id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 17978 Crash on Mac waking from sleep chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: macOS-12.5-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. Fatal Python error: Segmentation fault Current thread 0x00000001022f4580 (most recent call first): File ""/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py"", line 330 in event_loop File ""/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py"", line 1054 in init File ""/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py"", line 1217 in File """", line 88 in _run_code File """", line 198 in _run_module_as_main Extension modules: chimerax.arrays._arrays, numpy.core._multiarray_umath, numpy.core._multiarray_tests, numpy.linalg._umath_linalg, numpy.fft._pocketfft_internal, numpy.random._common, numpy.random.bit_generator, numpy.random._bounded_integers, numpy.random._mt19937, numpy.random.mtrand, numpy.random._philox, numpy.random._pcg64, numpy.random._sfc64, numpy.random._generator, chimerax.geometry._geometry, PyQt6.QtCore, PyQt6.QtGui, PyQt6.QtWidgets, PyQt6.QtNetwork, PyQt6.QtPrintSupport, PyQt6.QtWebChannel, PyQt6.QtWebEngineCore, PyQt6.QtWebEngineWidgets, chimerax.atomic_lib._load_libs, tinyarray, chimerax.atomic.cymol, chimerax.atomic.cytmpl, chimerax.map._map, charset_normalizer.md, requests.packages.charset_normalizer.md, requests.packages.chardet.md, PIL._imaging, kiwisolver._cext, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.pdb_lib._load_libs, chimerax.surface._surface, chimerax.core._mac_util, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, lz4._version, lz4.frame._frame, msgpack._cmsgpack, chimerax.core._serialize, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets, psutil._psutil_osx, psutil._psutil_posix, chimerax.atomic._ribbons, chimerax.graphics._graphics, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, chimerax.pdb._pdbio, lxml._elementpath, lxml.etree, PIL._imagingmath, chimerax.alignment_algs._sw, chimerax.dssp._dssp, chimerax.alignment_algs._nw (total: 63) {""app_name"":""ChimeraX"",""timestamp"":""2025-06-11 13:51:58.00 -0700"",""app_version"":""1.9.0"",""slice_uuid"":""17982d98-65bc-3327-8526-577ec996453c"",""build_version"":""1.9.0.0"",""platform"":1,""bundleID"":""edu.ucsf.cgl.ChimeraX"",""share_with_app_devs"":1,""is_first_party"":0,""bug_type"":""309"",""os_version"":""macOS 12.5 (21G72)"",""incident_id"":""6589C9AE-F76B-4CC0-8768-5E0186669A0E"",""name"":""ChimeraX""} { ""uptime"" : 320000, ""procLaunch"" : ""2025-06-09 17:48:28.3462 -0700"", ""procRole"" : ""Background"", ""version"" : 2, ""userID"" : 501, ""deployVersion"" : 210, ""modelCode"" : ""Mac14,7"", ""procStartAbsTime"" : 6875188333124, ""coalitionID"" : 510, ""osVersion"" : { ""train"" : ""macOS 12.5"", ""build"" : ""21G72"", ""releaseType"" : ""User"" }, ""captureTime"" : ""2025-06-11 13:51:48.3292 -0700"", ""incident"" : ""6589C9AE-F76B-4CC0-8768-5E0186669A0E"", ""bug_type"" : ""309"", ""pid"" : 52305, ""procExitAbsTime"" : 7718820724813, ""translated"" : false, ""cpuType"" : ""ARM-64"", ""procName"" : ""ChimeraX"", ""procPath"" : ""\/Applications\/ChimeraX-1.9.app\/Contents\/MacOS\/ChimeraX"", ""bundleInfo"" : {""CFBundleShortVersionString"":""1.9.0"",""CFBundleVersion"":""1.9.0.0"",""CFBundleIdentifier"":""edu.ucsf.cgl.ChimeraX""}, ""storeInfo"" : {""deviceIdentifierForVendor"":""BEB95BAB-FF79-5C10-8095-C36F6ECBA893"",""thirdParty"":true}, ""parentProc"" : ""launchd"", ""parentPid"" : 1, ""coalitionName"" : ""edu.ucsf.cgl.ChimeraX"", ""crashReporterKey"" : ""3B5CB510-F428-16BE-91C8-C6A2A81618AF"", ""wakeTime"" : 3, ""sleepWakeUUID"" : ""700DCCE1-A3C4-40C8-A77E-EE34DD0F8853"", ""sip"" : ""enabled"", ""vmRegionInfo"" : ""0x264311770798 is not in any region. 