id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 17591 Crash on Mac waking from sleep chkaiser@… Tom Goddard "{{{ The following bug report has been submitted: Platform: macOS-15.4.1-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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2391K 1 \n__TEXT 1.3G 1117 \n__TPRO_CONST 128K 2 \ndyld private memory 2592K 23 \nmapped file 576.1M 83 \npage table in kernel 11.4M 1 \nshared memory 3712K 27 \n=========== ======= ======= \nTOTAL 22.7G 6517 \nTOTAL, minus reserved VM space 22.4G 6517 \n"", ""legacyInfo"" : { ""threadTriggered"" : { ""name"" : ""CrBrowserMain"", ""queue"" : ""com.apple.main-thread"" } }, ""logWritingSignature"" : ""656d6f547ef77657a87e2c88ad7e4901310b8afd"", ""trialInfo"" : { ""rollouts"" : [ { ""rolloutId"" : ""64c17a9925d75a7281053d4c"", ""factorPackIds"" : { ""SIRI_AUDIO_DISABLE_MEDIA_ENTITY_SYNC"" : ""64d29746ad29a465b3bbeace"" }, ""deploymentId"" : 240000002 }, { ""rolloutId"" : ""648cada15dbc71671bb3aa1b"", ""factorPackIds"" : { ""SIRI_EXPERIENCE_CAM"" : ""65a81173096f6a1f1ba46525"" }, ""deploymentId"" : 240000116 } ], ""experiments"" : [ { ""treatmentId"" : ""d7ff00dd-1c5a-4dbb-85d6-7a936d671384"", ""experimentId"" : ""67f46bbc84eaf455d73c6098"", ""deploymentId"" : 400000001 } ] } } ===== 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/christoph/Downloads/cryosparc_P262_J58_003_volume_map_sharp.mrc Opened cryosparc_P262_J58_003_volume_map_sharp.mrc as #1, grid size 320,320,320, pixel 1.18, shown at level 0.356, step 2, values float32 > volume #1 step 1 > volume #1 level 0.4244 > volume #1 level 0.3745 > open /Users/christoph/Downloads/cryosparc_P262_J66_006_volume_map_sharp.mrc Opened cryosparc_P262_J66_006_volume_map_sharp.mrc as #2, grid size 320,320,320, pixel 1.18, shown at level 0.369, step 2, values float32 > volume #2 step 1 > volume #2 level 0.6203 > volume #2 level 0.6251 > volume #2 level 0.5491 > volume #2 level 0.4873 > ui tool show ""Side View"" > volume #2 level 0.2769 > open /Users/christoph/Downloads/cryosparc_P262_J70_006_volume_map_sharp.mrc Opened cryosparc_P262_J70_006_volume_map_sharp.mrc as #3, grid size 360,360,360, pixel 1.18, shown at level 0.28, step 2, values float32 > volume #3 step 1 > volume #3 level 0.4288 > volume #2 level 0.4139 > ui tool show ""Side View"" > volume #3 level 0.5514 > volume #3 level 0.4768 > volume #3 level 0.2477 > volume #3 level 0.221 > volume #2 level 0.1791 > open /Users/christoph/Downloads/cryosparc_P262_J67_class_04_00032_volume.mrc Opened cryosparc_P262_J67_class_04_00032_volume.mrc as #4, grid size 100,100,100, pixel 3.78, shown at level 1.66, step 1, values float32 > open /Users/christoph/Downloads/cryosparc_P262_J67_class_03_00032_volume.mrc Opened cryosparc_P262_J67_class_03_00032_volume.mrc as #5, grid size 100,100,100, pixel 3.78, shown at level 1.68, step 1, values float32 > open /Users/christoph/Downloads/cryosparc_P262_J67_class_02_00032_volume.mrc Opened cryosparc_P262_J67_class_02_00032_volume.mrc as #6, grid size 100,100,100, pixel 3.78, shown at level 1.67, step 1, values float32 > volume #5 level 1.536 > volume #6 level 1.574 > volume #4 level 1.597 > volume #4 level 1.204 > volume #5 level 1.187 > volume #6 level 1.202 > open /Users/christoph/Downloads/cryosparc_P262_J88_007_volume_map_sharp.mrc Opened cryosparc_P262_J88_007_volume_map_sharp.mrc as #7, grid size 360,360,360, pixel 1.18, shown at level 0.278, step 2, values float32 > volume #7 step 1 > volume #7 level 0.5022 > volume #7 level 0.4289 > volume #7 level 0.214 > volume #7 level 0.4143 > open /Users/christoph/Downloads/cryosparc_P262_J91_006_volume_map_sharp.mrc Opened cryosparc_P262_J91_006_volume_map_sharp.mrc as #8, grid size 360,360,360, pixel 1.18, shown at level 0.291, step 2, values float32 > volume #8 level 0.4137 > volume #8 step 1 > open /Users/christoph/Downloads/cryosparc_P262_J126_008_volume_map_sharp.mrc Opened cryosparc_P262_J126_008_volume_map_sharp.mrc as #9, grid size 360,360,360, pixel 1.18, shown at level 0.287, step 2, values float32 > volume #9 step 1 > volume #9 level 0.5577 > open /Users/christoph/Downloads/cryosparc_P262_J131_009_volume_map_sharp.mrc Opened cryosparc_P262_J131_009_volume_map_sharp.mrc as #10, grid size 360,360,360, pixel 1.18, shown at level 0.404, step 2, values float32 > volume #10 step 1 > volume #10 level 0.7923 > volume #10 level 1.051 > volume #10 level 1.472 > open /Users/christoph/Downloads/cryosparc_P262_J131_010_volume_map_sharp.mrc Opened cryosparc_P262_J131_010_volume_map_sharp.mrc as #11, grid size 360,360,360, pixel 1.18, shown at level 0.417, step 2, values float32 > volume #11 step 1 > volume #11 level 1.301 > volume #11 level 1.036 > volume #11 level 0.6293 > volume #11 level 0.4878 > volume #11 level 0.8239 > open ""/Users/christoph/Downloads/cryosparc_P262_J163_011_volume_map_sharp > (1).mrc"" Opened cryosparc_P262_J163_011_volume_map_sharp (1).mrc as #12, grid size 800,800,800, pixel 0.59, shown at step 1, values float32 > open ""/Users/christoph/Downloads/cryosparc_P262_J163_011_volume_map_sharp > (1).mrc"" Opened cryosparc_P262_J163_011_volume_map_sharp (1).mrc as #13, grid size 800,800,800, pixel 0.59, shown at step 1, values float32 > volume #12 level -0.03719,0 level 0.1385,0.8 level 0.7963,1 > volume #13 region 0,0,0,799,799,799 step 4 > volume #13 > volume #13 change image level -0.03719,0 level 0.1385,0.8 level 0.7963,1 > volume #13 step 1 > volume #13 step 2 > volume #13 level 0.2658 > volume #13 level 0.2266 > volume #13 level 0.1352 > volume #13 step 1 > ui tool show ""Side View"" > volume #13 level 0.03722 > volume #13 level 0.07775 > volume #13 level 0.09126 > volume #13 level 0.1791 > close #12 > close #11 > close #10 > close #8 > close #7 > close #6 > close #5 > close #4 > close #3 > close #2 > close #1 > close #9 > open 3P05 fromDatabase pdb format mmcif Summary of feedback from opening 3P05 fetched from pdb --- notes | Fetching compressed mmCIF 3p05 from http://files.rcsb.org/download/3p05.cif Fetching CCD IOD from https://files.wwpdb.org/pub/pdb/refdata/chem_comp/D/IOD/IOD.cif 3p05 title: X-ray structure of pentameric HIV-1 CA [more info...] Chain information for 3p05 #1 --- Chain | Description | UniProt A B C D E | HIV-1 CA | Q72497_9HIV1 1-231 Non-standard residues in 3p05 #1 --- IOD — iodide ion > ui tool show ""Side View"" > select add #1 7918 atoms, 8079 bonds, 7 pseudobonds, 1043 residues, 2 models selected > ui mousemode right ""translate selected atoms"" > ui mousemode right ""move picked models"" > view matrix models #1,1,0,0,187.18,0,1,0,188.69,0,0,1,167.36 > ui mousemode right translate > ui mousemode right ""move picked models"" > rainbow sel > color sel bypolymer > color sel bychain > mlp sel Map values for surface ""3p05_A SES surface"": minimum -25.81, mean -4.541, maximum 21.81 Map values for surface ""3p05_B SES surface"": minimum -26.05, mean -4.703, maximum 22.75 Map values for surface ""3p05_C SES surface"": minimum -25.81, mean -4.473, maximum 21.62 Map values for surface ""3p05_D SES surface"": minimum -25.81, mean -4.463, maximum 22.95 Map values for surface ""3p05_E SES surface"": minimum -25.64, mean -4.484, maximum 22.74 To also show corresponding color key, enter the above mlp command and add key true > show sel cartoons > hide sel surfaces > hide sel atoms > style sel stick Changed 7918 atom styles > view matrix models #13,1,0,0,6.3795,0,1,0,20.602,0,0,1,0.14904 > ui mousemode right ""rotate selected models"" > view matrix models > #1,0.75003,-0.21501,-0.62548,204.13,0.5855,0.65571,0.47669,170.19,0.30764,-0.72375,0.61769,171.2 > view matrix models > #1,0.083348,0.59606,-0.7986,217.32,0.58009,0.6226,0.52524,169.19,0.81028,-0.50704,-0.29387,184.38 > view matrix models > #1,-0.75364,0.54253,-0.37107,219.32,0.41403,0.8303,0.37307,174.86,0.5105,0.12753,-0.85037,200.88 > view matrix models > #1,-0.58654,-0.47416,0.65662,194.16,-0.031378,0.82341,0.56658,176.67,-0.80932,0.31171,-0.49784,211.18 > ui mousemode right ""move picked models"" > view matrix models > #1,-0.58654,-0.47416,0.65662,191.63,-0.031378,0.82341,0.56658,246.82,-0.80932,0.31171,-0.49784,198.86 > ui mousemode right ""rotate selected models"" > view matrix models > #1,-0.4099,-0.04713,0.91091,183.88,-0.19222,0.9807,-0.035757,262.22,-0.89164,-0.18975,-0.41105,197.85 > view matrix models > #1,-0.070684,0.54696,0.83417,181.22,-0.43545,0.73545,-0.51913,275.96,-0.89743,-0.39993,0.18619,184.8 > view matrix models > #1,-0.14536,0.80884,0.56978,188.12,0.18106,0.58792,-0.7884,273.41,-0.97267,-0.011438,-0.2319,195.12 > ui mousemode right translate > ui mousemode right ""translate selected models"" > view matrix models > #1,-0.14536,0.80884,0.56978,167.55,0.18106,0.58792,-0.7884,269.94,-0.97267,-0.011438,-0.2319,208.34 > ui mousemode right ""rotate selected models"" > view matrix models > #1,-0.56373,0.67103,0.48158,175.09,0.13201,0.64876,-0.74945,269.78,-0.81534,-0.35892,-0.45431,210.9 > view matrix models > #1,-0.60855,0.64551,0.4615,176.12,0.12018,0.64986,-0.75049,269.96,-0.78436,-0.40125,-0.47305,210.87 > view matrix models > #1,-0.57869,0.6445,0.49973,174.89,0.08611,0.65762,-0.74842,270.39,-0.81099,-0.39007,-0.43606,210.43 > view matrix models > #1,-0.58727,0.64377,0.49058,175.2,0.093707,0.65611,-0.74882,270.29,-0.80395,-0.39379,-0.44564,210.54 > view matrix models > #1,-0.57921,0.64621,0.49692,174.95,0.090478,0.65678,-0.74863,270.33,-0.81014,-0.38865,-0.43888,210.48 > view matrix models > #1,-0.54385,0.66635,0.51011,174.2,0.10063,0.65526,-0.74867,270.19,-0.83313,-0.35583,-0.42342,210.47 > view matrix models > #1,-0.51611,0.78916,0.33297,177.74,0.043544,0.41241,-0.90996,274.38,-0.85542,-0.45514,-0.24721,206.88 > fitmap #1 inMap #13 Fit molecule 3p05 (#1) to map cryosparc_P262_J163_011_volume_map_sharp (1).mrc (#13) using 7918 atoms average map value = 0.03009, steps = 100 shifted from previous position = 2.77 rotated from previous position = 2.78 degrees atoms outside contour = 7002, contour level = 0.17908 Position of 3p05 (#1) relative to cryosparc_P262_J163_011_volume_map_sharp (1).mrc (#13) coordinates: Matrix rotation and translation -0.53004435 0.79117044 0.30512671 172.33994883 0.08824897 0.40934533 -0.90810160 254.19453728 -0.84336534 -0.45440701 -0.28679115 209.97123240 Axis 0.31929971 0.80828201 -0.49469980 Axis point 110.10998301 0.00000000 151.21825395 Rotation angle (degrees) 134.72825071 Shift along axis 156.61624114 > fitmap #1 inMap #13 Fit molecule 3p05 (#1) to map cryosparc_P262_J163_011_volume_map_sharp (1).mrc (#13) using 7918 atoms average map value = 0.03009, steps = 44 shifted from previous position = 0.00189 rotated from previous position = 0.0104 degrees atoms outside contour = 7004, contour level = 0.17908 Position of 3p05 (#1) relative to