![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 21 months ago
Closed 21 months ago
#14670 closed defect (can't reproduce)
Crash in timer callback
| Reported by: | Owned by: | Eric Pettersen | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Core | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-10.16-x86_64-i386-64bit
ChimeraX Version: 1.4 (2022-06-03 23:39:42 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault
Thread 0x000000031ab68000 (most recent call first):
File "/private/var/folders/rh/vkpyxl154wl72fc65qfgldnc0000gp/T/AppTranslocation/7FEA8119-AFF6-4120-BD2E-BF910DBC23BB/d/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 316 in wait
File "/private/var/folders/rh/vkpyxl154wl72fc65qfgldnc0000gp/T/AppTranslocation/7FEA8119-AFF6-4120-BD2E-BF910DBC23BB/d/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 574 in wait
File "/private/var/folders/rh/vkpyxl154wl72fc65qfgldnc0000gp/T/AppTranslocation/7FEA8119-AFF6-4120-BD2E-BF910DBC23BB/d/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 1297 in run
File "/private/var/folders/rh/vkpyxl154wl72fc65qfgldnc0000gp/T/AppTranslocation/7FEA8119-AFF6-4120-BD2E-BF910DBC23BB/d/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/private/var/folders/rh/vkpyxl154wl72fc65qfgldnc0000gp/T/AppTranslocation/7FEA8119-AFF6-4120-BD2E-BF910DBC23BB/d/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Current thread 0x0000000204b05240 (most recent call first):
File "/private/var/folders/rh/vkpyxl154wl72fc65qfgldnc0000gp/T/AppTranslocation/7FEA8119-AFF6-4120-BD2E-BF910DBC23BB/d/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/ui/widgets/color_button.py", line 147 in
File "/private/var/folders/rh/vkpyxl154wl72fc65qfgldnc0000gp/T/AppTranslocation/7FEA8119-AFF6-4120-BD2E-BF910DBC23BB/d/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/ui/gui.py", line 318 in event_loop
File "/private/var/folders/rh/vkpyxl154wl72fc65qfgldnc0000gp/T/AppTranslocation/7FEA8119-AFF6-4120-BD2E-BF910DBC23BB/d/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/ChimeraX_main.py", line 870 in init
File "/private/var/folders/rh/vkpyxl154wl72fc65qfgldnc0000gp/T/AppTranslocation/7FEA8119-AFF6-4120-BD2E-BF910DBC23BB/d/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/ChimeraX_main.py", line 1021 in
File "/private/var/folders/rh/vkpyxl154wl72fc65qfgldnc0000gp/T/AppTranslocation/7FEA8119-AFF6-4120-BD2E-BF910DBC23BB/d/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py", line 87 in _run_code
File "/private/var/folders/rh/vkpyxl154wl72fc65qfgldnc0000gp/T/AppTranslocation/7FEA8119-AFF6-4120-BD2E-BF910DBC23BB/d/ChimeraX-1.4.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py", line 197 in _run_module_as_main
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{
"uptime" : 34000,
"procRole" : "Foreground",
"version" : 2,
"userID" : 502,
"deployVersion" : 210,
"modelCode" : "MacBookPro18,3",
"coalitionID" : 2289,
"osVersion" : {
"train" : "macOS 14.1.1",
"build" : "23B81",
"releaseType" : "User"
},
"captureTime" : "2024-02-29 15:19:29.6526 -0800",
"codeSigningMonitor" : 1,
"incident" : "E4D319B0-5E99-47EF-92E0-2320697FF761",
"pid" : 49566,
"translated" : true,
"cpuType" : "X86-64",
"roots_installed" : 0,
"bug_type" : "309",
"procLaunch" : "2024-02-29 15:09:38.2355 -0800",
"procStartAbsTime" : 813851813971,
"procExitAbsTime" : 828045315432,