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: { ""rollouts"" : [ { ""rolloutId"" : ""63582c5f8a53461413999550"", ""factorPackIds"" : { }, ""deploymentId"" : 240000002 }, { ""rolloutId"" : ""607844aa04477260f58a8077"", ""factorPackIds"" : { ""SIRI_MORPHUN_ASSETS"" : ""6103050cbfe6dc472e1c982a"" }, ""deploymentId"" : 240000066 } ], ""experiments"" : [ ] } } ===== Log before crash start ===== Startup Messages --- note | available bundle cache has not been initialized yet > graphics silhouettes true > lighting soft 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/jchuang/Scripps Research Dropbox/Jiachen Huang/Drifting > H3s/Manuscript/Final maps and models/2 RBS aligned.cxs"" Opened 3.03_P341_J234_flip.mrc as #1, grid size 416,416,416, pixel 0.725, shown at level 0.085, step 1, values float32 opened ChimeraX session > select add #3 13734 atoms, 14025 bonds, 1715 residues, 1 model selected > select subtract #3 Nothing selected > show #!2 models > hide #3 models > show #3 models > hide #!2 models > show #!2 models > hide #3 models > ui mousemode right select Drag select of 15 atoms, 47 residues, 14 bonds > select clear Drag select of 89 atoms, 198 residues, 92 bonds > select up 1653 atoms, 1676 bonds, 206 residues, 1 model selected > select up 1674 atoms, 1699 bonds, 206 residues, 1 model selected > select up 3425 atoms, 3477 bonds, 422 residues, 1 model selected > select up 11711 atoms, 11957 bonds, 1474 residues, 1 model selected > select up 12303 atoms, 12563 bonds, 1518 residues, 1 model selected > show sel surfaces > select clear > select #2/G:225@CB 1 atom, 1 residue, 1 model selected > select #2/G:137@CB 1 atom, 1 residue, 1 model selected > select #2/G:143@CB 1 atom, 1 residue, 1 model selected > select #2/G:142@CB 1 atom, 1 residue, 1 model selected > select #2/G:140@CD1 1 atom, 1 residue, 1 model selected > select #2/G:144@CB 1 atom, 1 residue, 1 model selected > select up 6 atoms, 5 bonds, 1 residue, 2 models selected > select clear > hide #!2 surfaces Drag select of 59 residues > select up 921 atoms, 939 bonds, 119 residues, 1 model selected > select up 1732 atoms, 1777 bonds, 227 residues, 1 model selected > show sel surfaces > select clear > select #2/G:146 6 atoms, 5 bonds, 1 residue, 1 model selected > select #2/G:145 6 atoms, 5 bonds, 1 residue, 1 model selected > select #2/G:144 6 atoms, 5 bonds, 1 residue, 1 model selected > show sel atoms > select clear > select #2/G:144 6 atoms, 5 bonds, 1 residue, 1 model selected > select clear > ui tool show ""Color Actions"" > color byhetero target acpf > select #2/G:134 4 atoms, 3 bonds, 1 residue, 1 model selected > select #2/G:133 8 atoms, 7 bonds, 1 residue, 1 model selected > select #2/G:131 7 atoms, 6 bonds, 1 residue, 1 model selected > select add #2/G:135 14 atoms, 12 bonds, 2 residues, 2 models selected > show sel atoms > select add #2/G:144 20 atoms, 17 bonds, 3 