id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 15888 Crash on Mac waking from sleep chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: macOS-14.6.1-arm64-arm-64bit ChimeraX Version: 1.8 (2024-06-10 23:15:52 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. 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""deploymentId"" : 240000019 }, { ""rolloutId"" : ""632c763c58740028737bfdd2"", ""factorPackIds"" : { ""SIRI_DIALOG_ASSETS"" : ""64a57d23fa6fd41b2353e2ae"" }, ""deploymentId"" : 240000034 } ], ""experiments"" : [ { ""treatmentId"" : ""c47ab4cc-c9c3-4b5d-a87c-e2433ce02597"", ""experimentId"" : ""6639bc6ba73d460582162323"", ""deploymentId"" : 400000006 }, { ""treatmentId"" : ""45f4e2a5-551b-4bc2-a2dc-19c244dda8f8"", ""experimentId"" : ""6643969b3099cf28e049862f"", ""deploymentId"" : 400000007 } ] } } ===== Log before crash start ===== UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open /Users/dudleyja/Downloads/cryosparc_P15_J135_008_volume_map.mrc Opened cryosparc_P15_J135_008_volume_map.mrc as #1, grid size 768,768,768, pixel 0.832, shown at step 1, values float32 > select add #1 2 models selected > select subtract #1 Nothing selected > volume #1 region 0,0,0,767,767,767 step 4 > open /Users/dudleyja/Downloads/cryosparc_P15_J135_008_volume_map_sharp.mrc Opened cryosparc_P15_J135_008_volume_map_sharp.mrc as #2, grid size 768,768,768, pixel 0.832, shown at step 1, values float32 > volume #2 region 0,0,0,767,767,767 step 4 > select add #2 3 models selected > select add #1 6 models selected > select subtract #2 3 models selected > hide #!1 target m > volume #2 change image level -0.02219,0 level 0.04779,0.8 level 0.5148,1 > volume #2 level 0.05616 > set bgColor white > set bgColor black > volume #2 level 0.04665 > open /Users/dudleyja/Downloads/cryosparc_P3_J225_class_00_final_volume.mrc Opened cryosparc_P3_J225_class_00_final_volume.mrc as #3, grid size 256,256,256, pixel 2.34, shown at level 0.146, step 1, values float32 > hide #!2 models > volume #3 level 0.08971 > close #2 > close #1 > volume #3 level 0.0812 > open /Users/dudleyja/Downloads/cryosparc_P3_J253_004_volume_map.mrc Opened cryosparc_P3_J253_004_volume_map.mrc as #1, grid size 384,384,384, pixel 1.56, shown at level 0.0778, step 2, values float32 > close #3 > volume #1 level 0.1156 Drag select of 1 cryosparc_P3_J253_004_volume_map.mrc > open /Users/dudleyja/Downloads/cryosparc_P3_J253_004_volume_map_sharp.mrc Opened cryosparc_P3_J253_004_volume_map_sharp.mrc as #2, grid size 384,384,384, pixel 1.56, shown at level 0.188, step 2, values float32 > hide #!1 models > volume #2 level 0.2278 > open /Users/dudleyja/Downloads/cryosparc_P3_J253_004_volume_mask_refine.mrc Opened cryosparc_P3_J253_004_volume_mask_refine.mrc as #3, grid size 384,384,384, pixel 1.56, shown at level 1, step 2, values float32 > volume #3 level 1 > hide #!3 models > select subtract #1 Nothing selected > show #!1 models > hide #!2 models > volume #2 level 0.2999 > volume #1 level 0.1269 > close #1 > close #2 > close #3 > open /Users/dudleyja/Downloads/model_structure.pdb format pdb No such file/path: /Users/dudleyja/Downloads/model_structure.pdb > open /Users/dudleyja/Downloads/emd_9216.map Opened emd_9216.map as #1, grid size 600,600,600, pixel 0.685, shown at level 0.00537, step 4, values float32 > volume #1 level 0.005373 > open /Users/dudleyja/Downloads/cryosparc_P3_J253_004_volume_map.mrc Opened cryosparc_P3_J253_004_volume_map.mrc as #2, grid size 384,384,384, pixel 1.56, shown at level 0.0778, step 2, values float32 > select add #2 2 models selected Drag select of 2 cryosparc_P3_J253_004_volume_map.mrc > ui mousemode right rotate > ui mousemode right ""rotate selected models"" > ui mousemode right translate > ui mousemode right select > select add #1 4 models selected > select subtract #1 2 models selected > select subtract #2 Nothing selected > select add #2 2 models selected > hide #!1 models > hide #!2 models > show #!2 models > show #!1 models Drag select of 2 cryosparc_P3_J253_004_volume_map.mrc > select #2 2 models selected > select #2 2 models selected > volume #2 level 0.1421 > select add #2.1 2 models selected Drag select of 2 cryosparc_P3_J253_004_volume_map.mrc > ui mousemode right rotate > ui mousemode right ""move picked models"" > ui mousemode right ""rotate selected models"" > ui tool show ""Fit in Map"" > select add #1.1 3 models selected > select add #1 4 models selected > ui tool show ""Fit in