"procName" : "ChimeraX",
"procPath" : "\/Volumes\/VOLUME\/*\/ChimeraX-1.4.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.4.0","CFBundleVersion":"1.4.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
"storeInfo" : {"deviceIdentifierForVendor":"8141E164-9F12-59F5-826B-D4D916250B30","thirdParty":true},
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "8C228477-012E-679D-588B-F3CB85AF1965",
"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 6,
"codeSigningTrustLevel" : 4294967295,
"wakeTime" : 978,
"sleepWakeUUID" : "F2159078-9EA8-4A27-A855-8732CA15F0B9",
"sip" : "enabled",
"vmRegionInfo" : "0xa1 is not in any region. Bytes before following region: 140723260800863\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n mapped file 7ffcaff8c000-7ffcd5634000 [598.7M] r-x\/r-x SM=COW ...t_id=b0700d11",
"exception" : {"codes":"0x0000000000000001, 0x00000000000000a1","rawCodes":[1,161],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x00000000000000a1"},
"termination" : {"flags":0,"code":11,"namespace":"SIGNAL","indicator":"Segmentation fault: 11","byProc":"ChimeraX","byPid":49566},
"vmregioninfo" : "0xa1 is not in any region. Bytes before following region: 140723260800863\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n mapped file 7ffcaff8c000-7ffcd5634000 [598.7M] r-x\/r-x SM=COW ...t_id=b0700d11",
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"faultingThread" : 0,
"threads" : 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}
===== Log before crash start =====
UCSF ChimeraX version: 1.4 (2022-06-03)
© 2016-2022 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open
> /Users/albertoestevez/Documents/SLC_5475_Krios_240205_dataset_maps/8jzx.pdb
8jzx.pdb title:
SLC15A4 inhibitor complex [more info...]
Chain information for 8jzx.pdb #1
---
Chain | Description | UniProt
A B | lysosomal transporter,ALFA tag,lysosomal transporter | S15A4_HUMAN
Non-standard residues in 8jzx.pdb #1
---
CLR — cholesterol
NAG — 2-acetamido-2-deoxy-β-D-glucopyranose (N-acetyl-β-D-glucosamine;
2-acetamido-2-deoxy-β-D-glucose; 2-acetamido-2-deoxy-D-glucose;
2-acetamido-2-deoxy-glucose; N-acetyl-D-glucosamine)
Q09 —
2-(4-ethoxyphenyl)-N-[3-[(2R)-2-methylpiperidin-1-yl]propyl]quinoline-4-carboxamide
> open
> /Users/albertoestevez/Documents/SLC_5475_Krios_240205_dataset_maps/emd_36754.mrc
Opened emd_36754.mrc as #2, grid size 320,320,320, pixel 0.843, shown at level
0.157, step 2, values float32
> set bgColor white
> volume #2 step 1
> volume #2 level 0.3873
> ui mousemode right "rotate selected models"
> select add #2
2 models selected
> view matrix models
> #2,0.27917,-0.45783,0.84407,40.96,0.080021,0.88705,0.45468,-58.601,-0.9569,-0.059392,0.28428,235.37
> ui mousemode right "translate selected models"
> view matrix models
> #2,0.27917,-0.45783,0.84407,86.685,0.080021,0.88705,0.45468,-44.583,-0.9569,-0.059392,0.28428,245.33
> view matrix models
> #2,0.27917,-0.45783,0.84407,84.251,0.080021,0.88705,0.45468,-37.417,-0.9569,-0.059392,0.28428,246.81
> ui mousemode right "rotate selected models"
> view matrix models
> #2,0.31057,-0.59146,0.74413,111.93,0.089887,0.7976,0.59645,-46.362,-0.94629,-0.11835,0.30087,251.03
> view matrix models
> #2,0.30483,-0.56769,0.76472,106.64,0.08761,0.81625,0.57102,-45.04,-0.94837,-0.10707,0.29856,250.11
> ui mousemode right "translate selected models"
