color #10 #1f8e408c > show #!4 models > hide #10#!3-4 surfaces > hide #10 models > show #10 models > hide #!4 models > cartoon style width 1.0 thickness 0.5 > hide #10 models > show #!4 models > show #!2 models > hide #!2-4 surfaces > show #10 models > hide #10 models > show #10 models > hide #!4 models > show #9 models > hide #!2 models > hide #!3 models > show #!3 models > hide #!3 models > show #!3 models > hide #!3 models > show #!3 models > hide #!3 models > hide #9 models > show #9 models > hide #9 models > show #9 models > show #8 models > hide #8 models > show #8 models > show #7 models > show #6 models > show #5 models > hide #6 models > hide #7 models > hide #8 models > show #8 models > hide #9 models > show #9 models > hide #9 models > hide #10 models > show #10 models > hide #5 models > show #9 models > hide #9 models > show #9 models > hide #9 models > show #9 models > hide #10 models > show #10 models > hide #8 models > show #!3 models > hide #10 models > show #10 models > ui tool show Matchmaker > matchmaker #10 to #3 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 open-loop-CTD.pdb, chain A (#3) with rank_005_alphafold2_ptm_model_5_seed_000.pdb, chain A (#10), sequence alignment score = 6185.5 RMSD between 806 pruned atom pairs is 1.071 angstroms; (across all 1342 pairs: 7.649) > ui tool show Matchmaker > matchmaker #9 to #3 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 open-loop-CTD.pdb, chain A (#3) with rank_005.pdb, chain A (#9), sequence alignment score = 6213.7 RMSD between 734 pruned atom pairs is 1.092 angstroms; (across all 1342 pairs: 7.885) > ui tool show Matchmaker > matchmaker #10 to #9 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 rank_005.pdb, chain A (#9) with rank_005_alphafold2_ptm_model_5_seed_000.pdb, chain A (#10), sequence alignment score = 10030.7 RMSD between 1283 pruned atom pairs is 0.909 angstroms; (across all 1988 pairs: 29.583) > hide #9 models > hide #10 models Alignment identifier is 1/A Alignment identifier is 1 Alignment identifier is 3/A > select > #3/A:17-33,68-70,80-83,114-123,126-144,150-172,183-185,187-204,210-227,231-266,270-272,286-290,296-301,347-359,363-374,376-413,735-741,744-763,770-796,800-805,807-824,832-847,850-863,867-894,896-899,913-925,929-939,941-972,1176-1189,1192-1211,1214-1218,1220-1247,1249-1254,1257-1278,1285-1287,1290-1300,1305-1342,1367-1376,1392-1404,1408-1416,1431-1460,1503-1512,1515-1534,1541-1575,1577-1601,1608-1624,1628-1639,1641-1665,1684-1695,1700-1707,1733-1761 6713 atoms, 6822 bonds, 826 residues, 1 model selected > select #3/A:1331-1376 366 atoms, 377 bonds, 46 residues, 1 model selected > select #3/A:1331-1380 396 atoms, 407 bonds, 50 residues, 1 model selected > select #3/A:1509 11 atoms, 11 bonds, 1 residue, 1 model selected > select #3/A:1509-1514 49 atoms, 49 bonds, 6 residues, 1 model selected > select #3/A:1472 8 atoms, 7 bonds, 1 residue, 1 model selected > select #3/A:1472-1474 27 atoms, 27 bonds, 3 residues, 1 model selected > style sel stick Changed 27 atom styles > style sel sphere Changed 27 atom styles > style sel ball Changed 27 atom styles > show sel atoms > style sel ball Changed 27 atom styles > show #10 models Alignment identifier is 3/A > select add #10 15941 atoms, 16291 bonds, 1991 residues, 3 models selected Alignment identifier is 3/A Alignment identifier is 10/A > select #10/A:1472 8 atoms, 7 bonds, 1 residue, 1 model selected > select #10/A:1472-1474 27 atoms, 27 bonds, 3 residues, 1 model selected > show sel atoms > style sel ball Changed 27 atom styles > view #10 clip false > open /Users/huan/Downloads/rank_001_alphafold2_ptm_model_3_seed_000.pdb Chain information for rank_001_alphafold2_ptm_model_3_seed_000.pdb #11 --- Chain | Description A | No description available Computing secondary structure > ui tool show Matchmaker > matchmaker #11 to #3 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 open-loop-CTD.pdb, chain A (#3) with