id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 17260 Crash moving window between screens chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: macOS-15.3.1-arm64-arm-64bit ChimeraX Version: 1.9rc202411190203 (2024-11-19 02:03:03 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. 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===== Startup Messages --- note | available bundle cache has not been initialized yet UCSF ChimeraX version: 1.9rc202411190203 (2024-11-19) © 2016-2024 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open > /Users/maellepaillat/Desktop/Papier/Reviewing/Predictions/CTDs/ctd1645/fold_ctd1645_model_0.cif Chain information for fold_ctd1645_model_0.cif #1 --- Chain | Description A | . Computing secondary structure > open > /Users/maellepaillat/Desktop/Papier/Reviewing/Predictions/CTDs/ctd1720/fold_ctd1720_model_0.cif Chain information for fold_ctd1720_model_0.cif #2 --- Chain | Description A | . Computing secondary structure > open > /Users/maellepaillat/Desktop/Papier/Reviewing/Predictions/CTDs/ctd1985/fold_ctd1985_model_0.cif Chain information for fold_ctd1985_model_0.cif #3 --- Chain | Description A | . Computing secondary structure > open > /Users/maellepaillat/Desktop/Papier/Reviewing/Predictions/CTDs/ctd2273/fold_ctd2273_model_0.cif Chain information for fold_ctd2273_model_0.cif #4 --- Chain | Description A | . Computing secondary structure > open > /Users/maellepaillat/Desktop/Papier/Reviewing/Predictions/CTDs/ctd3478/fold_ctd3478_model_0.cif Chain information for fold_ctd3478_model_0.cif #5 --- Chain | Description A | . Computing secondary structure > open > /Users/maellepaillat/Desktop/Papier/Reviewing/Predictions/CTDs/ctd3952/fold_ctd3952_model_0.cif Chain information for fold_ctd3952_model_0.cif #6 --- Chain | Description A | . Computing secondary structure > open > /Users/maellepaillat/Desktop/Papier/Reviewing/Predictions/CTDs/ctd3971/fold_ctd3971_model_0.cif Chain information for fold_ctd3971_model_0.cif #7 --- Chain | Description A | . Computing secondary structure > open > /Users/maellepaillat/Desktop/Papier/Reviewing/Predictions/CTDs/ctd4538/fold_ctd4538_model_0.cif Chain information for fold_ctd4538_model_0.cif #8 --- Chain | Description A | . Computing secondary structure > open > /Users/maellepaillat/Desktop/Papier/Reviewing/Predictions/CTDs/ctd4750/fold_ctd4750_model_0.cif Chain information for fold_ctd4750_model_0.cif #9 --- Chain | Description A | . Computing secondary structure > open > /Users/maellepaillat/Desktop/Papier/Reviewing/Predictions/CTDs/ctd4934/fold_ctd4934_model_0.cif Chain information for fold_ctd4934_model_0.cif #10 --- Chain | Description A | . Computing secondary structure > open > /Users/maellepaillat/Desktop/Papier/Reviewing/Predictions/CTDs/ctdsprb/fold_ctdsprb_model_0.cif Chain information for fold_ctdsprb_model_0.cif #11 --- Chain | Description A | . Computing secondary structure > ui tool show Matchmaker > matchmaker #2-11 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 fold_ctd1645_model_0.cif, chain A (#1) with fold_ctd1720_model_0.cif, chain A (#2), sequence alignment score = 174.3 RMSD between 57 pruned atom pairs is 0.854 angstroms; (across all 87 pairs: 4.096) Matchmaker fold_ctd1645_model_0.cif, chain A (#1) with fold_ctd1985_model_0.cif, chain A (#3), sequence alignment score = 214.7 RMSD between 78 pruned atom pairs is 0.564 angstroms; (across all 98 pairs: 3.070) Matchmaker fold_ctd1645_model_0.cif, chain A (#1) with fold_ctd2273_model_0.cif, chain A (#4), sequence alignment score = 191.6 RMSD between 71 pruned atom pairs is 0.708 angstroms; (across all 92 pairs: 2.801) Matchmaker fold_ctd1645_model_0.cif, chain A (#1) with fold_ctd3478_model_0.cif, chain A (#5), sequence alignment score = 216.1 RMSD between 80 pruned atom pairs is 0.738 angstroms; (across