> view matrix models
> #2,0.30483,-0.56769,0.76472,105.62,0.08761,0.81625,0.57102,-43.796,-0.94837,-0.10707,0.29856,250.22
> surface dust #2 size 8.43
> select add #1
7108 atoms, 7296 bonds, 8 pseudobonds, 918 residues, 4 models selected
> fitmap #1 inMap #2
Fit molecule 8jzx.pdb (#1) to map emd_36754.mrc (#2) using 7108 atoms
average map value = 0.8295, steps = 76
shifted from previous position = 2.96
rotated from previous position = 4.23 degrees
atoms outside contour = 1234, contour level = 0.38729
Position of 8jzx.pdb (#1) relative to emd_36754.mrc (#2) coordinates:
Matrix rotation and translation
0.35590430 0.04381424 -0.93349475 201.92532086
-0.52556192 0.83534994 -0.16116805 120.48814659
0.77273333 0.54796970 0.32033173 -132.78289764
Axis 0.36677075 -0.88247250 -0.29448514
Axis point 222.24853050 0.00000000 60.27775468
Rotation angle (degrees) 75.17942156
Shift along axis 6.83541583
> open
> /Users/albertoestevez/Downloads/cryosparc_P25_J301_008_volume_map_sharp.mrc
Opened cryosparc_P25_J301_008_volume_map_sharp.mrc as #3, grid size
388,388,388, pixel 0.819, shown at level 0.0965, step 2, values float32
> select subtract #2
7108 atoms, 7296 bonds, 8 pseudobonds, 918 residues, 2 models selected
> select subtract #1
Nothing selected
> volume #3 step 1
> select add #3
2 models selected
> surface dust #3 size 8.19
> volume #3 level 0.3161
> ui mousemode right "rotate selected models"
> view matrix models
> #3,-0.62748,-0.6193,-0.47195,430.51,0.72629,-0.68401,-0.068059,162.76,-0.28067,-0.38548,0.87899,124.69
> ui mousemode right "translate selected models"
> view matrix models
> #3,-0.62748,-0.6193,-0.47195,434.37,0.72629,-0.68401,-0.068059,166.15,-0.28067,-0.38548,0.87899,126.12
> view matrix models
> #3,-0.62748,-0.6193,-0.47195,440.01,0.72629,-0.68401,-0.068059,160.33,-0.28067,-0.38548,0.87899,125.18
> ui mousemode right "rotate selected models"
> view matrix models
> #3,-0.46581,-0.77559,-0.426,432,0.85432,-0.51961,0.011869,101.41,-0.23056,-0.35841,0.90465,108.92
> view matrix models
> #3,-0.60408,-0.64648,-0.46599,439.68,0.74894,-0.66037,-0.054738,150.89,-0.27234,-0.38207,0.8831,122.67
> view matrix models
> #3,-0.61425,-0.63489,-0.46862,439.87,0.7393,-0.67066,-0.060441,154.95,-0.27591,-0.38357,0.88133,123.75
> view matrix models
> #3,-0.63501,-0.62998,-0.44708,439.03,0.74377,-0.65497,-0.1335,163.14,-0.20873,-0.4173,0.88447,117.95
> view matrix models
> #3,-0.59152,-0.67542,-0.44036,438.29,0.78258,-0.61242,-0.1119,146.84,-0.1941,-0.4108,0.89082,113.6
> view matrix models
> #3,-0.61675,-0.69335,-0.37268,434.6,0.76639,-0.63694,-0.083325,148.86,-0.1796,-0.33701,0.92421,94.37
> ui mousemode right "translate selected models"
> view matrix models
> #3,-0.61675,-0.69335,-0.37268,435.38,0.76639,-0.63694,-0.083325,146.19,-0.1796,-0.33701,0.92421,93.753
> view matrix models
> #3,-0.61675,-0.69335,-0.37268,435.43,0.76639,-0.63694,-0.083325,146.23,-0.1796,-0.33701,0.92421,93.977
> ui mousemode right "rotate selected models"
> view matrix models
> #3,-0.55147,-0.74542,-0.37447,433.61,0.81923,-0.5686,-0.074599,125.62,-0.15732,-0.34792,0.92423,92.167
> select add #2
4 models selected
> select add #1
7108 atoms, 7296 bonds, 8 pseudobonds, 918 residues, 6 models selected
Fit in map shortcut requires 1 displayed atomic model and 1 map or two maps,
got 1 atomic models, 2 maps.