residues, 2 models selected > style sel sphere Changed 20 atom styles > select add #2/G:158 28 atoms, 24 bonds, 4 residues, 2 models selected > select add #2/G:159 40 atoms, 36 bonds, 5 residues, 2 models selected > select subtract #2/G:158 32 atoms, 29 bonds, 4 residues, 2 models selected > show sel atoms > style sel sphere Changed 32 atom styles > select clear > select #2/G:192 8 atoms, 7 bonds, 1 residue, 1 model selected > select #2/G:190 8 atoms, 7 bonds, 1 residue, 1 model selected > select add #2/G:192 16 atoms, 14 bonds, 2 residues, 2 models selected > select subtract #2/G:192 8 atoms, 7 bonds, 1 residue, 2 models selected > select add #2/G:193 19 atoms, 18 bonds, 2 residues, 2 models selected > select add #2/G:192 27 atoms, 25 bonds, 3 residues, 2 models selected > show sel atoms > style sel sphere Changed 27 atom styles > select #2/G:222 11 atoms, 10 bonds, 1 residue, 1 model selected > select #2/G:226 8 atoms, 7 bonds, 1 residue, 1 model selected > select #2/G:225 8 atoms, 7 bonds, 1 residue, 1 model selected > show sel atoms > style sel sphere Changed 8 atom styles > select clear > select #2/G:224 11 atoms, 10 bonds, 1 residue, 1 model selected > select #2/G:225@CA 1 atom, 1 residue, 1 model selected > select add #2/G:135@CA 2 atoms, 2 residues, 2 models selected > select add #2/G:144@CB 3 atoms, 3 residues, 2 models selected > select add #2/G:131@CA 4 atoms, 4 residues, 2 models selected > select add #2/G:159@CD2 5 atoms, 5 residues, 2 models selected > select add #2/G:192@CD1 6 atoms, 6 residues, 2 models selected > select add #2/G:190@CA 7 atoms, 7 residues, 2 models selected > select add #2/G:193@CB 8 atoms, 8 residues, 2 models selected > select add #2/G:190@OD2 9 atoms, 8 residues, 2 models selected > select up 67 atoms, 62 bonds, 8 residues, 2 models selected > style sel ball Changed 67 atom styles > style sel sphere Changed 67 atom styles > ui tool show ""Color Actions"" > color sel orange target acpf > color sel byhetero target acpf > size ligand atomRadius -.5 Changed 1191 atom radii > size ligand atomRadius -1 Cannot reduce atom radius to size ligand atomRadius -.3 Changed 1191 atom radii > size ligand atomRadius -.8 Cannot reduce atom radius to ui mousemode right ""resize markers"" > volume #1 level -0.2232 > style sel ball Changed 67 atom styles > ui mousemode right select > select clear > select #2/T:19@NH1 1 atom, 1 residue, 1 model selected > select #2/S:27@OD1 1 atom, 1 residue, 1 model selected > select up 8 atoms, 7 bonds, 1 residue, 2 models selected > select up 18 atoms, 17 bonds, 3 residues, 2 models selected > select up 949 atoms, 976 bonds, 122 residues, 2 models selected > ui tool show ""Color Actions"" > color sel maroon > color sel dark red > color sel fire brick > color sel dark red > select clear > select #2/T:59@CD 1 atom, 1 residue, 1 model selected Drag select of 306.1.7_real_space_refined_014.pdb_T SES surface, 586 of 95370 triangles Drag select of 306.1.7_real_space_refined_014.pdb_T SES surface, 224 of 95370 triangles Drag select of 306.1.7_real_space_refined_014.pdb_T SES surface, 603 of 95370 triangles > select up 12548 atoms, 3 pseudobonds, 1588 residues, 7 models selected > select down Nothing selected > color tomato > undo Drag select of 306.1.7_real_space_refined_014.pdb_T SES surface, 409 of 95370 triangles Drag select