rank_001_alphafold2_ptm_model_3_seed_000.pdb, chain A (#11), sequence alignment score = 6190.3 RMSD between 609 pruned atom pairs is 0.964 angstroms; (across all 1342 pairs: 7.532) > select add #11 15941 atoms, 16291 bonds, 1991 residues, 2 models selected Alignment identifier is 1 > select add #10 31828 atoms, 32528 bonds, 3976 residues, 2 models selected > select subtract #10 15914 atoms, 16264 bonds, 1988 residues, 1 model selected > select subtract #11 Nothing selected > select #10/A:1472 #11/A:1472 16 atoms, 14 bonds, 2 residues, 2 models selected > select #10/A:1472-1474 #11/A:1472-1474 54 atoms, 54 bonds, 6 residues, 2 models selected 1 [ID: 1] region 2 chains [1472-1474] RMSD: 19.881 > style sel ball Changed 54 atom styles > show sel atoms > hide #10 models > show #10 models > hide #!3 models > color #11 #a57a9eff > color #11 #a58c88ff > color #11 #97a547ff > color #11 #d8eb65ff > hide #10 models > hide #11 models > show #11 models > show #10 models > hide #11 models > hide #10 models > show #6 models > show #7 models > show #8 models > show #9 models Alignment identifier is 2 > select #10/A:1472 #11/A:1472 16 atoms, 14 bonds, 2 residues, 2 models selected > select #10/A:1472-1474 #11/A:1472-1474 54 atoms, 54 bonds, 6 residues, 2 models selected 2 [ID: 2] region 2 chains [1472-1474] RMSD: 19.881 > show #6-9 atoms > undo Alignment identifier is 3 > select add #6 31993 atoms, 32343 bonds, 1994 residues, 3 models selected > select add #7 63932 atoms, 64632 bonds, 3982 residues, 4 models selected > select add #8 95871 atoms, 96921 bonds, 5970 residues, 5 models selected > select add #9 127810 atoms, 129210 bonds, 7958 residues, 6 models selected Alignment identifier is 1 > select clear > select #6/A:1472 #7/A:1472 #8/A:1472 #9/A:1472 #10/A:1472 #11/A:1472 92 atoms, 86 bonds, 6 residues, 6 models selected > select #6/A:1472-1474 #7/A:1472-1474 #8/A:1472-1474 #9/A:1472-1474 > #10/A:1472-1474 #11/A:1472-1474 278 atoms, 278 bonds, 18 residues, 6 models selected 1 [ID: 1] region 6 chains [1472-1474] RMSD: 13.168 > show sel & #6-9 atoms > style sel & #6-9 ball Changed 224 atom styles > hide #6 models > hide #7 models > hide #8 models > show #11 models > hide #9 models > show #7 models > show #6 models > show #5 models > hide #5 models > show #5 models > hide #5 models > hide #6 models > hide #7 models > show sel & #11 surfaces > select add #11 16165 atoms, 16515 bonds, 2003 residues, 7 models selected > show sel & #!11 surfaces > show #10 models > hide #!11 models > show #9 models > show #8 models > show #7 models > show #6 models > show #5 models > hide #6 models > hide #7 models > hide #8 models > hide #9 models > hide #10 models > show #6 models > show #7 models > show #8 models > show #9 models > hide #9 models > hide #8 models > hide #7 models > hide #6 models Alignment identifier is 1 > select #6/A:1472-1473 #7/A:1472-1473 #8/A:1472-1473 #9/A:1472-1473 > #10/A:1472-1473 #11/A:1472-1473 194 atoms, 194 bonds, 12 residues, 6 models selected > select #6/A:1472-1474 #7/A:1472-1474 #8/A:1472-1474 #9/A:1472-1474 > #10/A:1472-1474 #11/A:1472-1474 278 atoms, 278 bonds, 18 residues, 6 models selected 1 [ID: 1] region 6 chains [1472-1474] RMSD: 13.168 > style #5 ball Changed 31939 atom styles > show #5 atoms > hide #5 atoms > show #5 atoms > hide #5 atoms > select > #6/A:9-11,17-33,51-53,61-63,68-70,80-84,105-107,114-124,126-144,150-174,183-185,187-204,210-227,229-267,270-272,286-292,296-302,338-340,347-359,363-374,376-454,475-481,683-707,712-722,728-741,744-763,770-805,807-825,831-848,850-898,913-925,929-939,941-981,983-1014,1157-1162,1164-1166,1173-1190,1192-1211,1214-1248,1250-1255,1257-1278,1280-1303,1305-1343,1367-1376,1392-1404,1408-1417,1431-1471,1476-1490,1503-1513,1515-1534,1541-1575,1577-1602,1606-1626,1628-1666,1684-1696,1700-1708,1733-1771,1776-1788,1799-1808,1819-1825,1838-1850,1854-1870,1872-1877,1883-1918 > #7/A:9-11,17-33,51-53,61-63,68-70,80-84,105-107,114-124,126-144,150-174,183-185,187-204,210-227,229-267,270-272,286-292,296-302,338-340,347-359,363-374,376-454,475-481,683-707,712-722,728-741,744-763,770-805,807-825,831-848,850-898,913-925,929-939,941-981,983-1014,1157-1162,1164-1166,1173-1190,1192-1211,1214-1248,1250-1255,1257-1278,1280-1303,1305-1343,1367-1376,1392-1404,1408-1417,1431-1471,1476-1490,1503-1513,1515-1534,1541-1575,1577-1602,1606-1626,1628-1666,1684-1696,1700-1708,1733-1771,1776-1788,1799-1808,1819-1825,1838-1850,1854-1870,1872-1877,1883-1918 > #8/A:9-11,17-33,51-53,61-63,68-70,80-84,105-107,114-124,126-144,150-174,183-185,187-204,210-227,229-267,270-272,286-292,296-302,338-340,347-359,363-374,376-454,475-481,683-707,712-722,728-741,744-763,770-805,807-825,831-848,850-898,913-925,929-939,941-981,983-1014,1157-1162,1164-1166,1173-1190,1192-1211,1214-1248,1250-1255,1257-1278,1280-1303,1305-1343,1367-1376,1392-1404,1408-1417,1431-1471,1476-1490,1503-1513,1515-1534,1541-1575,1577-1602,1606-1626,1628-1666,1684-1696,1700-1708,1733-1771,1776-1788,1799-1808,1819-1825,1838-1850,1854-1870,1872-1877,1883-1918 > #9/A:9-11,17-33,51-53,61-63,68-70,80-84,105-107,114-124,126-144,150-174,183-185,187-204,210-227,229-267,270-272,286-292,296-302,338-340,347-359,363-374,376-454,475-481,683-707,712-722,728-741,744-763,770-805,807-825,831-848,850-898,913-925,929-939,941-981,983-1014,1157-1162,1164-1166,1173-1190,1192-1211,1214-1248,1250-1255,1257-1278,1280-1303,1305-1343,1367-1376,1392-1404,1408-1417,1431-1471,1476-1490,1503-1513,1515-1534,1541-1575,1577-1602,1606-1626,1628-1666,1684-1696,1700-1708,1733-1771,1776-1788,1799-1808,1819-1825,1838-1850,1854-1870,1872-1877,1883-1918 > #10/A:9-11,17-33,51-53,61-63,68-70,80-84,105-107,114-124,126-144,150-174,183-185,187-204,210-227,229-267,270-272,286-292,296-302,338-340,347-359,363-374,376-454,475-481,683-707,712-722,728-741,744-763,770-805,807-825,831-848,850-898,913-925,929-939,941-981,983-1014,1157-1162,1164-1166,1173-1190,1192-1211,1214-1248,1250-1255,1257-1278,1280-1303,1305-1343,1367-1376,1392-1404,1408-1417,1431-1471,1476-1490,1503-1513,1515-1534,1541-1575,1577-1602,1606-1626,1628-1666,1684-1696,1700-1708,1733-1771,1776-1788,1799-1808,1819-1825,1838-1850,1854-1870,1872-1877,1883-1918 > #11/A:9-11,17-33,51-53,61-63,68-70,80-84,105-107,114-124,126-144,150-174,183-185,187-204,210-227,229-267,270-272,286-292,296-302,338-340,347-359,363-374,376-454,475-481,683-707,712-722,728-741,744-763,770-805,807-825,831-848,850-898,913-925,929-939,941-981,983-1014,1157-1162,1164-1166,1173-1190,1192-1211,1214-1248,1250-1255,1257-1278,1280-1303,1305-1343,1367-1376,1392-1404,1408-1417,1431-1471,1476-1490,1503-1513,1515-1534,1541-1575,1577-1602,1606-1626,1628-1666,1684-1696,1700-1708,1733-1771,1776-1788,1799-1808,1819-1825,1838-1850,1854-1870,1872-1877,1883-1918 96864 atoms, 97764 bonds, 7002 residues, 6 models selected > select clear > select #6/A:1472-1474 #7/A:1472-1474 #8/A:1472-1474 #9/A:1472-1474 > #10/A:1472-1474 #11/A:1472-1474 278 atoms, 278 bonds, 18 residues, 6 models selected > select #6/A:1472 #7/A:1472 #8/A:1472 #9/A:1472 #10/A:1472 #11/A:1472 92 atoms, 86 bonds, 6 residues, 6 models selected > select #6/A:1472 #7/A:1472 #8/A:1472 #9/A:1472 #10/A:1472 #11/A:1472 92 atoms, 86 bonds, 6 residues, 6 models selected 1 [ID: 1] region 6 chains [1472] RMSD: 10.672 > select #6/A:1472 #7/A:1472 #8/A:1472 #9/A:1472 #10/A:1472 #11/A:1472 92 atoms, 86 bonds, 6 residues, 6 models selected > select #6/A:1472-1474 #7/A:1472-1474 #8/A:1472-1474 #9/A:1472-1474 > #10/A:1472-1474 #11/A:1472-1474 278 atoms, 278 bonds, 18 residues, 6 models selected 1 [ID: 1] region 6 chains [1472-1474] RMSD: 13.168 > select > #6/A:9-11,17-33,51-53,61-63,68-70,80-84,105-107,114-124,126-144,150-174,183-185,187-204,210-227,229-267,270-272,286-292,296-302,338-340,347-359,363-374,376-454,475-481,683-707,712-722,728-741,744-763,770-805,807-825,831-848,850-898,913-925,929-939,941-981,983-1014,1157-1162,1164-1166,1173-1190,1192-1211,1214-1248,1250-1255,1257-1278,1280-1303,1305-1343,1367-1376,1392-1404,1408-1417,1431-1471,1476-1490,1503-1513,1515-1534,1541-1575,1577-1602,1606-1626,1628-1666,1684-1696,1700-1708,1733-1771,1776-1788,1799-1808,1819-1825,1838-1850,1854-1870,1872-1877,1883-1918 > #7/A:9-11,17-33,51-53,61-63,68-70,80-84,105-107,114-124,126-144,150-174,183-185,187-204,210-227,229-267,270-272,286-292,296-302,338-340,347-359,363-374,376-454,475-481,683-707,712-722,728-741,744-763,770-805,807-825,831-848,850-898,913-925,929-939,941-981,983-1014,1157-1162,1164-1166,1173-1190,1192-1211,1214-1248,1250-1255,1257-1278,1280-1303,1305-1343,1367-1376,1392-1404,1408-1417,1431-1471,1476-1490,1503-1513,1515-1534,1541-1575,1577-1602,1606-1626,1628-1666,1684-1696,1700-1708,1733-1771,1776-1788,1799-1808,1819-1825,1838-1850,1854-1870,1872-1877,1883-1918 > #8/A:9-11,17-33,51-53,61-63,68-70,80-84,105-107,114-124,126-144,150-174,183-185,187-204,210-227,229-267,270-272,286-292,296-302,338-340,347-359,363-374,376-454,475-481,683-707,712-722,728-741,744-763,770-805,807-825,831-848,850-898,913-925,929-939,941-981,983-1014,1157-1162,1164-1166,1173-1190,1192-1211,1214-1248,1250-1255,1257-1278,1280-1303,1305-1343,1367-1376,1392-1404,1408-1417,1431-1471,1476-1490,1503-1513,1515-1534,1541-1575,1577-1602,1606-1626,1628-1666,1684-1696,1700-1708,1733-1771,1776-1788,1799-1808,1819-1825,1838-1850,1854-1870,1872-1877,1883-1918 > #9/A:9-11,17-33,51-53,61-63,68-70,80-84,105-107,114-124,126-144,150-174,183-185,187-204,210-227,229-267,270-272,286-292,296-302,338-340,347-359,363-374,376-454,475-481,683-707,712-722,728-741,744-763,770-805,807-825,831-848,850-898,913-925,929-939,941-981,983-1014,1157-1162,1164-1166,1173-1190,1192-1211,1214-1248,1250-1255,1257-1278,1280-1303,1305-1343,1367-1376,1392-1404,1408-1417,1431-1471,1476-1490,1503-1513,1515-1534,1541-1575,1577-1602,1606-1626,1628-1666,1684-1696,1700-1708,1733-1771,1776-1788,1799-1808,1819-1825,1838-1850,1854-1870,1872-1877,1883-1918 > #10/A:9-11,17-33,51-53,61-63,68-70,80-84,105-107,114-124,126-144,150-174,183-185,187-204,210-227,229-267,270-272,286-292,296-302,338-340,347-359,363-374,376-454,475-481,683-707,712-722,728-741,744-763,770-805,807-825,831-848,850-898,913-925,929-939,941-981,983-1014,1157-1162,1164-1166,1173-1190,1192-1211,1214-1248,1250-1255,1257-1278,1280-1303,1305-1343,1367-1376,1392-1404,1408-1417,1431-1471,1476-1490,1503-1513,1515-1534,1541-1575,1577-1602,1606-1626,1628-1666,1684-1696,1700-1708,1733-1771,1776-1788,1799-1808,1819-1825,1838-1850,1854-1870,1872-1877,1883-1918 > #11/A:9-11,17-33,51-53,61-63,68-70,80-84,105-107,114-124,126-144,150-174,183-185,187-204,210-227,229-267,270-272,286-292,296-302,338-340,347-359,363-374,376-454,475-481,683-707,712-722,728-741,744-763,770-805,807-825,831-848,850-898,913-925,929-939,941-981,983-1014,1157-1162,1164-1166,1173-1190,1192-1211,1214-1248,1250-1255,1257-1278,1280-1303,1305-1343,1367-1376,1392-1404,1408-1417,1431-1471,1476-1490,1503-1513,1515-1534,1541-1575,1577-1602,1606-1626,1628-1666,1684-1696,1700-1708,1733-1771,1776-1788,1799-1808,1819-1825,1838-1850,1854-1870,1872-1877,1883-1918 96864 atoms, 97764 bonds, 7002 residues, 6 models selected > select #6/A:1417-1602 #7/A:1417-1602 #8/A:1417-1602 #9/A:1417-1602 > #10/A:1417-1602 #11/A:1417-1602 15422 atoms, 15644 bonds, 1116 residues, 6 models selected > select #6/A:1417-1602 #7/A:1417-1602 #8/A:1417-1602 #9/A:1417-1602 > #10/A:1417-1602 #11/A:1417-1602 15422 atoms, 15644 bonds, 1116 residues, 6 models selected 1 [ID: 1] region 6 chains [1417-1602] RMSD: 4.366 > select #6/A:1472 #7/A:1472 #8/A:1472 #9/A:1472 #10/A:1472 #11/A:1472 92 atoms, 86 bonds, 6 residues, 6 models selected > select #6/A:1472-1474 #7/A:1472-1474 #8/A:1472-1474 #9/A:1472-1474 > #10/A:1472-1474 #11/A:1472-1474 278 atoms, 278 bonds, 18 residues, 6 models selected 1 [ID: 1] region 6 chains [1472-1474] RMSD: 13.168 > select add #5 32217 atoms, 32567 bonds, 2006 residues, 8 models selected > select clear > select > #6/A:9-11,17-33,51-53,61-63,68-70,80-84,105-107,114-124,126-144,150-174,183-185,187-204,210-227,229-267,270-272,286-292,296-302,338-340,347-359,363-374,376-454,475-481,683-707,712-722,728-741,744-763,770-805,807-825,831-848,850-898,913-925,929-939,941-981,983-1014,1157-1162,1164-1166,1173-1190,1192-1211,1214-1248,1250-1255,1257-1278,1280-1303,1305-1343,1367-1376,1392-1404,1408-1417,1431-1471,1476-1490,1503-1513,1515-1534,1541-1575,1577-1602,1606-1626,1628-1666,1684-1696,1700-1708,1733-1771,1776-1788,1799-1808,1819-1825,1838-1850,1854-1870,1872-1877,1883-1918 > #7/A:9-11,17-33,51-53,61-63,68-70,80-84,105-107,114-124,126-144,150-174,183-185,187-204,210-227,229-267,270-272,286-292,296-302,338-340,347-359,363-374,376-454,475-481,683-707,712-722,728-741,744-763,770-805,807-825,831-848,850-898,913-925,929-939,941-981,983-1014,1157-1162,1164-1166,1173-1190,1192-1211,1214-1248,1250-1255,1257-1278,1280-1303,1305-1343,1367-1376,1392-1404,1408-1417,1431-1471,1476-1490,1503-1513,1515-1534,1541-1575,1577-1602,1606-1626,1628-1666,1684-1696,1700-1708,1733-1771,1776-1788,1799-1808,1819-1825,1838-1850,1854-1870,1872-1877,1883-1918 > #8/A:9-11,17-33,51-53,61-63,68-70,80-84,105-107,114-124,126-144,150-174,183-185,187-204,210-227,229-267,270-272,286-292,296-302,338-340,347-359,363-374,376-454,475-481,683-707,712-722,728-741,744-763,770-805,807-825,831-848,850-898,913-925,929-939,941-981,983-1014,1157-1162,1164-1166,1173-1190,1192-1211,1214-1248,1250-1255,1257-1278,1280-1303,1305-1343,1367-1376,1392-1404,1408-1417,1431-1471,1476-1490,1503-1513,1515-1534,1541-1575,1577-1602,1606-1626,1628-1666,1684-1696,1700-1708,1733-1771,1776-1788,1799-1808,1819-1825,1838-1850,1854-1870,1872-1877,1883-1918 > #9/A:9-11,17-33,51-53,61-63,68-70,80-84,105-107,114-124,126-144,150-174,183-185,187-204,210-227,229-267,270-272,286-292,296-302,338-340,347-359,363-374,376-454,475-481,683-707,712-722,728-741,744-763,770-805,807-825,831-848,850-898,913-925,929-939,941-981,983-1014,1157-1162,1164-1166,1173-1190,1192-1211,1214-1248,1250-1255,1257-1278,1280-1303,1305-1343,1367-1376,1392-1404,1408-1417,1431-1471,1476-1490,1503-1513,1515-1534,1541-1575,1577-1602,1606-1626,1628-1666,1684-1696,1700-1708,1733-1771,1776-1788,1799-1808,1819-1825,1838-1850,1854-1870,1872-1877,1883-1918 > #10/A:9-11,17-33,51-53,61-63,68-70,80-84,105-107,114-124,126-144,150-174,183-185,187-204,210-227,229-267,270-272,286-292,296-302,338-340,347-359,363-374,376-454,475-481,683-707,712-722,728-741,744-763,770-805,807-825,831-848,850-898,913-925,929-939,941-981,983-1014,1157-1162,1164-1166,1173-1190,1192-1211,1214-1248,1250-1255,1257-1278,1280-1303,1305-1343,1367-1376,1392-1404,1408-1417,1431-1471,1476-1490,1503-1513,1515-1534,1541-1575,1577-1602,1606-1626,1628-1666,1684-1696,1700-1708,1733-1771,1776-1788,1799-1808,1819-1825,1838-1850,1854-1870,1872-1877,1883-1918 > #11/A:9-11,17-33,51-53,61-63,68-70,80-84,105-107,114-124,126-144,150-174,183-185,187-204,210-227,229-267,270-272,286-292,296-302,338-340,347-359,363-374,376-454,475-481,683-707,712-722,728-741,744-763,770-805,807-825,831-848,850-898,913-925,929-939,941-981,983-1014,1157-1162,1164-1166,1173-1190,1192-1211,1214-1248,1250-1255,1257-1278,1280-1303,1305-1343,1367-1376,1392-1404,1408-1417,1431-1471,1476-1490,1503-1513,1515-1534,1541-1575,1577-1602,1606-1626,1628-1666,1684-1696,1700-1708,1733-1771,1776-1788,1799-1808,1819-1825,1838-1850,1854-1870,1872-1877,1883-1918 96864 atoms, 97764 bonds, 7002 residues, 6 models selected > select #6/A:1472 #7/A:1472 #8/A:1472 #9/A:1472 #10/A:1472 #11/A:1472 92 atoms, 86 bonds, 6 residues, 6 models selected > select #6/A:1472-1474 #7/A:1472-1474 #8/A:1472-1474 #9/A:1472-1474 > #10/A:1472-1474 #11/A:1472-1474 278 atoms, 278 bonds, 18 residues, 6 models selected 1 [ID: 1] region 6 chains [1472-1474] RMSD: 13.168 > select add #6 32161 atoms, 32511 bonds, 2003 residues, 7 models selected > select subtract #6 222 atoms, 222 bonds, 15 residues, 6 models