all 93 pairs: 2.232) Matchmaker fold_ctd1645_model_0.cif, chain A (#1) with fold_ctd3952_model_0.cif, chain A (#6), sequence alignment score = 405.9 RMSD between 99 pruned atom pairs is 0.608 angstroms; (across all 100 pairs: 0.669) Matchmaker fold_ctd1645_model_0.cif, chain A (#1) with fold_ctd3971_model_0.cif, chain A (#7), sequence alignment score = 229.9 RMSD between 75 pruned atom pairs is 0.561 angstroms; (across all 88 pairs: 3.272) Matchmaker fold_ctd1645_model_0.cif, chain A (#1) with fold_ctd4538_model_0.cif, chain A (#8), sequence alignment score = 324.4 RMSD between 83 pruned atom pairs is 0.637 angstroms; (across all 93 pairs: 2.212) Matchmaker fold_ctd1645_model_0.cif, chain A (#1) with fold_ctd4750_model_0.cif, chain A (#9), sequence alignment score = 136.8 RMSD between 64 pruned atom pairs is 0.687 angstroms; (across all 88 pairs: 4.548) Matchmaker fold_ctd1645_model_0.cif, chain A (#1) with fold_ctd4934_model_0.cif, chain A (#10), sequence alignment score = 157.7 RMSD between 61 pruned atom pairs is 0.905 angstroms; (across all 85 pairs: 4.265) Matchmaker fold_ctd1645_model_0.cif, chain A (#1) with fold_ctdsprb_model_0.cif, chain A (#11), sequence alignment score = 147.3 RMSD between 66 pruned atom pairs is 0.830 angstroms; (across all 88 pairs: 3.551) > ui tool show Matchmaker > matchmaker #1-10 to #11 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 fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd1645_model_0.cif, chain A (#1), sequence alignment score = 147.3 RMSD between 66 pruned atom pairs is 0.830 angstroms; (across all 88 pairs: 3.551) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd1720_model_0.cif, chain A (#2), sequence alignment score = 233.7 RMSD between 79 pruned atom pairs is 0.712 angstroms; (across all 98 pairs: 3.511) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd1985_model_0.cif, chain A (#3), sequence alignment score = 164.3 RMSD between 56 pruned atom pairs is 0.736 angstroms; (across all 89 pairs: 4.404) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd2273_model_0.cif, chain A (#4), sequence alignment score = 174.5 RMSD between 66 pruned atom pairs is 0.621 angstroms; (across all 88 pairs: 2.636) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd3478_model_0.cif, chain A (#5), sequence alignment score = 209.6 RMSD between 67 pruned atom pairs is 0.982 angstroms; (across all 92 pairs: 4.823) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd3952_model_0.cif, chain A (#6), sequence alignment score = 131.4 RMSD between 67 pruned atom pairs is 0.976 angstroms; (across all 88 pairs: 3.386) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd3971_model_0.cif, chain A (#7), sequence alignment score = 194.4 RMSD between 64 pruned atom pairs is 0.846 angstroms; (across all 95 pairs: 4.505) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd4538_model_0.cif, chain A (#8), sequence alignment score = 146.5 RMSD between 61 pruned atom pairs is 0.735 angstroms; (across all 81 pairs: 3.501) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd4750_model_0.cif, chain A (#9), sequence alignment score = 161.7 RMSD between 72 pruned atom pairs is 0.665 angstroms; (across all 93 pairs: 4.202) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd4934_model_0.cif, chain A (#10), sequence alignment score = 247.3 RMSD between 71 pruned atom pairs is 0.713 angstroms; (across all 95 pairs: 2.960) > open /Users/maellepaillat/Downloads/folds_2025_04_01_09_05(1).zip Unrecognized file suffix '.zip' > open > /Users/maellepaillat/Downloads/folds_2025_04_01_09_05/ctd1123/fold_ctd1123_model_0.cif Chain information for fold_ctd1123_model_0.cif #12 --- Chain | Description A | . Computing secondary structure > ui tool show Matchmaker > matchmaker #1-10,12 to #11 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 fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd1645_model_0.cif, chain A (#1), sequence alignment score = 147.3 RMSD between 66 pruned atom pairs is 0.830 angstroms; (across all 88 pairs: 3.551) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd1720_model_0.cif, chain A (#2), sequence alignment score = 233.7 RMSD between 79 pruned atom pairs is 0.712 angstroms; (across all 98 pairs: 3.511) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd1985_model_0.cif, chain A (#3), sequence alignment score = 164.3 RMSD between 56 pruned atom pairs is 0.736 angstroms; (across all 89 pairs: 4.404) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd2273_model_0.cif, chain A (#4), sequence alignment score = 174.5 RMSD between 66 pruned atom pairs is 0.621 angstroms; (across all 88 pairs: 2.636) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd3478_model_0.cif, chain A (#5), sequence alignment score = 209.6 RMSD between 67 pruned atom pairs is 0.982 angstroms; (across all 92 pairs: 4.823) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd3952_model_0.cif, chain A (#6), sequence alignment score = 131.4 RMSD between 67 pruned atom pairs is 0.976 angstroms; (across all 88 pairs: 3.386) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd3971_model_0.cif, chain A (#7), sequence alignment score = 194.4 RMSD between 64 pruned atom pairs is 0.846 angstroms; (across all 95 pairs: 4.505) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd4538_model_0.cif, chain A (#8), sequence alignment score = 146.5 RMSD between 61 pruned atom pairs is 0.735 angstroms; (across all 81 pairs: 3.501) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd4750_model_0.cif, chain A (#9), sequence alignment score = 161.7 RMSD between 72 pruned atom pairs is 0.665 angstroms; (across all 93 pairs: 4.202) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd4934_model_0.cif, chain A (#10), sequence alignment score = 247.3 RMSD between 71 pruned atom pairs is 0.713 angstroms; (across all 95 pairs: 2.960) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd1123_model_0.cif, chain A (#12), sequence alignment score = 238.8 RMSD between 77 pruned atom pairs is 0.624 angstroms; (across all 93 pairs: 4.356) > ui tool show Matchmaker > matchmaker #2-3,9-10,12 to #11 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 fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd1720_model_0.cif, chain A (#2), sequence alignment score = 233.7 RMSD between 79 pruned atom pairs is 0.712 angstroms; (across all 98 pairs: 3.511) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd1985_model_0.cif, chain A (#3), sequence alignment score = 164.3 RMSD between 56 pruned atom pairs is 0.736 angstroms; (across all 89 pairs: 4.404) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd4750_model_0.cif, chain A (#9), sequence alignment score = 161.7 RMSD between 72 pruned atom pairs is 0.665 angstroms; (across all 93 pairs: 4.202) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd4934_model_0.cif, chain A (#10), sequence alignment score = 247.3 RMSD between 71 pruned atom pairs is 0.713 angstroms; (across all 95 pairs: 2.960) Matchmaker fold_ctdsprb_model_0.cif, chain A (#11) with fold_ctd1123_model_0.cif, chain A (#12), sequence alignment score = 238.8 RMSD between 77 pruned atom pairs is 0.624 angstroms; (across all 93 pairs: 4.356) > hide #1 models > hide #4 models > hide #5 models > hide #6 models > hide #7 models > hide #8 models > hide #2 models > hide #3 models > hide #9 models > hide #10 models > hide #11 models > hide #12 models > show #1 models > show #4 models > show #5 models > show #6 models > show #7 models > show #8 models > ui tool show Matchmaker > matchmaker #1-5,7-12 to #6 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 fold_ctd3952_model_0.cif, chain A (#6) with