id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 17562 Crash on Mac waking from sleep mrafiq@… Tom Goddard "{{{ The following bug report has been submitted: Platform: macOS-15.1-arm64-arm-64bit ChimeraX Version: 1.9 (2024-12-11 19:11:19 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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[ { ""rolloutId"" : ""645eb1d0417dab722a215927"", ""factorPackIds"" : { }, ""deploymentId"" : 240000005 }, { ""rolloutId"" : ""63f9578e238e7b23a1f3030a"", ""factorPackIds"" : { }, ""deploymentId"" : 240000005 } ], ""experiments"" : [ ] } } ===== Log before crash start ===== Startup Messages --- note | available bundle cache has not been initialized yet UCSF ChimeraX version: 1.9 (2024-12-11) © 2016-2024 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open /Users/mariarafiq/Downloads/cryosparc_P410_J166_002_volume_map.mrc Opened cryosparc_P410_J166_002_volume_map.mrc as #1, grid size 300,300,300, pixel 0.74, shown at level 0.0391, step 2, values float32 > volume #1 step 1 > ui tool show ""Side View"" > open > /Users/mariarafiq/Downloads/cryosparc_P410_J163_011_volume_map_sharp.mrc Opened cryosparc_P410_J163_011_volume_map_sharp.mrc as #2, grid size 300,300,300, pixel 0.74, shown at level 0.0504, step 2, values float32 > surface dust #2 size 7.4 > volume #2 step 1 > volume #2 level 0.1195 > open > /Users/mariarafiq/Downloads/cryosparc_P410_J162_008_volume_map_sharp.mrc Opened cryosparc_P410_J162_008_volume_map_sharp.mrc as #3, grid size 300,300,300, pixel 0.74, shown at level 0.0499, step 2, values float32 > surface dust #3 size 7.4 > volume #3 step 1 > volume #3 level 0.08332 > volume #3 level 0.07706 > show #!3 models > close #3 > ui mousemode right ""map eraser"" > volume erase #1 center 107.79,108.08,112.06 radius 22.205 outside true Opened cryosparc_P410_J166_002_volume_map.mrc copy as #4, grid size 300,300,300, pixel 0.74, shown at step 1, values float32 > volume erase #4 center 107.34,107.65,111.9 radius 19.869 outside true > vop resample #4 ingrid #1 > volume resample #4 ingrid #1 Expected a keyword > vop resample #4 on grid #1 > volume resample #4 onGrid grid #1 Invalid ""onGrid"" argument: invalid density maps specifier > vop resample #1 on grid #4 > volume resample #1 onGrid grid #4 Invalid ""onGrid"" argument: invalid density maps specifier > vop resample #1 onGrid #4 Opened cryosparc_P410_J166_002_volume_map.mrc resampled as #3, grid size 300,300,300, pixel 0.74, shown at step 1, values float32 > vop resample #4 onGrid #1 Opened cryosparc_P410_J166_002_volume_map.mrc copy resampled as #5, grid size 300,300,300, pixel 0.74, shown at step 1, values float32 > save /Users/mariarafiq/Desktop/masks/J166_spherical_ligand_mask.mrc models > #5 > volume #5 level 0.0391 > volume #5 level 0.0309 > volume #5 level 0.01835 > volume #5 level 0.03186 > volume #5 level 0.0391 > open /Users/mariarafiq/Downloads/cryosparc_P410_J169_mask.mrc Opened cryosparc_P410_J169_mask.mrc as #6, grid size 300,300,300, pixel 0.74, shown at level 5e-05, step 2, values float32 > view > volume #6 step 1 > volume #6 color #b2ffb280 > open /Users/mariarafiq/Downloads/cryosparc_P410_J170_mask.mrc Opened cryosparc_P410_J170_mask.mrc as #7, grid size 300,300,300, pixel 0.74, shown at level 5e-05, step 2, values float32 > volume #7 step 1 > volume #7 color #e5bf9980 > close #7 > open ""/Users/mariarafiq/Downloads/cryosparc_P410_J169_mask (1).mrc"" Opened cryosparc_P410_J169_mask (1).mrc as #7, grid size 300,300,300, pixel 0.74, shown at level 0.107, step 2, values float32 > volume #7 color #99bfe580 > open /Users/mariarafiq/Downloads/tclcactvs000vGnyIC.pdb Summary of feedback from opening /Users/mariarafiq/Downloads/tclcactvs000vGnyIC.pdb --- warning | Ignored bad PDB record found on line 4 REVDAT 1 05-May-25 0 NONE 4 tclcactvs000vGnyIC.pdb title: None 2 [more info...] Non-standard residues in tclcactvs000vGnyIC.pdb #8 --- — () > select add #8 118 atoms, 120 bonds, 1 residue, 1 model selected > hide #!7 models > hide #!5 models > view > volume #6 level 0.009292 > select add #6 118 atoms, 120 bonds, 1 residue, 3 models selected > select subtract #8 2 models selected > hide #8 models > volume #6 level 0.01853 > view > show #8 models > show #!6 models > select subtract #6 Nothing selected > hide #8 models > show #8 models > view > select add #8 118 atoms, 120 bonds, 1 residue, 1 model selected > close #9 > ui mousemode right ""move picked models"" > view matrix models #8,1,0,0,54.671,0,1,0,132.98,0,0,1,97.532 > view > ui mousemode right ""move picked models"" > view matrix models #5,1,0,0,0.22889,0,1,0,0.052426,0,0,1,-1.4698 > view matrix models #8,1,0,0,51.679,0,1,0,126.7,0,0,1,101.74 > view matrix models #8,1,0,0,55.705,0,1,0,128.7,0,0,1,117 > view matrix models #8,1,0,0,58.488,0,1,0,125.44,0,0,1,126.17 > view matrix models #8,1,0,0,68.554,0,1,0,123.96,0,0,1,137.81 > view matrix models #8,1,0,0,82.06,0,1,0,118.75,0,0,1,145.55 > view matrix models #8,1,0,0,74.231,0,1,0,126.54,0,0,1,127.73 > view matrix models #5,1,0,0,-0.015338,0,1,0,-0.214,0,0,1,-1.5916 > view matrix models #8,1,0,0,81.408,0,1,0,133.64,0,0,1,110.1 > view matrix models #5,1,0,0,0.26401,0,1,0,0.0043148,0,0,1,-0.25077 > view matrix models #8,1,0,0,80.497,0,1,0,119.67,0,0,1,123.29 > view matrix models #5,1,0,0,-0.45483,0,1,0,-1.066,0,0,1,-2.9394 > view matrix models #5,1,0,0,-0.90885,0,1,0,-0.31307,0,0,1,-4.2423 > view matrix models #5,1,0,0,-0.9664,0,1,0,0.83912,0,0,1,-5.0047 > view matrix models #5,1,0,0,2.5697,0,1,0,9.5885,0,0,1,4.4216 > view matrix models #8,1,0,0,90.799,0,1,0,132.58,0,0,1,121.39 > view matrix models #5,1,0,0,2.9362,0,1,0,9.4391,0,0,1,6.2495 > view matrix models #8,1,0,0,100.23,0,1,0,131.38,0,0,1,129.09 > view matrix models #8,1,0,0,99.056,0,1,0,131.66,0,0,1,127.95 > view matrix models #8,1,0,0,94.951,0,1,0,129.34,0,0,1,119.72 > view matrix models #5,1,0,0,1.4376,0,1,0,8.0803,0,0,1,6.7663 > view matrix models #8,1,0,0,91.657,0,1,0,121.11,0,0,1,113.18 > view matrix models #5,1,0,0,0.30451,0,1,0,16.084,0,0,1,5.6172 > view matrix models #8,1,0,0,94.369,0,1,0,127.67,0,0,1,112.33 > view matrix models #8,1,0,0,101.66,0,1,0,117.02,0,0,1,113.71 > view matrix models #8,1,0,0,104.61,0,1,0,123.32,0,0,1,117.92 > view matrix models #5,1,0,0,0.25472,0,1,0,16.822,0,0,1,5.6805 > view matrix models #8,1,0,0,105.63,0,1,0,124.65,0,0,1,116.22 > ui mousemode right ""rotate selected models"" > view matrix models > #8,0.63263,-0.75887,-0.15461,106.24,-0.59422,-0.60366,0.53151,126.04,-0.49668,-0.24437,-0.83282,116.2 > view matrix models > #8,0.32572,-0.85511,-0.40336,106.49,-0.82539,-0.46525,0.31981,126.14,-0.46113,0.22876,-0.85734,115.96 > view matrix models > #8,0.40627,-0.76926,-0.49314,106.35,-0.77799,-0.57426,0.25486,126.12,-0.47924,0.28012,-0.83178,115.97 > view matrix models > #8,0.40627,-0.76926,-0.49314,106.93,-0.77799,-0.57426,0.25486,122.79,-0.47924,0.28012,-0.83178,116.99 > fitmap #8 inMap #5 Fit molecule tclcactvs000vGnyIC.pdb (#8) to map J166_spherical_ligand_mask.mrc (#5) using 118 atoms average map value = 0.05728, steps = 204 shifted from previous position = 8.42 rotated from previous position = 140 degrees atoms outside contour = 45, contour level = 0.039102 Position of tclcactvs000vGnyIC.pdb (#8) relative to J166_spherical_ligand_mask.mrc (#5) coordinates: Matrix rotation and translation 0.86649934 -0.35783110 -0.34804568 105.41098033 0.49879745 0.59344021 0.63168807 104.36742346 -0.01949334 -0.72096159 0.69270080 119.58449344 Axis -0.82758807 -0.20101731 0.52410879 Axis point 0.00000000 206.55586579 -17.78652635 Rotation angle (degrees) 54.80786246 Shift along axis -45.54124458 > view matrix models > #8,0.82574,0.40439,-0.39323,105.38,0.09049,0.59314,0.79999,121.63,0.55675,-0.69617,0.45319,124.63 > view matrix models > #8,-0.48976,0.65598,-0.5743,106.47,-0.16575,0.57664,0.8,121.88,0.85595,0.48701,-0.17369,123.66 > view matrix models > #8,-0.68129,0.67655,-0.2795,106.74,0.10239,0.46614,0.87877,121.7,0.72482,0.57008,-0.38685,123.68 > view matrix models > #8,-0.68129,0.67655,-0.2795,108.66,0.10239,0.46614,0.87877,124.32,0.72482,0.57008,-0.38685,118.2 > volume #5 level 0.0309 > view matrix models > #8,-0.91949,-0.35935,-0.15938,109.35,-0.385,0.90514,0.18029,124.37,0.079475,0.22713,-0.97062,118.76 > view matrix models > #8,-0.90195,-0.42203,0.091545,109.44,-0.40905,0.90289,0.13219,124.38,-0.13844,0.081781,-0.98699,119.02 > view matrix models > #8,-0.90263,-0.41806,0.10239,109.44,-0.40435,0.90516,0.13113,124.38,-0.1475,0.076957,-0.98606,119.03 > view matrix models > #8,-0.97784,-0.20173,0.055965,109.41,-0.20002,0.97918,0.034754,124.12,-0.061811,0.02279,-0.99783,118.97 > fitmap #8 inMap #5 Fit molecule tclcactvs000vGnyIC.pdb (#8) to map J166_spherical_ligand_mask.mrc (#5) using 118 atoms average map value = 0.06161, steps = 160 shifted from previous position = 7.36 rotated from previous position = 59.8 degrees atoms outside contour = 28, contour level = 0.030897 Position of tclcactvs000vGnyIC.pdb (#8) relative to J166_spherical_ligand_mask.mrc (#5) coordinates: Matrix rotation and translation -0.72109758 0.67896016 -0.13795427 109.22034280 0.56884491 0.69386474 0.44155089 102.39646608 0.39551707 0.23992670 -0.88656722 118.75775265 