cryosparc_P262_J163_011_volume_map_sharp (1).mrc (#13) coordinates: Matrix rotation and translation -0.53007904 0.79109207 0.30526962 172.33630051 0.08822141 0.40950805 -0.90803090 254.19310496 -0.84334642 -0.45439684 -0.28686290 209.97104744 Axis 0.31924459 0.80833755 -0.49464462 Axis point 110.11910378 0.00000000 151.20397659 Rotation angle (degrees) 134.72598108 Shift along axis 156.63021382 > fitmap #1 inMap #13 Fit molecule 3p05 (#1) to map cryosparc_P262_J163_011_volume_map_sharp (1).mrc (#13) using 7918 atoms average map value = 0.03009, steps = 80 shifted from previous position = 0.00122 rotated from previous position = 0.00276 degrees atoms outside contour = 7002, contour level = 0.17908 Position of 3p05 (#1) relative to cryosparc_P262_J163_011_volume_map_sharp (1).mrc (#13) coordinates: Matrix rotation and translation -0.53007878 0.79110902 0.30522613 172.33641867 0.08823626 0.40946603 -0.90804841 254.19264561 -0.84334503 -0.45440519 -0.28685376 209.97160116 Axis 0.31925829 0.80832435 -0.49465735 Axis point 110.11520593 0.00000000 151.20806058 Rotation angle (degrees) 134.72729633 Shift along axis 156.62593835 > fitmap #1 inMap #13 Fit molecule 3p05 (#1) to map cryosparc_P262_J163_011_volume_map_sharp (1).mrc (#13) using 7918 atoms average map value = 0.03008, steps = 48 shifted from previous position = 0.00393 rotated from previous position = 0.00646 degrees atoms outside contour = 7001, contour level = 0.17908 Position of 3p05 (#1) relative to cryosparc_P262_J163_011_volume_map_sharp (1).mrc (#13) coordinates: Matrix rotation and translation -0.53009737 0.79108361 0.30525972 172.33504475 0.08830057 0.40954650 -0.90800587 254.18775443 -0.84332661 -0.45437692 -0.28695266 209.97508210 Axis 0.31925648 0.80835589 -0.49460697 Axis point 110.11253002 0.00000000 151.20102043 Rotation angle (degrees) 134.72878945 Shift along axis 156.63811005 > ui mousemode right translate > select subtract #1.2 6312 atoms, 6435 bonds, 6 pseudobonds, 833 residues, 7 models selected > select subtract #1.3 4718 atoms, 4807 bonds, 5 pseudobonds, 624 residues, 6 models selected > select subtract #1.5 3136 atoms, 3191 bonds, 3 pseudobonds, 418 residues, 5 models selected > select subtract #1.4 1544 atoms, 1566 bonds, 2 pseudobonds, 209 residues, 4 models selected > show sel atoms > hide sel cartoons > select add #1.5 3126 atoms, 1566 bonds, 2 pseudobonds, 415 residues, 3 models selected > show sel atoms > show sel cartoons > hide sel cartoons > select subtract #1.5 1544 atoms, 1566 bonds, 2 pseudobonds, 209 residues, 4 models selected > select subtract #1.6 10 atoms, 10 residues, 2 models selected > show sel atoms > ui mousemode right ""move picked models"" > ui mousemode right ""translate selected models"" > view matrix models > #1,-0.5301,0.79108,0.30526,175.61,0.088301,0.40955,-0.90801,275.42,-0.84333,-0.45438,-0.28695,211.62 > ui mousemode right ""rotate selected models"" > ui mousemode right rotate > ui mousemode right ""move picked models"" > ui mousemode right ""translate selected models"" > view matrix models > #1,-0.5301,0.79108,0.30526,175.55,0.088301,0.40955,-0.90801,274.43,-0.84333,-0.45438,-0.28695,211.83 > fitmap #1 inMap #13 Fit molecule 3p05 (#1) to map cryosparc_P262_J163_011_volume_map_sharp (1).mrc (#13) using 7918 atoms average map value = 0.04867, steps = 136 shifted from previous position = 2.44 rotated from previous position = 9.92 degrees atoms outside contour = 6791, contour level = 0.17908 Position of 3p05 (#1) relative to cryosparc_P262_J163_011_volume_map_sharp (1).mrc (#13) coordinates: Matrix rotation and