fold_ctd1645_model_0.cif, chain A (#1), sequence alignment score = 405.9 RMSD between 99 pruned atom pairs is 0.608 angstroms; (across all 100 pairs: 0.669) Matchmaker fold_ctd3952_model_0.cif, chain A (#6) with fold_ctd1720_model_0.cif, chain A (#2), sequence alignment score = 142.3 RMSD between 61 pruned atom pairs is 0.932 angstroms; (across all 87 pairs: 3.832) Matchmaker fold_ctd3952_model_0.cif, chain A (#6) with fold_ctd1985_model_0.cif, chain A (#3), sequence alignment score = 199.2 RMSD between 77 pruned atom pairs is 0.606 angstroms; (across all 98 pairs: 3.001) Matchmaker fold_ctd3952_model_0.cif, chain A (#6) with fold_ctd2273_model_0.cif, chain A (#4), sequence alignment score = 177.2 RMSD between 72 pruned atom pairs is 0.858 angstroms; (across all 92 pairs: 3.123) Matchmaker fold_ctd3952_model_0.cif, chain A (#6) with fold_ctd3478_model_0.cif, chain A (#5), sequence alignment score = 206.6 RMSD between 79 pruned atom pairs is 0.684 angstroms; (across all 93 pairs: 2.198) Matchmaker fold_ctd3952_model_0.cif, chain A (#6) with fold_ctd3971_model_0.cif, chain A (#7), sequence alignment score = 221.6 RMSD between 72 pruned atom pairs is 0.621 angstroms; (across all 88 pairs: 3.290) Matchmaker fold_ctd3952_model_0.cif, chain A (#6) with fold_ctd4538_model_0.cif, chain A (#8), sequence alignment score = 287.4 RMSD between 80 pruned atom pairs is 0.676 angstroms; (across all 93 pairs: 2.147) Matchmaker fold_ctd3952_model_0.cif, chain A (#6) with fold_ctd4750_model_0.cif, chain A (#9), sequence alignment score = 139 RMSD between 56 pruned atom pairs is 0.656 angstroms; (across all 88 pairs: 6.781) Matchmaker fold_ctd3952_model_0.cif, chain A (#6) with fold_ctd4934_model_0.cif, chain A (#10), sequence alignment score = 146 RMSD between 56 pruned atom pairs is 1.028 angstroms; (across all 83 pairs: 4.535) Matchmaker fold_ctd3952_model_0.cif, chain A (#6) with fold_ctdsprb_model_0.cif, chain A (#11), sequence alignment score = 131.4 RMSD between 67 pruned atom pairs is 0.976 angstroms; (across all 88 pairs: 3.386) Matchmaker fold_ctd3952_model_0.cif, chain A (#6) with fold_ctd1123_model_0.cif, chain A (#12), sequence alignment score = 135.8 RMSD between 61 pruned atom pairs is 0.887 angstroms; (across all 83 pairs: 4.306) > hide #7 models > hide #8 models > hide #5 models > hide #4 models > color #1 #53878fff > color #6 #ff9300ff > color #6 #bd6e01ff > color #6 #bd8236ff > color #6 #bd7220ff > color #6 #bd9041ff > color #6 #bd851aff > color #6 #bd7210ff > color #6 #bd7819ff > color #6 #bd731eff > color #6 #c57820ff > set bgColor white > save /Users/maellepaillat/Desktop/image43.png supersample 3 > view orient > undo > set bgColor white > ui tool show ""Side View"" > save /Users/maellepaillat/Desktop/image44.png supersample 3 > save /Users/maellepaillat/Desktop/image45.png supersample 3 > hide #6 models > show #11 models > color #11 #af3224ff > hide #1 models > show #1 models > save /Users/maellepaillat/Desktop/image46.png supersample 3 > show #6 models > hide #11 models > save /Users/maellepaillat/Desktop/image47.png supersample 3 > save /Users/maellepaillat/Desktop/image48.png supersample 3 > hide #6 models > show #11 models > save /Users/maellepaillat/Desktop/image49.png supersample 3 > save /Users/maellepaillat/Desktop/image50.png supersample 3 > show #6 models > hide #11 models > save /Users/maellepaillat/Desktop/image51.png supersample 3 > hide #6 models > show #7 models > color #7 #b12874ff > color #7 #c12c7eff > color #7 #b72a78ff > save /Users/maellepaillat/Desktop/image52.png supersample 3 > hide #7 models > show #11 models > save /Users/maellepaillat/Desktop/image43.png supersample 3 > show #6 models > hide #11 models > save /Users/maellepaillat/Desktop/image44.png supersample 3 > hide #6 models > show #7 models > save /Users/maellepaillat/Desktop/image45.png