> select subtract #1
4 models selected
> fitmap #2 inMap #3
Fit map emd_36754.mrc in map cryosparc_P25_J301_008_volume_map_sharp.mrc using
63607 points
correlation = 0.2577, correlation about mean = 0.03792, overlap = 5627
steps = 80, shift = 0.931, angle = 3.56 degrees
Position of emd_36754.mrc (#2) relative to
cryosparc_P25_J301_008_volume_map_sharp.mrc (#3) coordinates:
Matrix rotation and translation
-0.00557595 0.99991229 -0.01201374 25.23933211
0.07045180 -0.01159126 -0.99744784 284.37587216
-0.99749960 -0.00640811 -0.07038098 292.52952316
Axis 0.59044469 0.58713580 -0.55375683
Axis point 0.00000000 -10.09492083 283.63975613
Rotation angle (degrees) 122.94092929
Shift along axis 19.87946345
> hide #!1 models
> select subtract #2
2 models selected
> select subtract #3
Nothing selected
> volume #3 level 0.3543
> volume #2 level 0.5686
> select add #3
2 models selected
> view matrix models
> #3,0.5323,-0.62523,0.57075,94.69,-0.62545,-0.7448,-0.23257,407.8,0.5705,-0.23317,-0.7875,225.7
> view matrix models
> #3,0.53815,-0.67842,0.50014,113.24,-0.62447,-0.71947,-0.30399,414.78,0.56607,-0.14873,-0.81083,216.63
> view matrix models
> #3,0.53581,-0.71219,0.45353,126.26,-0.63441,-0.69403,-0.34036,418,0.55717,-0.10536,-0.82369,213.16
> ui mousemode right "translate selected models"
> view matrix models
> #3,0.53581,-0.71219,0.45353,129.03,-0.63441,-0.69403,-0.34036,413.45,0.55717,-0.10536,-0.82369,216.4
> ui mousemode right "rotate selected models"
> view matrix models
> #3,0.41116,-0.79865,0.43944,164.76,-0.75949,-0.56672,-0.31937,409.82,0.5041,-0.20244,-0.83958,242.74
> volume #3 level 0.2875
> select add #2
4 models selected
> fitmap #2 inMap #3
Fit map emd_36754.mrc in map cryosparc_P25_J301_008_volume_map_sharp.mrc using
42448 points
correlation = 0.6944, correlation about mean = 0.296, overlap = 1.618e+04
steps = 176, shift = 7.28, angle = 25.2 degrees
Position of emd_36754.mrc (#2) relative to
cryosparc_P25_J301_008_volume_map_sharp.mrc (#3) coordinates:
Matrix rotation and translation
0.03779645 -0.99114721 0.12727385 270.37240997
0.01902014 -0.12662824 -0.99176788 306.93746117
0.99910443 0.03990607 0.01406566 28.41913660
Axis 0.61166081 -0.51689257 0.59890994
Axis point 0.00000000 261.34261245 24.97971910
Rotation angle (degrees) 122.50566993
Shift along axis 23.74301788
> view
> volume #3 color #d4ffd8
> volume #3 color #dbffd8
> color #2 #b2d6b2 models transparency 0
> color #2 #b2d6ef models transparency 0
> color #2 #a4d6ef models transparency 0
> show #!1 models
> select add #1
7108 atoms, 7296 bonds, 8 pseudobonds, 918 residues, 6 models selected
> select subtract #3
7108 atoms, 7296 bonds, 8 pseudobonds, 918 residues, 4 models selected
> fitmap #1 inMap #2
Fit molecule 8jzx.pdb (#1) to map emd_36754.mrc (#2) using 7108 atoms
average map value = 0.1285, steps = 72
shifted from previous position = 1.05
rotated from previous position = 5.41 degrees
atoms outside contour = 6198, contour level = 0.56857
Position of 8jzx.pdb (#1) relative to emd_36754.mrc (#2) coordinates:
Matrix rotation and translation
0.42470301 -0.33677990 -0.84036102 230.16960974
-0.28056745 0.83357383 -0.47585352 131.77156832
0.86076086 0.43787438 0.25953184 -121.25774142
Axis 0.47299156 -0.88058632 0.02909839
Axis point 239.97988022 0.00000000 115.62792008
Rotation angle (degrees) 74.99494046
Shift along axis -10.69636399
> select subtract #2