selected > select add #5 32161 atoms, 32511 bonds, 2003 residues, 7 models selected > select clear > select add #5 31939 atoms, 32289 bonds, 1988 residues, 1 model selected Alignment identifier is 5/A > select clear > select #5/A:1472 19 atoms, 18 bonds, 1 residue, 1 model selected > select #5/A:1472-1474 56 atoms, 56 bonds, 3 residues, 1 model selected > style sel ball Changed 56 atom styles > show sel atoms > show #6 models > show #7 models > show #8 models > show #9 models > ui tool show ""Side View"" > show #10 models > style sel sphere Changed 56 atom styles > hide #6 models > hide #7 models > hide #8 models > hide #9 models > hide #10 models > show #10 models > style sel ball Changed 56 atom styles > hide #10 models > show #!11 models > hide sel surfaces > select add #11 15970 atoms, 16320 bonds, 1991 residues, 4 models selected > hide sel surfaces > select subtract #11 56 atoms, 56 bonds, 3 residues, 2 models selected > hide #!11 models > show #10 models > show #9 models > hide #9 models > show #9 models > hide #9 models > show #9 models > hide #10 models > show #10 models > hide #10 models > show #!11 models > hide #!11 models > show #6 models > hide #6 models > show #7 models > hide #7 models > show #7 models > hide #7 models > show #8 models > hide #9 models > hide #5 models > show #!11 models > hide #!11 models > show #!11 models > cartoon style width 1.0 thickness 0.5 > hide #!11 models > show #!11 models > hide #!11 models > show #!11 models > hide #!11 models > show #!11 models > hide #!11 models > show #9 models > show #6 models > show #7 models > show #5 models > hide #5 models > show #5 models > show #!3 models > hide #8 models > hide #7 models > hide #9 models > show #8 models > show #10 models > hide #10 models > show #!11 models > hide #!11 models > hide #8 models > hide #6 models > show #10 models > hide #5 models > transparency 60 cartoons > lighting gentle > show #9 models > hide #10 models > show #10 models > hide #10 models > show #8 models > hide #8 models > show #7 models > hide #7 models > show #5 models > hide #9 models > select clear > lighting gentle > color #5 #efdf1b66 > color #5 #ef996d66 > color #5 #deef4b66 > show #6 models > show #7 models > show #8 models > show #9 models > hide #6 models > hide #8 models > hide #9 models > hide #5 models > color #7 #3cedcf66 > show #5 models > hide #5 models > show #9 models > hide #9 models > show #9 models > hide #9 models > show #8 models > hide #8 models > show #5 models > hide #5 models > show #10 models > hide #7 models > hide #10 models > show #5 models > hide #5 models > show #6 models > hide #6 models > show #7 models > hide #7 models > show #8 models > hide #8 models > show #!11 models > show #8 models > color #8 #25fa1b66 > color #8 #bc92fa66 > color #8 #fa646666 > color #8 #fa854166 > hide #8 models > show #8 models > hide #8 models > show #8 models > hide #8 models > show #8 models > hide #8 models > hide #!11 models > show #9 models > hide #9 models > show #8 models > hide #8 models > show #7 models > show #6 models > hide #6 models > hide #7 models > show #8 models > hide #8 models > show #8 models > show #1 models > hide #8 models > hide #1 models > show #!2 models > hide #!3 models > show #!3 models > hide #!2 models > show #6 models > hide #6 models > show #7 models > hide #7 models > show #8 models > hide #8 models > show #9 models > hide #9 models > show #7 models > hide #7 models > show #8 models > hide #8 models > show #!11 models > show #8 models > hide #8 models > show #8 models > hide #8 models > show #8 models > hide #8 models > show #8 models > hide #!3 models > color #11 #e7ec2866 > color #11 #deec8666 > color #11 #d4eca966 > show #5 models > hide #!11 models > hide #8 models > show #9 models > hide #9 models > show #10 models > hide #10 models > show #10 models > hide #10 models > show #!3 models > hide #5 models > show #10 models > show #!11 models > hide #!3 models > show #!3 models > hide #10 models > show #8 models > show #!2 models > hide #!2 models > hide #!3 models > show #5 models > color #5 #efa1e966 ===== Log before crash end ===== Log: Startup Messages --- note | available bundle cache has not been initialized yet UCSF ChimeraX version: 1.9rc202412041747 (2024-12-04) © 2016-2024 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX OpenGL version: 4.1 Metal - 89.3 OpenGL renderer: Apple M3 OpenGL vendor: Apple Python: 3.11.4 Locale: UTF-8 Qt version: PyQt6 6.7.1, Qt 6.7.1 Qt runtime version: 6.7.3 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Air Model Identifier: Mac15,12 Model Number: MC8N4CH/A Chip: Apple M3 Total Number of Cores: 8 (4 performance and 4 efficiency) Memory: 24 GB System Firmware Version: 11881.41.5 OS Loader Version: 11881.41.5 Software: System Software Overview: System Version: macOS 15.1.1 (24B91) Kernel Version: Darwin 24.1.0 Time since boot: 1天4小时41分钟 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 Display Resolution: 2560 x 1664 Retina Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: Yes Connection Type: Internal Installed Packages: alabaster: 1.0.0 appdirs: 1.4.4 appnope: 0.1.4 asttokens: 3.0.0 auditwheel: 6.1.0 babel: 2.16.0 beautifulsoup4: 4.12.3 blockdiag: 3.0.0 blosc2: 2.7.1 build: 1.2.1 certifi: 2023.11.17 cftime: 1.6.4.post1 charset-normalizer: 3.4.0 ChimeraX-AddCharge: 1.5.18 ChimeraX-AddH: 2.2.6 ChimeraX-AlignmentAlgorithms: 2.0.2 ChimeraX-AlignmentHdrs: 3.5 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 2.16.1 ChimeraX-AlphaFold: 1.0.1 ChimeraX-AltlocExplorer: 1.1.2 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.1 ChimeraX-Atomic: 1.58.7 ChimeraX-AtomicLibrary: 14.1.11 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.4 ChimeraX-BasicActions: 1.1.2 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 2.4.7 ChimeraX-BondRot: 2.0.4 ChimeraX-BugReporter: 1.0.1 ChimeraX-BuildStructure: 2.13.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.4.0 ChimeraX-ButtonPanel: 1.0.1 ChimeraX-CageBuilder: 1.0.1 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.4 ChimeraX-ChangeChains: 1.1 ChimeraX-CheckWaters: 1.4 ChimeraX-ChemGroup: 2.0.1 ChimeraX-Clashes: 2.3 ChimeraX-ColorActions: 1.0.5 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.6 ChimeraX-CommandLine: 1.2.5 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.9rc202412041747 ChimeraX-CoreFormats: 1.2 ChimeraX-coulombic: 1.4.4 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0.1 ChimeraX-DataFormats: 1.2.3 ChimeraX-Dicom: 1.2.6 ChimeraX-DistMonitor: 1.4.2 ChimeraX-DockPrep: 1.1.3 ChimeraX-Dssp: 2.0 ChimeraX-EMDB-SFF: 1.0 ChimeraX-ESMFold: 1.0 ChimeraX-FileHistory: 1.0.1 ChimeraX-FunctionKey: 1.0.1 ChimeraX-Geometry: 1.3 ChimeraX-gltf: 1.0 ChimeraX-Graphics: 1.4.1 ChimeraX-Hbonds: 2.5 ChimeraX-Help: 1.3 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.1 ChimeraX-ImageFormats: 1.2 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.3 ChimeraX-ItemsInspection: 1.0.1 ChimeraX-IUPAC: 1.0 ChimeraX-KVFinder: 1.2.1 ChimeraX-Label: 1.1.13 ChimeraX-ListInfo: 1.2.2 ChimeraX-Log: 1.2 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.9.1 ChimeraX-Map: 1.3 ChimeraX-MapData: 2.0 ChimeraX-MapEraser: 1.0.1 ChimeraX-MapFilter: 2.0.1 ChimeraX-MapFit: 2.0 ChimeraX-MapSeries: 2.1.1 ChimeraX-Markers: 1.0.1 ChimeraX-Mask: 1.0.2 ChimeraX-MatchMaker: 2.1.6 ChimeraX-MCopy: 1.0 ChimeraX-MDcrds: 2.7.2 ChimeraX-MedicalToolbar: 1.1 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.14.2 ChimeraX-MMTF: 2.2 ChimeraX-ModelArchive: 1.0 ChimeraX-Modeller: 1.5.18 ChimeraX-ModelPanel: 1.5 ChimeraX-ModelSeries: 1.0.1 ChimeraX-Mol2: 2.0.3 ChimeraX-Mole: 1.0 ChimeraX-Morph: 1.0.2 ChimeraX-MouseModes: 1.2 ChimeraX-Movie: 1.0 ChimeraX-MutationScores: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nifti: 1.2 ChimeraX-NMRSTAR: 1.0.2 ChimeraX-NRRD: 1.2 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.14 ChimeraX-OrthoPick: 