of 306.1.7_real_space_refined_014.pdb_T SES surface, 443 of 95370 triangles > color sel tomato > color sel indian red > select clear > select #2/G:225 8 atoms, 7 bonds, 1 residue, 1 model selected > select clear > ui tool show ""Side View"" > select clear Drag select of 1 bonds Drag select of 1 atoms, 2 bonds > select up 8 atoms, 5 bonds, 3 residues, 1 model selected > select up 42 atoms, 42 bonds, 3 residues, 1 model selected > hide sel atoms > select clear > select #2/A:619@C3 1 atom, 1 residue, 1 model selected > select add #2/A:615@C3 2 atoms, 2 residues, 1 model selected > select up 28 atoms, 28 bonds, 2 residues, 1 model selected > select up 4126 atoms, 4215 bonds, 508 residues, 1 model selected > select down 28 atoms, 28 bonds, 2 residues, 2 models selected > hide sel atoms Drag select of 12 atoms, 81 residues, 10 bonds > select up 677 atoms, 683 bonds, 84 residues, 2 models selected > select up 705 atoms, 715 bonds, 84 residues, 2 models selected > select up 1319 atoms, 1355 bonds, 160 residues, 2 models selected > select up 2530 atoms, 2589 bonds, 321 residues, 2 models selected > select up 2683 atoms, 2747 bonds, 341 residues, 2 models selected > select up 3914 atoms, 3997 bonds, 492 residues, 2 models selected > select up 8216 atoms, 8390 bonds, 1013 residues, 2 models selected > select down 3914 atoms, 3997 bonds, 492 residues, 3 models selected > hide sel atoms > hide sel cartoons Drag select of 28 atoms, 29 bonds > select up 4126 atoms, 4215 bonds, 508 residues, 1 model selected > select up 14035 atoms, 14340 bonds, 1745 residues, 2 models selected > select down 4126 atoms, 4215 bonds, 508 residues, 6 models selected > select down 28 atoms, 29 bonds, 2 residues, 2 models selected > hide sel atoms > select #2/G:218 4 atoms, 3 bonds, 1 residue, 1 model selected > select clear Drag select of 306.1.7_real_space_refined_014.pdb_T SES surface, 1465 of 95370 triangles, 6 residues > select up 105 atoms, 102 bonds, 14 residues, 2 models selected > select up 783 atoms, 801 bonds, 105 residues, 2 models selected > hide sel surfaces > hide sel cartoons Drag select of 306.1.7_real_space_refined_014.pdb_S SES surface, 1871 of 109832 triangles, cap far, 68 of 4526 triangles, 2 residues > select up 32 atoms, 32 bonds, 5 residues, 3 models selected > select up 949 atoms, 976 bonds, 122 residues, 3 models selected > hide sel cartoons > hide sel surfaces > select #2/G:198 6 atoms, 5 bonds, 1 residue, 1 model selected > select up 30 atoms, 29 bonds, 5 residues, 2 models selected > select up 2485 atoms, 2542 bonds, 318 residues, 2 models selected > show sel surfaces > hide sel surfaces > select clear > select add #2/G:159 12 atoms, 12 bonds, 1 residue, 1 model selected > select add #2/G:192 20 atoms, 19 bonds, 2 residues, 2 models selected > select add #2/G:193 31 atoms, 30 bonds, 3 residues, 2 models selected > select add #2/G:190 39 atoms, 37 bonds, 4 residues, 2 models selected > select add #2/G:225 47 atoms, 44 bonds, 5 residues, 2 models selected > select add #2/G:144 53 atoms, 49 bonds, 6 residues, 2 models selected > select add #2/G:135 60 atoms, 55 bonds, 7 residues, 2 models selected > select add #2/G:131 67 atoms, 61 bonds, 8 residues, 2 models selected > select up 404 atoms, 412 bonds, 51 residues, 2 models selected > select down 67 atoms, 61 bonds, 8 residues, 2 models