supersample 3 > show #11 models > hide #7 models > save /Users/maellepaillat/Desktop/image46.png supersample 3 > show #6 models > hide #11 models > save /Users/maellepaillat/Desktop/image47.png supersample 3 > hide #6 models > show #7 models > save /Users/maellepaillat/Desktop/image48.png supersample 3 > show #11 models > hide #7 models > save /Users/maellepaillat/Desktop/image49.png supersample 3 > show #6 models > hide #11 models > save /Users/maellepaillat/Desktop/image50.png supersample 3 > hide #6 models > show #7 models > save /Users/maellepaillat/Desktop/image51.png supersample 3 > save /Users/maellepaillat/Desktop/image52.png supersample 3 > show #6 models > hide #7 models > save /Users/maellepaillat/Desktop/image53.png supersample 3 > show #11 models > hide #6 models > save /Users/maellepaillat/Desktop/image54.png supersample 3 > close #6 > close > open > /Users/maellepaillat/Downloads/folds_2025_04_01_09_05(1)/sprb_1123_1645_1720_3952_3971_4934_1677x3_3951_sprf_1646_3972/fold_sprb_1123_1645_1720_3952_3971_4934_1677x3_3951_sprf_1646_3972_model_0.cif Chain information for fold_sprb_1123_1645_1720_3952_3971_4934_1677x3_3951_sprf_1646_3972_model_0.cif #1 --- Chain | Description A | . B | . C | . D | . E | . F | . G | . H I J | . K | . L | . M | . N | . > select add #1 22511 atoms, 23118 bonds, 2783 residues, 1 model selected > hide sel atoms > show sel cartoons Computing secondary structure > select /H:1-309 2483 atoms, 2545 bonds, 309 residues, 1 model selected > color sel #b2d6b9ff > select /I:1-309 2483 atoms, 2545 bonds, 309 residues, 1 model selected > color sel #b2d6b9ff > select /J:1-309 2483 atoms, 2545 bonds, 309 residues, 1 model selected > color sel #b2d6b9ff > select /K:1-286 2276 atoms, 2337 bonds, 286 residues, 1 model selected > select /L:1-306 2528 atoms, 2601 bonds, 306 residues, 1 model selected > color sel #53878fff > color sel #54b5c0ff > color sel #c03a53ff > color sel #c00f2eff > select /A:1-100 839 atoms, 866 bonds, 100 residues, 1 model selected > color sel #af3224ff > select /B:1-100 837 atoms, 865 bonds, 100 residues, 1 model selected > color sel #009193ff > color sel #009051ff > select /C:1-100 832 atoms, 855 bonds, 100 residues, 1 model selected > color sel #c57820ff > select /D:1-100 805 atoms, 829 bonds, 100 residues, 1 model selected > color sel #008f00ff > color sel #4f8f00ff > color sel #008f00ff > color sel #009051ff > color sel #2a902aff > color sel #479057ff > color sel #509051ff > color sel #61905cff > color sel #6d9068ff > color sel #58905eff > color sel #699069ff > color sel #72906dff > color sel #849069ff > color sel #63905aff > color sel #60905dff > select /E:1-100 836 atoms, 856 bonds, 100 residues, 1 model selected > color sel #53878fff > select /F:1-100 804 atoms, 826 bonds, 100 residues, 1 model selected > color sel #b72a78ff > select /N:1-285 2249 atoms, 2305 bonds, 285 residues, 1 model selected > select /G:1-100 826 atoms, 853 bonds, 100 residues, 1 model selected > color sel #009051ff > color sel #4d9065ff > color sel #64906fff > color sel #799075ff > color sel #679072ff > color sel #62905cff > color sel #65904dff > color sel #6a9042ff > color sel #599022ff > color sel #62903dff > color sel #63903dff > color sel #6b904eff > color sel #6c9053ff > select /H:1-309 2483 atoms, 2545 bonds, 309 residues, 1 model selected > color sel #b2d6b9ff > color sel #009051ff > color sel #00b669ff > color sel #00c873ff > color sel #3ec887ff > color sel #5ac889ff > color sel #81c899ff > color sel #bbc8a6ff > color sel #77c893ff > color sel #6ac890ff > color sel #7bc899ff > color sel #63c899ff > color sel #6bc8a4ff > color sel #4f957aff > color sel #5bab8cff > color sel #65be9bff > color sel #6bc9a4ff > color sel #b2d6b9ff > color sel #8db49aff > select /I:1-309 2483 atoms, 2545 bonds, 309 residues, 1 model