1.0.1 ChimeraX-PDB: 2.7.6 ChimeraX-PDBBio: 1.0.1 ChimeraX-PDBLibrary: 1.0.4 ChimeraX-PDBMatrices: 1.0 ChimeraX-PickBlobs: 1.0.1 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.1.2 ChimeraX-PubChem: 2.2 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.2 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.6.2 ChimeraX-RenumberResidues: 1.1 ChimeraX-ResidueFit: 1.0.1 ChimeraX-RestServer: 1.3.1 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 4.0 ChimeraX-RotamerLibsDunbrack: 2.0 ChimeraX-RotamerLibsDynameomics: 2.0 ChimeraX-RotamerLibsRichardson: 2.0 ChimeraX-SaveCommand: 1.5.1 ChimeraX-SchemeMgr: 1.0 ChimeraX-SDF: 2.0.2 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0.1 ChimeraX-Segmentations: 3.5.6 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.14 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.2.0 ChimeraX-ShowSequences: 1.0.3 ChimeraX-SideView: 1.0.1 ChimeraX-SimilarStructures: 1.0.1 ChimeraX-Smiles: 2.1.2 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.18.1 ChimeraX-STL: 1.0.1 ChimeraX-Storm: 1.0 ChimeraX-StructMeasure: 1.2.1 ChimeraX-Struts: 1.0.1 ChimeraX-Surface: 1.0.1 ChimeraX-SwapAA: 2.0.1 ChimeraX-SwapRes: 2.5 ChimeraX-TapeMeasure: 1.0 ChimeraX-TaskManager: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.2.3 ChimeraX-ToolshedUtils: 1.2.4 ChimeraX-Topography: 1.0 ChimeraX-ToQuest: 1.0 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.41 ChimeraX-Umap: 1.0 ChimeraX-uniprot: 2.3.1 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.4.4 ChimeraX-VIPERdb: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0.1 ChimeraX-vrml: 1.0 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0.2 ChimeraX-WebServices: 1.1.4 ChimeraX-Zone: 1.0.1 colorama: 0.4.6 comm: 0.2.2 contourpy: 1.3.1 cxservices: 1.2.3 cycler: 0.12.1 Cython: 3.0.10 debugpy: 1.8.9 decorator: 5.1.1 docutils: 0.21.2 executing: 2.1.0 filelock: 3.15.4 fonttools: 4.55.1 funcparserlib: 2.0.0a0 glfw: 2.8.0 grako: 3.16.5 h5py: 3.12.1 html2text: 2024.2.26 idna: 3.10 ihm: 1.3 imagecodecs: 2024.6.1 imagesize: 1.4.1 ipykernel: 6.29.5 ipython: 8.26.0 ipywidgets: 8.1.5 jedi: 0.19.1 Jinja2: 3.1.4 jupyter_client: 8.6.2 jupyter_core: 5.7.2 jupyterlab_widgets: 3.0.13 kiwisolver: 1.4.7 line_profiler: 4.1.3 lxml: 5.2.2 lz4: 4.3.3 MarkupSafe: 3.0.2 matplotlib: 3.10.1 matplotlib: 3.9.2 matplotlib-inline: 0.1.7 msgpack: 1.0.8 narwhals: 1.34.1 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 openvr: 1.26.701 packaging: 23.2 ParmEd: 4.2.2 parso: 0.8.4 pep517: 0.13.1 pexpect: 4.9.0 pillow: 10.4.0 pip: 24.2 pkginfo: 1.11.1 platformdirs: 4.3.6 plotly: 6.0.1 prompt_toolkit: 3.0.48 psutil: 6.0.0 ptyprocess: 0.7.0 pure_eval: 0.2.3 py-cpuinfo: 9.0.0 pycollada: 0.8 pydicom: 2.4.4 pyelftools: 0.31 Pygments: 2.18.0 pyKVFinder: 0.7.3 pynmrstar: 3.3.4 pynrrd: 1.0.0 PyOpenGL: 3.1.7 PyOpenGL-accelerate: 3.1.7 pyopenxr: 1.0.3401 pyparsing: 3.2.0 pyproject_hooks: 1.2.0 PyQt6-commercial: 6.7.1 PyQt6-Qt6: 6.7.3 PyQt6-WebEngine-commercial: 6.7.0 PyQt6-WebEngine-Qt6: 6.7.3 PyQt6-WebEngineSubwheel-Qt6: 6.7.3 PyQt6_sip: 13.8.0 python-dateutil: 2.9.0.post0 pytz: 2024.2 pyzmq: 26.2.0 qtconsole: 5.5.2 QtPy: 2.4.2 qtshim: 1.0 RandomWords: 0.4.0 requests: 2.32.3 scipy: 1.14.0 setuptools: 72.1.0 sfftk-rw: 0.8.1 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 soupsieve: 2.6 Sphinx: 8.0.2 sphinx-autodoc-typehints: 2.2.3 sphinxcontrib-applehelp: 2.0.0 sphinxcontrib-blockdiag: 3.0.0 sphinxcontrib-devhelp: 2.0.0 sphinxcontrib-htmlhelp: 2.1.0 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 2.0.0 sphinxcontrib-serializinghtml: 2.0.0 stack-data: 0.6.3 superqt: 0.6.3 tables: 3.10.1 tcia_utils: 1.5.1 tifffile: 2024.7.24 tinyarray: 1.2.4 toml: 0.10.2 tornado: 6.4.2 traitlets: 5.14.3 typing_extensions: 4.12.2 tzdata: 2024.2 urllib3: 2.2.3 wcwidth: 0.2.13 webcolors: 24.6.0 wheel: 0.43.0 wheel-filename: 1.4.1 widgetsnbextension: 4.0.13 }}} " defect closed normal Window Toolkit duplicate all ChimeraX