7108 atoms, 7296 bonds, 8 pseudobonds, 918 residues, 2 models selected
> view matrix models
> #1,0.96681,0.23722,-0.094903,-17.034,-0.20896,0.94789,0.24052,4.5978,0.14701,-0.2127,0.96599,14.981
> view matrix models
> #1,0.98736,0.092152,-0.12891,6.9934,-0.059755,0.96998,0.23571,-23.627,0.14677,-0.22503,0.96323,17.345
> ui mousemode right "translate selected models"
> view matrix models
> #1,0.98736,0.092152,-0.12891,7.3786,-0.059755,0.96998,0.23571,-23.396,0.14677,-0.22503,0.96323,17.506
> volume #2 level 0.4012
> view matrix models
> #1,0.98736,0.092152,-0.12891,7.4768,-0.059755,0.96998,0.23571,-24.008,0.14677,-0.22503,0.96323,17.445
> ui mousemode right "rotate selected models"
> view matrix models
> #1,0.97302,0.19488,-0.1235,-6.6829,-0.10924,0.86063,0.49738,-39.245,0.20322,-0.47047,0.8587,61.658
> select add #2
7108 atoms, 7296 bonds, 8 pseudobonds, 918 residues, 4 models selected
> fitmap #1 inMap #2
Fit molecule 8jzx.pdb (#1) to map emd_36754.mrc (#2) using 7108 atoms
average map value = 0.2118, steps = 92
shifted from previous position = 4.29
rotated from previous position = 9.01 degrees
atoms outside contour = 5167, contour level = 0.40123
Position of 8jzx.pdb (#1) relative to emd_36754.mrc (#2) coordinates:
Matrix rotation and translation
0.35291668 0.04867556 -0.93438777 196.48981063
-0.50528220 0.85042055 -0.14654281 112.24610456
0.78748951 0.52384691 0.32472249 -132.46473529
Axis 0.34752703 -0.89261347 -0.28716922
Axis point 216.04511378 0.00000000 58.39038443
Rotation angle (degrees) 74.69068536
Shift along axis 6.13293025
> hide #!3 models
> select subtract #2
7108 atoms, 7296 bonds, 8 pseudobonds, 918 residues, 2 models selected
> view matrix models
> #1,0.97883,0.17618,-0.10415,-8.0318,-0.12282,0.91274,0.38965,-31.126,0.16371,-0.36861,0.91505,47.2
> ui mousemode right "translate selected models"
> view matrix models
> #1,0.97883,0.17618,-0.10415,-8.4053,-0.12282,0.91274,0.38965,-33.027,0.16371,-0.36861,0.91505,43.476
> ui mousemode right "rotate selected models"
> view matrix models
> #1,0.97087,0.17243,-0.16634,3.1631,-0.10459,0.92966,0.35326,-33.115,0.21555,-0.32557,0.92062,27.116
> view matrix models
> #1,0.93281,0.30582,-0.19061,-7.0459,-0.20671,0.88737,0.41212,-18.23,0.29517,-0.34503,0.89097,21.05
> select add #2
7108 atoms, 7296 bonds, 8 pseudobonds, 918 residues, 4 models selected
> fitmap #1 inMap #2
Fit molecule 8jzx.pdb (#1) to map emd_36754.mrc (#2) using 7108 atoms
average map value = 0.8295, steps = 96
shifted from previous position = 2.84
rotated from previous position = 7.84 degrees
atoms outside contour = 1306, contour level = 0.40123
Position of 8jzx.pdb (#1) relative to emd_36754.mrc (#2) coordinates:
Matrix rotation and translation
0.35586111 0.04379850 -0.93351195 201.94158329
-0.52557006 0.83534675 -0.16115810 120.48860211
0.77274768 0.54797583 0.32028661 -132.78238261
Axis 0.36676419 -0.88247778 -0.29447752
Axis point 222.25000249 0.00000000 60.28185783
Rotation angle (degrees) 75.18213331
Shift along axis 6.83785336
> show #!3 models
> select subtract #1
2 models selected
> select subtract #2
Nothing selected
> color #2 #a4d6efbb models
> color #3 #dbffd89b models
> hide #!3 models
> hide #!2 models
> show #!3 models
> volume #3 level 0.3543
> ui tool show "Side View"
> volume #3 level 0.6001
> show #!2 models
> hide #!3 models
> show #!3 models
> hide #!2 models
> volume #3 level 0.6001
> color #3 #dbffc19b models
> color #3 #c5ffc19b models