Axis -0.34712815 -0.91845583 -0.18958094 Axis point 28.03131271 0.00000000 53.30275691 Rotation angle (degrees) 163.11704593 Shift along axis -154.47429317 > view matrix models > #8,-0.46485,0.85438,0.23227,109.28,0.85311,0.36203,0.37568,119.06,0.23688,0.37278,-0.89717,124.53 > view matrix models > #8,-0.23168,0.89712,0.37616,109.09,0.94822,0.1219,0.29329,119.04,0.21726,0.42463,-0.87891,124.53 > ui mousemode right ""move picked models"" > view matrix models > #8,-0.23168,0.89712,0.37616,110,0.94822,0.1219,0.29329,121.08,0.21726,0.42463,-0.87891,116.96 > volume #5 color #ffb2b27b > volume #5 color #ffb2b27a > view matrix models #5,1,0,0,0.17269,0,1,0,16.676,0,0,1,5.947 > open ""/Users/mariarafiq/Downloads/cryosparc_P410_J169_mask (2).mrc"" Opened cryosparc_P410_J169_mask (2).mrc as #9, grid size 300,300,300, pixel 0.74, shown at level 0.107, step 2, values float32 > open ""/Users/mariarafiq/Downloads/cryosparc_P410_J169_mask (2).mrc"" Opened cryosparc_P410_J169_mask (2).mrc as #10, grid size 300,300,300, pixel 0.74, shown at level 0.107, step 2, values float32 > show #!1 models > close #10 > close #9 > close #7 > close #6 > open ""/Users/mariarafiq/Downloads/cryosparc_P410_J169_mask (3).mrc"" Opened cryosparc_P410_J169_mask (3).mrc as #6, grid size 300,300,300, pixel 0.74, shown at level 5e-05, step 2, values float32 > hide #!6 models > open ""/Users/mariarafiq/Downloads/cryosparc_P410_J169_mask (4).mrc"" Opened cryosparc_P410_J169_mask (4).mrc as #7, grid size 300,300,300, pixel 0.74, shown at level 5e-05, step 2, values float32 > ui tool show ""Side View"" > open /Users/mariarafiq/Downloads/cryosparc_P410_J166_002_volume_map.mrc Opened cryosparc_P410_J166_002_volume_map.mrc as #9, grid size 300,300,300, pixel 0.74, shown at level 0.0391, step 2, values float32 > volume #7 color #b2ffff71 > volume #7 color #b2ffff70 > open ""/Users/mariarafiq/Downloads/cryosparc_P410_J154_003_volume_map_sharp > (1).mrc"" Opened cryosparc_P410_J154_003_volume_map_sharp (1).mrc as #10, grid size 300,300,300, pixel 0.74, shown at level 0.0452, step 2, values float32 > view > volume #3 level 0.0778 > volume #10 step 1 > volume #10 level 0.1883 > select subtract #8 Nothing selected > hide #8 models > view matrix models #10,1,0,0,-0.8494,0,1,0,-5.9843,0,0,1,13.907 > view matrix models #10,1,0,0,7.5991,0,1,0,-3.967,0,0,1,13.994 > view matrix models #10,1,0,0,-1.8173,0,1,0,-4.3576,0,0,1,7.3998 > view matrix models #10,1,0,0,-3.0719,0,1,0,-5.0734,0,0,1,8.3111 > view matrix models #10,1,0,0,0.087856,0,1,0,-2.077,0,0,1,9.3492 > view matrix models #10,1,0,0,-2.6907,0,1,0,-10.023,0,0,1,27.875 > view matrix models #10,1,0,0,-5.199,0,1,0,-8.7637,0,0,1,17.923 > view matrix models #10,1,0,0,-10.83,0,1,0,-11.547,0,0,1,18.154 > show #!2 models > open > /Users/mariarafiq/Downloads/cryosparc_P410_J164_008_volume_map_sharp.mrc Opened cryosparc_P410_J164_008_volume_map_sharp.mrc as #11, grid size 300,300,300, pixel 0.74, shown at level 0.047, step 2, values float32 > volume #11 step 1 > volume #11 level 0.06637 > ui tool show ""Side View"" > volume #11 level 0.1156 > volume #11 level 0.09978 > open ""/Users/mariarafiq/Downloads/cryosparc_P410_J158_002_volume_map_sharp > (2).mrc"" Opened cryosparc_P410_J158_002_volume_map_sharp (2).mrc as #12, grid size 300,300,300, pixel 0.74, shown at level 0.0657, step 2, values float32 > volume #12 step 1 > volume #12 level 0.1269 > view > volume #12 level 0.2799 > view matrix models #12,1,0,0,-15.965,0,1,0,-6.1341,0,0,1,-1.6828 > view matrix models #12,1,0,0,-12.202,0,1,0,-15.317,0,0,1,-13.363 > view matrix models #12,1,0,0,-16.987,0,1,0,-9.2493,0,0,1,3.7086 > vop gaussian #11 sdev 2.22 Opened cryosparc_P410_J164_008_volume_map_sharp.mrc gaussian as #13, grid size 300,300,300, pixel 0.74, shown at step 1, values float32 > vop gaussian #11 sdev 1.5 Opened cryosparc_P410_J164_008_volume_map_sharp.mrc gaussian as #14, grid size 300,300,300, pixel 0.74, shown at step 1, values float32 > volume #14 level 0.04706 > vop gaussian #11 sdev 1.1 Opened cryosparc_P410_J164_008_volume_map_sharp.mrc gaussian as #15, grid size 300,300,300, pixel 0.74, shown at step 1, values float32 > volume #15 level 0.04962 > volume #15 level 0.05445 > surface dust #15 size 7.4 > volume #15 level 0.04882 > view matrix models #15,1,0,0,-12.671,0,1,0,2.8251,0,0,1,-9.018 > volume #15 level 0.06249 > volume #15 level 0.08019 > volume #15 level 0.09145 > volume #15 level 0.07134 > volume #15 level 0.06812 > volume #15 level 0.06893 > open > /Users/mariarafiq/Downloads/cryosparc_P410_J173_011_volume_map_sharp.mrc Opened cryosparc_P410_J173_011_volume_map_sharp.mrc as #16, grid size 300,300,300, pixel 0.74, shown at level 0.0521, step 2, values float32 > volume #16 step 1 > volume #16 level 0.1042 > surface dust #16 size 7.4 > view matrix models #16,1,0,0,0.584,0,1,0,-3.1171,0,0,1,-2.3379 > volume #16 level 0.1766 > volume #16 level 0.1178 > volume #16 level 0.1359 > undust Unknown command: undust > ~dust Unknown command: ~dust > surface undust Missing or invalid ""surfaces"" argument: empty atom specifier > surface undust #16 > view matrix models #16,1,0,0,-12.552,0,1,0,-7.5084,0,0,1,-3.0238 > view matrix models #16,1,0,0,-8.7068,0,1,0,-3.671,0,0,1,-4.2909 > view matrix models #16,1,0,0,-2.04,0,1,0,2.6041,0,0,1,-4.1299 > volume #16 level 0.163 > volume #16 level 0.1155 > volume #16 level 0.1744 > volume #16 level 0.2151 > volume #16 level 0.197 > view matrix models #16,1,0,0,-2.2407,0,1,0,2.5442,0,0,1,-3.6562 > volume #16 level 0.1359 > volume #16 level 0.09288 > surface dust #16 size 7.4 > volume #16 level 0.07704 > volume #16 level 0.08156 > volume #16 level 0.09288 > volume #16 level 0.0793 > ui tool show ""Side View"" > view > view matrix models #16,1,0,0,-3.889,0,1,0,-0.76364,0,0,1,0.13671 > surface dust #16 size 7.4 > volume #16 level 0.1065 > view > open > /Users/mariarafiq/Downloads/cryosparc_P410_J174_010_volume_map_sharp.mrc Opened cryosparc_P410_J174_010_volume_map_sharp.mrc as #17, grid size 300,300,300, pixel 0.74, shown at level 0.0513, step 2, values float32 > volume #17 step 1 > volume #17 level 0.0975 > volume #17 level 0.1364 > ui tool show ""Side View"" > view ===== Log before crash end ===== Log: Startup Messages --- note | available bundle cache has not been initialized yet UCSF ChimeraX version: 1.9 (2024-12-11) © 2016-2024 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open > /Users/mariarafiq/Downloads/cryosparc_P410_J176_010_volume_map_sharp.mrc Opened cryosparc_P410_J176_010_volume_map_sharp.mrc as #1, grid size 300,300,300, pixel 0.74, shown at level 0.0504, step 2, values float32 OpenGL version: 4.1 Metal - 89.3 OpenGL renderer: Apple M4 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: Mac16,1 Model Number: MW2V3LL/A Chip: Apple M4 Total Number of Cores: 10 (4 performance and 6 efficiency) Memory: 16 GB System Firmware Version: 11881.41.5 OS Loader Version: 11881.41.5 Software: System Software Overview: System Version: macOS 15.1 (24B2083) Kernel Version: Darwin 24.1.0 Time since boot: 23 hours, 42 minutes Graphics/Displays: Apple M4: Chipset Model: Apple M4 Type: GPU Bus: Built-In Total Number of Cores: 10 Vendor: Apple (0x106b) Metal Support: Metal 3 Displays: Color LCD: Display Type: Built-in Liquid Retina XDR Display Resolution: 3024 x 1964 Retina Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: Yes Connection Type: Internal Installed Packages: alabaster: 1.0.0 anyio: 4.7.0 appdirs: 1.4.4 appnope: 0.1.4 asttokens: 3.0.0 auditwheel: 6.1.0 autocommand: 2.2.2 babel: 2.16.0 backports.tarfile: 1.2.0 beautifulsoup4: 4.12.3 blockdiag: 3.0.0 blosc2: 3.0.0 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: 1.58.8 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: 3.0.0 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-Clipper: 0.24.0 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: 1.9 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-ISOLDE: 1.9 ChimeraX-ItemsInspection: 1.0.1 ChimeraX-IUPAC: 1.0 ChimeraX-KVFinder: 1.2.1 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: 2.1.6 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: 4.55.3 funcparserlib: 2.0.0a0 glfw: 2.8.0 grako: 3.16.5 h11: 0.14.0 h5py: 3.12.1 html2text: 2024.2.26 httpcore: 1.0.7 httpx: 0.28.1 idna: 3.10 ihm: 1.3 imagecodecs: 2024.6.1 imagesize: 1.4.1 importlib_metadata: 8.0.0 importlib_resources: 6.4.0 inflect: 7.3.1 ipykernel: 6.29.5 ipython: 8.26.0 ipywidgets: 8.1.5 jaraco.context: 5.3.0 jaraco.functools: 4.0.1 jaraco.text: 3.12.1 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 more-itertools: 10.3.0 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: 2.10.2 numpy: 1.26.4 openvr: 1.26.701 ordered-set: 4.1.0 packaging: 23.2 packaging: 24.1 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 platformdirs: 4.2.2 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 sniffio: 1.3.1 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 tomli: 2.0.1 tornado: 6.4.2 traitlets: 5.14.3 typeguard: 4.3.0 typing_extensions: 4.12.2 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: 0.43.0 wheel-filename: 1.4.1 widgetsnbextension: 4.0.13 zipp: 3.19.2 }}} " defect closed normal Window Toolkit duplicate all ChimeraX