selected > ui tool show ""Color Actions"" > color sel orange > color sel byhetero > color sel orange > color sel byhetero target acpf > select clear > show #4#!2 surfaces Drag select of 306.1.7_real_space_refined_014.pdb_S SES surface, 3958 of 109832 triangles, 306.1.7_real_space_refined_014.pdb_T SES surface, 6844 of 95370 triangles Drag select of 306.1.7_real_space_refined_014.pdb_S SES surface, 977 of 109832 triangles, 306.1.7_real_space_refined_014.pdb_T SES surface, 1160 of 95370 triangles > hide #4#!2 surfaces Drag select of 3 residues > select up 181 atoms, 186 bonds, 21 residues, 2 models selected > select up 2485 atoms, 2542 bonds, 318 residues, 2 models selected > show sel surfaces > select clear Drag select of 3 atoms, 47 residues, 2 bonds > select up 385 atoms, 389 bonds, 49 residues, 2 models selected > select up 409 atoms, 415 bonds, 49 residues, 2 models selected > select clear Drag select of 2 atoms, 10 residues, 2 bonds > select up 96 atoms, 94 bonds, 11 residues, 2 models selected > select up 107 atoms, 106 bonds, 11 residues, 2 models selected > select up 384 atoms, 392 bonds, 48 residues, 2 models selected > select up 2499 atoms, 2556 bonds, 319 residues, 2 models selected > select clear Drag select of 13 atoms, 24 residues, 12 bonds > select up 216 atoms, 218 bonds, 26 residues, 2 models selected > select up 230 atoms, 234 bonds, 26 residues, 2 models selected > select up 450 atoms, 459 bonds, 56 residues, 2 models selected > select up 2513 atoms, 2570 bonds, 320 residues, 2 models selected > select up 2666 atoms, 2728 bonds, 340 residues, 2 models selected > hide sel cartoons Drag select of 38 atoms, 38 bonds > select up 39 atoms, 39 bonds, 3 residues, 1 model selected > select up 42 atoms, 42 bonds, 3 residues, 1 model selected > hide sel atoms Drag select of 18 atoms, 21 bonds > select clear Drag select of 6 atoms, 8 bonds Drag select of 1 atoms Drag select of 10 atoms, 12 bonds > select up 24 atoms, 21 bonds, 4 residues, 1 model selected > select up 53 atoms, 53 bonds, 4 residues, 1 model selected > select up 106 atoms, 110 bonds, 8 residues, 1 model selected > hide sel atoms Drag select of 3 atoms, 2 residues, 4 bonds > select up 22 atoms, 19 bonds, 4 residues, 2 models selected > select up 44 atoms, 44 bonds, 4 residues, 2 models selected > select #2/G:401 9 atoms, 8 bonds, 1 residue, 1 model selected > select up 184 atoms, 186 bonds, 22 residues, 2 models selected > select up 1384 atoms, 1408 bonds, 171 residues, 2 models selected > show sel surfaces > select clear > hide #!2 models > open 9cb1 Summary of feedback from opening 9cb1 fetched from pdb --- note | Fetching compressed mmCIF 9cb1 from http://files.rcsb.org/download/9cb1.cif 9cb1 title: Cryo-EM Structure of the Human Neutralizing Antibody 5-1 in Complex with Prefusion Human Metapneumovirus F Glycoprotein [more info...] Chain information for 9cb1 #5 --- Chain | Description | UniProt A B C | 5-1 Fab Heavy Chain Variable Domain | D E F | 5-1 Fab Light Chain Variable Domain | G H I | Fusion glycoprotein F0 | H6X1Z1_9MONO 1-490 Non-standard residues in 9cb1 #5 --- NAG — 2-acetamido-2-deoxy-beta-D-glucopyranose (N-acetyl-beta-D-glucosamine; 2-acetamido-2-deoxy-beta-D-glucose; 2-acetamido-2-deoxy-D-glucose; 2-acetamido-2-deoxy-glucose; N-ACETYL-D-GLUCOSAMINE) > open 7tl0 Summary of feedback