> color #3 #c5ffc1bd models
> show #!2 models
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.4 (2022-06-03)
© 2016-2022 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 Metal - 88
OpenGL renderer: Apple M1 Pro
OpenGL vendor: Apple
Python: 3.9.11
Locale: UTF-8
Qt version: PyQt6 6.3.0, Qt 6.3.0
Qt runtime version: 6.3.0
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: MacBookPro18,3
Model Number: MKGQ3LL/A
Chip: Unknown
Total Number of Cores: 10 (8 performance and 2 efficiency)
Memory: 16 GB
System Firmware Version: 10151.41.12
OS Loader Version: 10151.41.12
Software:
System Software Overview:
System Version: macOS 14.1.1 (23B81)
Kernel Version: Darwin 23.1.0
Time since boot: 1 day, 5 hours, 33 minutes
Graphics/Displays:
Apple M1 Pro:
Chipset Model: Apple M1 Pro
Type: GPU
Bus: Built-In
Total Number of Cores: 16
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
LG HDR 4K:
Resolution: 3840 x 2160 (2160p/4K UHD 1 - Ultra High Definition)
UI Looks like: 1920 x 1080 @ 60.00Hz
Mirror: Off
Online: Yes
Installed Packages:
alabaster: 0.7.12
appdirs: 1.4.4
appnope: 0.1.3
Babel: 2.10.1
backcall: 0.2.0
blockdiag: 3.0.0
certifi: 2021.10.8
cftime: 1.6.0
charset-normalizer: 2.0.12
ChimeraX-AddCharge: 1.2.3
ChimeraX-AddH: 2.1.11
ChimeraX-AlignmentAlgorithms: 2.0
ChimeraX-AlignmentHdrs: 3.2.1
ChimeraX-AlignmentMatrices: 2.0
ChimeraX-Alignments: 2.4.3
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.0.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.0
ChimeraX-Atomic: 1.39.1
ChimeraX-AtomicLibrary: 7.0
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.1
ChimeraX-BasicActions: 1.1
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.1.1
ChimeraX-BondRot: 2.0
ChimeraX-BugReporter: 1.0
ChimeraX-BuildStructure: 2.7
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.1
ChimeraX-ButtonPanel: 1.0
ChimeraX-CageBuilder: 1.0
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.2
ChimeraX-ChemGroup: 2.0
ChimeraX-Clashes: 2.2.4
ChimeraX-Clipper: 0.18.0
ChimeraX-ColorActions: 1.0
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.1
ChimeraX-CommandLine: 1.2.3
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0
ChimeraX-Core: 1.4
ChimeraX-CoreFormats: 1.1
ChimeraX-coulombic: 1.3.2
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0
ChimeraX-DataFormats: 1.2.2
ChimeraX-Dicom: 1.1
ChimeraX-DistMonitor: 1.1.5
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ExperimentalCommands: 1.0
ChimeraX-FileHistory: 1.0
ChimeraX-FunctionKey: 1.0
ChimeraX-Geometry: 1.2
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.1
ChimeraX-Hbonds: 2.1.2
ChimeraX-Help: 1.2
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ISOLDE: 1.4
ChimeraX-ItemsInspection: 1.0
ChimeraX-Label: 1.1.1
ChimeraX-ListInfo: 1.1.1
ChimeraX-Log: 1.1.5
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.8.1
ChimeraX-Map: 1.1
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0
ChimeraX-MapFilter: 2.0
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1
ChimeraX-Markers: 1.0
ChimeraX-Mask: 1.0
ChimeraX-MatchMaker: 2.0.6
ChimeraX-MDcrds: 2.6
ChimeraX-MedicalToolbar: 1.0.1
ChimeraX-Meeting: 1.0
ChimeraX-MLP: 1.1
ChimeraX-mmCIF: 2.7
ChimeraX-MMTF: 2.1
ChimeraX-Modeller: 1.5.5
ChimeraX-ModelPanel: 1.3.2
ChimeraX-ModelSeries: 1.0
ChimeraX-Mol2: 2.0
ChimeraX-Morph: 1.0
ChimeraX-MouseModes: 1.1
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-NIHPresets: 1.1.17
ChimeraX-Nucleotides: 2.0.2