selected > color sel #8db49aff > select /J:1-309 2483 atoms, 2545 bonds, 309 residues, 1 model selected > color sel #8db49aff > select /K:1-286 2276 atoms, 2337 bonds, 286 residues, 1 model selected > color sel #53878fff > color sel #54b4bfff > color sel #7abcbfff > color sel #91bebfff > color sel #6fbfb9ff > color sel #75bcbfff > color sel #6fb3bfff > color sel #8db8bfff > color sel #77bbbfff > color sel #56b7bfff > color sel #2dbabfff > color sel #6fbfb6ff > color sel #38bfb9ff > color sel #11bfbbff > color sel #1fbfbfff > color sel #1bbbbfff > color sel #1eccd0ff > color sel #7eccd0ff > color sel #9fccd0ff > color sel #82d0d0ff > color sel #9cd3d7ff > select /L:1-306 2528 atoms, 2601 bonds, 306 residues, 1 model selected > color sel #af3224ff > color sel #bf8983ff > color sel #bf7170ff > select /M:1-279 2230 atoms, 2290 bonds, 279 residues, 1 model selected > color sel #c57820ff > color sel #c59857ff > color sel #c5ad84ff > color sel #c5a277ff > color sel #c59b64ff > color sel #c59e56ff > color sel #c59a64ff > color sel #c5a774ff > color sel #c5a269ff > select /N:1-285 2249 atoms, 2305 bonds, 285 residues, 1 model selected > color sel #b72a78ff > color sel #b76696ff > color sel #b7769dff > color sel #c17ca6ff > select add #1 22511 atoms, 23118 bonds, 2783 residues, 1 model selected > select subtract #1 Nothing selected > save /Users/maellepaillat/Desktop/image55.png supersample 3 > save /Users/maellepaillat/Desktop/image56.png supersample 3 > select add #1 22511 atoms, 23118 bonds, 2783 residues, 1 model selected > hide sel cartoons > select /A:1-100 839 atoms, 866 bonds, 100 residues, 1 model selected > show sel cartoons > select /L:1-306 2528 atoms, 2601 bonds, 306 residues, 1 model selected > show sel cartoons > select add #1 22511 atoms, 23118 bonds, 2783 residues, 1 model selected > select subtract #1 Nothing selected > save /Users/maellepaillat/Desktop/image57.png supersample 3 > select add #1 22511 atoms, 23118 bonds, 2783 residues, 1 model selected > hide target m > select subtract #1 Nothing selected > select /B:1-100 837 atoms, 865 bonds, 100 residues, 1 model selected > select add #1 22511 atoms, 23118 bonds, 2783 residues, 1 model selected > show #1 models > select subtract #1 Nothing selected > select /A:1-100 839 atoms, 866 bonds, 100 residues, 1 model selected > hide sel cartoons > select /B:1-100 837 atoms, 865 bonds, 100 residues, 1 model selected > show sel cartoons > select /L:1-306 2528 atoms, 2601 bonds, 306 residues, 1 model selected > hide sel cartoons > select /H:1-309 2483 atoms, 2545 bonds, 309 residues, 1 model selected > show sel cartoons > hide sel cartoons > select /I:1-309 2483 atoms, 2545 bonds, 309 residues, 1 model selected > show sel cartoons > select add #1 22511 atoms, 23118 bonds, 2783 residues, 1 model selected > select subtract #1 Nothing selected > save /Users/maellepaillat/Desktop/image58.png supersample 3 > select /B:1-100 837 atoms, 865 bonds, 100 residues, 1 model selected > hide sel cartoons > select /C:1-100 832 atoms, 855 bonds, 100 residues, 1 model selected > show sel cartoons > select /I:1-309 2483 atoms, 2545 bonds, 309 residues, 1 model selected > hide sel cartoons > select /K:1-286 2276 atoms, 2337 bonds, 286 residues, 1 model selected > show sel cartoons > select add #1 22511 atoms, 23118 bonds, 2783 residues, 1 model selected > select subtract #1 Nothing selected > save /Users/maellepaillat/Desktop/image59.png supersample 3 > select /D:1-100 805 atoms, 829 bonds, 100 residues, 1 model selected > show sel cartoons > select /C:1-100 832 atoms, 855 bonds, 100 residues, 1 model selected > hide sel cartoons > select /K:1-286 2276 atoms, 2337 bonds, 286 residues, 1 model selected > hide sel cartoons > select /J:1-309 2483 atoms, 2545 bonds, 309 residues, 1 model selected > show sel cartoons > select add #1 22511 atoms, 23118 bonds, 2783 residues, 1 model selected > select subtract #1 Nothing selected > save /Users/maellepaillat/Desktop/image60.png supersample 3 > save /Users/maellepaillat/Desktop/image61.png supersample 3 > select /D:1-100 805 atoms, 829 bonds, 100 residues, 1 model selected > select /D:1-100 805 atoms, 829 bonds, 100 residues, 1 model selected > hide sel cartoons > select /J:1-309 2483 atoms, 2545 bonds, 309 residues, 1 model selected > hide sel cartoons > select /E:1-100 836 atoms, 856 bonds, 100 residues, 1 model selected > show sel cartoons > select /M:1-279 2230 atoms, 2290 bonds, 279 residues, 1 model selected > show sel cartoons > select add #1 22511 atoms, 23118 bonds, 2783 residues, 1 model selected > select subtract #1 Nothing selected > save /Users/maellepaillat/Desktop/image61.png supersample 3 > view orient > select /E:1-100 836 atoms, 856 bonds, 100 residues, 1 model selected > hide sel cartoons > select /F:1-100 804 atoms, 826 bonds, 100 residues, 1 model selected > show sel cartoons > select /M:1-279 2230 atoms, 2290 bonds, 279 residues, 1 model selected > hide sel cartoons > select /N:1-285 2249 atoms, 2305 bonds, 285 residues, 1 model selected > show sel cartoons > select add #1 22511 atoms, 23118 bonds, 2783 residues, 1 model selected > select subtract #1 Nothing selected > save /Users/maellepaillat/Desktop/image62.png supersample 3 > select /F:1-100 804 atoms, 826 bonds, 100 residues, 1 model selected > hide sel cartoons > select /G:1-100 826 atoms, 853 bonds, 100 residues, 1 model selected > show sel cartoons > select /N:1-285 2249 atoms, 2305 bonds, 285 residues, 1 model selected > hide sel cartoons > select /H:1-309 2483 atoms, 2545 bonds, 309 residues, 1 model selected > show sel cartoons > select add #1 22511 atoms, 23118 bonds, 2783 residues, 1 model selected > select subtract #1 Nothing selected > save /Users/maellepaillat/Desktop/image63.png supersample 3 ===== Log before crash end ===== Log: Startup Messages --- note | available bundle cache has not been initialized yet UCSF ChimeraX version: 1.9rc202411190203 (2024-11-19) © 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 Pro 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 Pro Model Identifier: Mac15,6 Model Number: Z1AU001V9FN/A Chip: Apple M3 Pro Total Number of Cores: 11 (5 performance and 6 efficiency) Memory: 18 GB System Firmware Version: 11881.81.4 OS Loader Version: 11881.81.4 Software: System Software Overview: System Version: macOS 15.3.1 (24D70) Kernel Version: Darwin 24.3.0 Time since boot: 28 jours, 5 heures et 56 minutes Graphics/Displays: Apple M3 Pro: Chipset Model: Apple M3 Pro Type: GPU Bus: Built-In Total Number of Cores: 14 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 DELL S2421NX: Resolution: 1920 x 1080 (1080p FHD - Full High Definition) UI Looks like: 1920 x 1080 @ 75.00Hz Mirror: Off Online: Yes Rotation: Supported Installed Packages: alabaster: 1.0.0 appdirs: 1.4.4 appnope: 0.1.4 asttokens: 2.4.1 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: 1.9rc202411190203 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: 1.1.11 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: 1.6.1 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: 3.3.0 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: 1.8.8 decorator: 5.1.1 docutils: 0.21.2 executing: 2.1.0 filelock: 3.15.4 fonttools: 4.55.0 funcparserlib: 2.0.0a0 glfw: 2.7.0 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: 3.9.2 matplotlib-inline: 0.1.7 msgpack: 1.0.8 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: 2.10.1 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 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 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 tornado: 6.4.1 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