from opening 7tl0 fetched from pdb --- note | Fetching compressed mmCIF 7tl0 from http://files.rcsb.org/download/7tl0.cif 7tl0 title: Cryo-EM structure of hMPV preF bound by Fabs MPE8 and SAN32-2 [more info...] Chain information for 7tl0 #6 --- Chain | Description | UniProt A B C | Fusion glycoprotein F0 | H6X1Z0_9MONO 1-490 D F H | SAN32-2 Fab heavy chain | E G I | SAN32-2 Fab light chain | J L N | MPE8 Fab heavy chain | K M O | MPE8 Fab light chain | Non-standard residues in 7tl0 #6 --- NAG — 2-acetamido-2-deoxy-beta-D-glucopyranose (N-acetyl-beta-D-glucosamine; 2-acetamido-2-deoxy-beta-D-glucose; 2-acetamido-2-deoxy-D-glucose; 2-acetamido-2-deoxy-glucose; N-ACETYL-D-GLUCOSAMINE) 9 atoms have alternate locations. Control/examine alternate locations with Altloc Explorer [start tool...] or the altlocs command. > ui tool show Matchmaker > matchmaker #!6 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 9cb1, chain I (#5) with 7tl0, chain B (#6), sequence alignment score = 2579.7 RMSD between 401 pruned atom pairs is 1.037 angstroms; (across all 429 pairs: 1.240) > matchmaker #!6 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 9cb1, chain I (#5) with 7tl0, chain B (#6), sequence alignment score = 2579.7 RMSD between 401 pruned atom pairs is 1.037 angstroms; (across all 429 pairs: 1.240) > hide #4#!5-6 atoms > show #4#!5-6 cartoons > hide #!5 models > select ::name=""BMA""::name=""MAN""::name=""NAG"" 1608 atoms, 1636 bonds, 105 residues, 4 models selected > show sel & #!6 atoms > show #!5 models > select clear > hide #4 models > select subtract #4 Nothing selected > hide #!5 models > show #!5 models > hide #!5 models > show #!5 models > hide #!6 models > show #!6 models ===== Log before crash end ===== Log: Startup Messages --- note | available bundle cache has not been initialized yet > graphics silhouettes true > lighting soft 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/jchuang/Downloads/cryosparc_P7_J79_005_volume_map_sharp.mrc Opened cryosparc_P7_J79_005_volume_map_sharp.mrc as #1, grid size 440,440,440, pixel 0.721, shown at level 0.0299, step 2, values float32 > open /Users/jchuang/Downloads/cryosparc_P7_J81_006_volume_map_sharp.mrc Opened cryosparc_P7_J81_006_volume_map_sharp.mrc as #2, grid size 440,440,440, pixel 0.721, shown at level 0.0286, step 2, values float32 OpenGL version: 4.1 Metal - 76.3 OpenGL renderer: Apple M2 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: Mac14,7 Chip: Apple M2 Total Number of Cores: 8 (4 performance and 4 efficiency) Memory: 16 GB System Firmware Version: 7459.141.1 OS Loader Version: 7459.141.1 Software: System Software Overview: System Version: macOS 12.5 (21G72) Kernel Version: Darwin 21.6.0 Time since boot: 15 days 22:09 Graphics/Displays: Apple M2: Chipset Model: Apple M2 Type: GPU Bus: Built-In Total Number of Cores: 10 Vendor: Apple (0x106b) Metal Family: Supported, Metal GPUFamily Apple 7 Displays: LG UltraFine: Resolution: 3840 x 2160 (2160p/4K UHD 1 - Ultra High Definition) UI Looks like: 1920 x 1080 @ 60.00Hz Main Display: Yes Mirror: Off Online: Yes Rotation: Supported Automatically Adjust Brightness: No Color LCD: Display Type: Built-In Retina LCD Resolution: 2560 x 1600 Retina Mirror: Off Online: Yes Automatically Adjust Brightness: No 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