ChimeraX-OpenCommand: 1.9
ChimeraX-PDB: 2.6.6
ChimeraX-PDBBio: 1.0
ChimeraX-PDBImages: 1.2
ChimeraX-PDBLibrary: 1.0.2
ChimeraX-PDBMatrices: 1.0
ChimeraX-Phenix: 0.3
ChimeraX-PickBlobs: 1.0
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-ResidueFit: 1.0
ChimeraX-RestServer: 1.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 2.0.1
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
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.6
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0
ChimeraX-Shortcuts: 1.1
ChimeraX-ShowAttr: 1.0
ChimeraX-ShowSequences: 1.0
ChimeraX-SideView: 1.0
ChimeraX-Smiles: 2.1
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StarMap: 1.2.15
ChimeraX-StdCommands: 1.8
ChimeraX-STL: 1.0
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.0.1
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0
ChimeraX-SwapAA: 2.0
ChimeraX-SwapRes: 2.1.1
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1.1
ChimeraX-ToolshedUtils: 1.2.1
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.18.3
ChimeraX-uniprot: 2.2
ChimeraX-UnitCell: 1.0
ChimeraX-ViewDockX: 1.1.2
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0
ChimeraX-WebServices: 1.1.0
ChimeraX-XMAS: 1.1.2
ChimeraX-Zone: 1.0
colorama: 0.4.4
cxservices: 1.2
cycler: 0.11.0
Cython: 0.29.26
debugpy: 1.6.0
decorator: 5.1.1
docutils: 0.17.1
entrypoints: 0.4
et-xmlfile: 1.1.0
filelock: 3.4.2
fonttools: 4.33.3
funcparserlib: 1.0.0
grako: 3.16.5
h5py: 3.7.0
html2text: 2020.1.16
idna: 3.3
ihm: 0.27
imagecodecs: 2021.11.20
imagesize: 1.3.0
ipykernel: 6.6.1
ipython: 7.31.1
ipython-genutils: 0.2.0
jedi: 0.18.1
Jinja2: 3.0.3
jupyter-client: 7.1.0
jupyter-core: 4.10.0
kiwisolver: 1.4.2
line-profiler: 3.4.0
lxml: 4.7.1
lz4: 3.1.10
MarkupSafe: 2.1.1
matplotlib: 3.5.1
matplotlib-inline: 0.1.3
msgpack: 1.0.3
nest-asyncio: 1.5.5
netCDF4: 1.5.8
networkx: 2.6.3
numexpr: 2.8.1
numpy: 1.22.1
openpyxl: 3.0.10
openvr: 1.16.802
packaging: 21.0
pandas: 1.5.2
ParmEd: 3.4.3
parso: 0.8.3
pexpect: 4.8.0
pickleshare: 0.7.5
Pillow: 9.0.1
pip: 21.3.1
pkginfo: 1.8.2
prompt-toolkit: 3.0.29
psutil: 5.9.0
ptyprocess: 0.7.0
pycollada: 0.7.2
pydicom: 2.2.2
Pygments: 2.11.2
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 3.0.9
PyQt6-commercial: 6.3.0
PyQt6-Qt6: 6.3.0
PyQt6-sip: 13.3.1
PyQt6-WebEngine-commercial: 6.3.0
PyQt6-WebEngine-Qt6: 6.3.0
pyqtgraph: 0.13.1
python-dateutil: 2.8.2
pytz: 2022.1
pyzmq: 23.1.0
qtconsole: 5.3.0
QtPy: 2.1.0
QtRangeSlider: 0.1.5
RandomWords: 0.3.0
requests: 2.27.1
scipy: 1.7.3
seaborn: 0.12.1
Send2Trash: 1.8.2
SEQCROW: 1.8.7
setuptools: 59.8.0
sfftk-rw: 0.7.2
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
Sphinx: 4.3.2
sphinx-autodoc-typehints: 1.15.2
sphinxcontrib-applehelp: 1.0.2
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 2.0.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.5
suds-community: 1.0.0
tables: 3.7.0
tifffile: 2021.11.2
tinyarray: 1.2.4
tornado: 6.1
traitlets: 5.1.1
urllib3: 1.26.9
wcwidth: 0.2.5
webcolors: 1.11.1
wheel: 0.37.1
wheel-filename: 1.3.0
Change History (2)
comment:1 by , 21 months ago
| Component: | Unassigned → Core |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → accepted |
| Summary: | ChimeraX bug report submission → Crash in timer callback |
comment:2 by , 21 months ago
| Resolution: | → can't reproduce |
|---|---|
| Status: | accepted → closed |
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