translation -0.51052697 0.79785208 0.32061544 168.66554053 -0.06358892 0.33681557 -0.93942094 256.81412590 -0.85750723 -0.49998732 -0.12121889 210.94136766 Axis 0.28830630 0.77294995 -0.56517949 Axis point 121.19115883 0.00000000 159.92626641 Rotation angle (degrees) 130.35075644 Shift along axis 127.91206826 > ui mousemode right translate > ui mousemode right rotate > hide #!13 models > show #!13 models > volume #13 style mesh > color sel byhetero > select add #1 7918 atoms, 8079 bonds, 7 pseudobonds, 1043 residues, 2 models selected > color sel byhetero > select subtract #1 5 models selected > ui mousemode right translate > ui mousemode right zoom > open ""/Users/christoph/Downloads/cryosparc_P262_J163_011_volume_map_sharp > (1).mrc"" Opened cryosparc_P262_J163_011_volume_map_sharp (1).mrc as #2, grid size 800,800,800, pixel 0.59, shown at step 1, values float32 > ui mousemode right translate > volume #2 level -0.03719,0 level 0.1385,0.8 level 0.7963,1 > volume #2 level -0.03719,0 level 0.08575,0.9471 level 0.7963,1 > volume #13 level 0.1692 > volume #13 level 0.1397 > volume #13 style surface > volume #13 style mesh > volume #2 region 0,0,0,799,799,799 step 4 > volume #2 step 1 > ui mousemode right zoom > ui mousemode right translate > ui tool show ""Side View"" > volume #2 level 0.1748 > volume #2 step 2 > volume #2 step 1 > volume #2 level 0.1551 > ui mousemode right ""translate selected models"" > ui mousemode right translate > ui mousemode right zoom > volume #2 style surface > volume #2 level 0.1781 > open /Users/christoph/Downloads/cryosparc_P262_J174_011_volume_map_sharp.mrc Opened cryosparc_P262_J174_011_volume_map_sharp.mrc as #3, grid size 850,850,850, pixel 0.59, shown at step 1, values float32 > close #3 > open ""/Users/christoph/Downloads/cryosparc_P262_J174_011_volume_map_sharp > (1).mrc"" Opened cryosparc_P262_J174_011_volume_map_sharp (1).mrc as #3, grid size 850,850,850, pixel 0.59, shown at step 1, values float32 > volume #3 region 0,0,0,849,849,849 step 4 > volume #3 step 1 > volume #3 change image level -0.0977,0 level 0.3478,0.8 level 2.295,1 > volume #3 level 0.2765 > ui mousemode right translate > ui mousemode right zoom > ui mousemode right translate > volume #3 color #00fdff ===== 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/christoph/Downloads/cryosparc_P262_J174_011_volume_map_sharp > (1).mrc"" Opened cryosparc_P262_J174_011_volume_map_sharp (1).mrc as #1, grid size 850,850,850, pixel 0.59, shown at step 1, values float32 OpenGL version: 4.1 Metal - 89.4 OpenGL renderer: Apple M4 Pro OpenGL vendor: Apple Python: 3.11.4 Locale: en_US.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: Mac16,8 Model Number: Z1FF000HYD/A Chip: Apple M4 Pro Total Number of Cores: 14 (10 performance and 4 efficiency) Memory: 48 GB System Firmware Version: 11881.101.1 OS Loader Version: 11881.101.1 Software: System Software Overview: System Version: macOS 15.4.1 (24E263) Kernel Version: Darwin 24.4.0 Time since boot: 3 days, 12 hours, 27 minutes Graphics/Displays: Apple M4 Pro: Chipset Model: Apple M4 Pro Type: GPU Bus: Built-In Total Number of Cores: 20 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 babel: 2.16.0 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-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-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 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: 2.10.2 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 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 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