Map"" > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02839, overlap = 8.39 steps = 372, shift = 72.9, angle = 18.2 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.94999813 -0.30886874 -0.04586568 94.86339556 0.30784260 0.95102100 -0.02814224 21.86182602 0.05231148 0.01261566 0.99855113 -7.76271711 Axis 0.06512868 -0.15688120 0.98546768 Axis point -18.99879558 311.24090480 0.00000000 Rotation angle (degrees) 18.23425855 Shift along axis -4.90128853 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02841, overlap = 8.39 steps = 48, shift = 0.0212, angle = 0.00824 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.95002351 -0.30879252 -0.04585315 94.82782728 0.30777285 0.95104718 -0.02802013 21.86307939 0.05226092 0.01250743 0.99855514 -7.72509047 Axis 0.06477806 -0.15682267 0.98550010 Axis point -19.04197880 311.20191165 0.00000000 Rotation angle (degrees) 18.22917009 Shift along axis -4.89894087 > select subtract #1.1 3 models selected > select subtract #2.1 2 models selected > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02834, overlap = 8.39 steps = 48, shift = 0.0109, angle = 0.0108 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.95002360 -0.30880426 -0.04577217 94.81710725 0.30777674 0.95104090 -0.02819015 21.90110791 0.05223644 0.01269370 0.99855407 -7.74834537 Axis 0.06534525 -0.15664858 0.98549034 Axis point -19.17939689 311.18064917 0.00000000 Rotation angle (degrees) 18.22983526 Shift along axis -4.87084966 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02839, overlap = 8.39 steps = 48, shift = 0.0115, angle = 0.0122 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.94997344 -0.30895493 -0.04579640 94.86561919 0.30793412 0.95099384 -0.02805888 21.84005069 0.05222103 0.01255291 0.99855665 -7.72164589 Axis 0.06488062 -0.15659079 0.98553023 Axis point -18.92874915 311.14198102 0.00000000 Rotation angle (degrees) 18.23849932 Shift along axis -4.87492575 Correlation = 0.2634, Correlation about mean = -0.04041, Overlap = 8.08 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02837, overlap = 8.389 steps = 48, shift = 0.0151, angle = 0.019 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.95001450 -0.30882171 -0.04584324 94.83063200 0.30778500 0.95103352 -0.02834839 21.92933971 0.05235306 0.01282152 0.99854633 -7.81473725 Axis 0.06579474 -0.15693012 0.98541564 Axis point -19.23451998 311.23024477 0.00000000 Rotation angle (degrees) 18.23205286 Shift along axis -4.90278102 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02839, overlap = 8.39 steps = 76, shift = 0.00831, angle = 0.0135 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.95000935 -0.30883842 -0.04583739 94.83702599 0.30781402 0.95103105 -0.02811530 21.87267429 0.05227587 0.01260040 0.99855319 -7.74655049 Axis 0.06506861 -0.15679684 0.98548507 Axis point -19.05935937 311.19243964 0.00000000 Rotation angle (degrees) 18.23212260 Shift along axis -4.89276300 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02839, overlap = 8.39 steps = 76, shift = 0.00831, angle = 0.0135 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.95000935 -0.30883842 -0.04583739 94.83702599 0.30781402 0.95103105 -0.02811530 21.87267429 0.05227587 0.01260040 0.99855319 -7.74655049 Axis 0.06506861 -0.15679684 0.98548507 Axis point -19.05935937 311.19243964 0.00000000 Rotation angle (degrees) 18.23212260 Shift along axis -4.89276300 > ui mousemode right rotate > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02836, overlap = 8.391 steps = 72, shift = 0.0148, angle = 0.00399 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.95000059 -0.30887404 -0.04577898 94.84510346 0.30784980 0.95101912 -0.02812709 21.86075606 0.05222442 0.01262770 0.99855553 -7.73749264 Axis 0.06512529 -0.15660733 0.98551146 Axis point -19.02283263 311.17387696 0.00000000 Rotation angle (degrees) 18.23380256 Shift along axis -4.87212710 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02836, overlap = 8.39 steps = 60, shift = 0.0087, angle = 0.00326 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.94999955 -0.30887557 -0.04579004 94.83933704 0.30784828 0.95101796 -0.02818278 21.87241183 0.05225213 0.01267724 0.99855346 -7.75464899 Axis 0.06529209 -0.15666605 0.98549109 Axis point -19.05817180 311.16301428 0.00000000 Rotation angle (degrees) 18.23419300 Shift along axis -4.87654278 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02835, overlap = 8.39 steps = 44, shift = 0.0191, angle = 0.00739 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.95002769 -0.30879274 -0.04576492 94.80412546 0.30776110 0.95104359 -0.02827012 21.92125929 0.05225404 0.01277273 0.99855214 -7.77096886 Axis 0.06560092 -0.15666881 0.98547014 Axis point -19.24940513 311.16583370 0.00000000 Rotation angle (degrees) 18.22939077 Shift along axis -4.87319737 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02841, overlap = 8.39 steps = 72, shift = 0.0289, angle = 0.0103 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.95000483 -0.30884300 -0.04590010 94.85721461 0.30781509 0.95102917 -0.02816721 21.87161399 0.05235158 0.01263024 0.99854884 -7.78003341 Axis 0.06519585 -0.15700986 0.98544275 Axis point -19.02839805 311.25549141 0.00000000 Rotation angle (degrees) 18.23310650 Shift along axis -4.91653975 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02843, overlap = 8.389 steps = 60, shift = 0.00586, angle = 0.00182 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.95001215 -0.30882258 -0.04588614 94.84576536 0.30779391 0.95103551 -0.02818459 21.88224827 0.05234339 0.01265223 0.99854899 -7.78634975 Axis 0.06526315 -0.15698498 0.98544225 Axis point -19.07155098 311.24697178 0.00000000 Rotation angle (degrees) 18.23184232 Shift along axis -4.91824864 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02836, overlap = 8.39 steps = 100, shift = 0.028, angle = 0.00707 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.95002011 -0.30881612 -0.04576466 94.80419578 0.30779000 0.95103735 -0.02816524 21.88538424 0.05222178 0.01267164 0.99855511 -7.74196988 Axis 0.06526829 -0.15660859 0.98550180 Axis point -19.13512897 311.11844152 0.00000000 Rotation angle (degrees) 18.23038451 Shift along axis -4.86945674 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.0284, overlap = 8.389 steps = 40, shift = 0.0167, angle = 0.00657 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.95002824 -0.30877699 -0.04585965 94.82093647 0.30774710 0.95104980 -0.02821350 21.90756713 0.05232649 0.01269045 0.99854939 -7.78121266 Axis 0.06538019 -0.15693909 0.98544181 Axis point -19.18073547 311.22859906 0.00000000 Rotation angle (degrees) 18.22902298 Shift along axis -4.90667493 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.0284, overlap = 8.389 steps = 48, shift = 0.017, angle = 0.00657 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.95006222 -0.30866967 -0.04587821 94.80156017 0.30764031 0.95108485 -0.02819660 21.93535889 0.05233750 0.01267454 0.99854902 -7.78133552 Axis 0.06534953 -0.15703868 0.98542797 Axis point -19.29598644 311.29236053 0.00000000 Rotation angle (degrees) 18.22273431 Shift along axis -4.91740852 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02836, overlap = 8.39 steps = 44, shift = 0.0214, angle = 0.00901 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.95001461 -0.30881857 -0.04586207 94.83486520 0.30778931 0.95103649 -0.02820172 21.89607635 0.05232571 0.01267619 0.99854962 -7.76951307 Axis 0.06533009 -0.15692136 0.98544795 Axis point -19.13363525 311.22214806 0.00000000 Rotation angle (degrees) 18.23146970 Shift along axis -4.89684297 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02835, overlap = 8.391 steps = 48, shift = 0.0239, angle = 0.0113 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.94997278 -0.30896232 -0.04576018 94.85965389 0.30793822 0.95099039 -0.02813072 21.83702936 0.05220882 0.01263211 0.99855629 -7.73067706 Axis 0.06512052 -0.15651002 0.98552723 Axis point -18.92865063 311.11572003 0.00000000 Rotation angle (degrees) 18.23890863 Shift along axis -4.85919634 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02839, overlap = 8.39 steps = 104, shift = 0.0196, angle = 0.00884 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.94999785 -0.30886798 -0.04587651 94.86485371 0.30784112 0.95102115 -0.02815333 21.86593868 0.05232519 0.01262293 0.99855032 -7.76828989 Axis 0.06515771 -0.15691970 0.98545963 Axis point -19.00838052 311.24928091 0.00000000 Rotation angle (degrees) 18.23434408 Shift along axis -4.90535571 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.0284, overlap = 8.39 steps = 76, shift = 0.00803, angle = 0.0037 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.95001110 -0.30882378 -0.04589970 94.85131432 0.30779466 0.95103511 -0.02818993 21.88420534 0.05235795 0.01265307 0.99854822 -7.78448965 Axis 0.06527231 -0.15702822 0.98543476 Axis point -19.07499452 311.26410268 0.00000000 Rotation angle (degrees) 18.23204561 Shift along axis -4.91637988 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02835, overlap = 8.392 steps = 84, shift = 0.0311, angle = 0.0164 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.94996576 -0.30898267 -0.04576856 94.87046851 0.30796505 0.95098540 -0.02800518 21.79889066 0.05217835 0.01250885 0.99855944 -7.69578142 Axis 0.06472027 -0.15646802 0.98556027 Axis point -18.80269305 311.10318639 0.00000000 Rotation angle (degrees) 18.23971944 Shift along axis -4.85544335 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02839, overlap = 8.39 steps = 48, shift = 0.0233, angle = 0.0124 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.95000031 -0.30887502 -0.04577799 94.83780914 0.30784779 0.95101807 -0.02818436 21.86935951 0.05224114 0.01268250 0.99855396 -7.76109669 Axis 0.06530344 -0.15663028 0.98549602 Axis point -19.04765802 311.15793342 0.00000000 Rotation angle (degrees) 18.23406682 Shift along axis -4.88069828 Correlation = 0.2635, Correlation about mean = -0.04038, Overlap = 8.081 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02836, overlap = 8.39 steps = 48, shift = 0.0241, angle = 0.00515 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.95002710 -0.30879734 -0.04574615 94.79514114 0.30776970 0.95104293 -0.02819863 21.89856840 0.05221422 0.01271018 0.99855502 -7.74859728 Axis 0.06538720 -0.15657641 0.98549903 Axis point -19.18699570 311.11727112 0.00000000 Rotation angle (degrees) 18.22924170 Shift along axis -4.86664588 Correlation = 0.2634, Correlation about mean = -0.0404, Overlap = 8.08 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02839, overlap = 8.39 steps = 84, shift = 0.028, angle = 0.00917 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.94999754 -0.30886827 -0.04588109 94.86519419 0.30784082 0.95102095 -0.02816355 21.86972134 0.05233271 0.01263123 0.99854982 -7.77110480 Axis 0.06518698 -0.15693827 0.98545474 Axis point -19.01919066 311.25252170 0.00000000 Rotation angle (degrees) 18.23443748 Shift along axis -4.90629247 Correlation = 0.2634, Correlation about mean = -0.04038, Overlap = 8.081 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02836, overlap = 8.39 steps = 100, shift = 0.0235, angle = 0.00765 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.95002916 -0.30878563 -0.04578244 94.80728517 0.30775869 0.95104716 -0.02817602 21.89806351 0.05224161 0.01267810 0.99855399 -7.74881803 Axis 0.06530146 -0.15668219 0.98548791 Axis point -19.17577251 311.16716385 0.00000000 Rotation angle (degrees) 18.22875907 Shift along axis -4.87634899 Correlation = 0.2634, Correlation about mean = -0.0404, Overlap = 8.08 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02836, overlap = 8.393 steps = 64, shift = 0.0452, angle = 0.0236 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.94992851 -0.30910052 -0.04574585 94.89533611 0.30808628 0.95094781 -0.02794848 21.75808946 0.05214081 0.01245539 0.99856207 -7.67420373 Axis 0.06452172 -0.15631705 0.98559724 Axis point -18.64481143 311.03578771 0.00000000 Rotation angle (degrees) 18.24632828 Shift along axis -4.84202440 > select subtract #2 1 model selected Drag select of 1 emd_9216.map > ui tool show ""Fit in Map"" > volume #2 step 1 > volume #2 step 4 > volume #2 level 0.08807 > volume #2 step 1 > volume #2 level 0.3006 > volume #2 step 2 > volume #2 level 0.1153 > volume #2 level 0.1493 > close #1 > close #2 > open /Users/dudleyja/Downloads/emd_9216.map Opened emd_9216.map as #1, grid size 600,600,600, pixel 0.685, shown at level 0.00537, step 4, values float32 > open /Users/dudleyja/Downloads/cryosparc_P3_J253_004_volume_map.mrc Opened cryosparc_P3_J253_004_volume_map.mrc as #2, grid size 384,384,384, pixel 1.56, shown at level 0.0778, step 2, values float32 > volume #2 level 0.1269 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02839, overlap = 8.39 steps = 372, shift = 72.9, angle = 18.2 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.94999813 -0.30886874 -0.04586568 94.86339556 0.30784260 0.95102100 -0.02814224 21.86182602 0.05231148 0.01261566 0.99855113 -7.76271711 Axis 0.06512868 -0.15688120 0.98546768 Axis point -18.99879558 311.24090480 0.00000000 Rotation angle (degrees) 18.23425855 Shift along axis -4.90128853 > toolshed show > selectz Unknown command: selectz > select 4 models selected > select emd_9216 Expected an objects specifier or a keyword > select add #2 4 models selected > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02841, overlap = 8.39 steps = 48, shift = 0.0212, angle = 0.00824 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.95002351 -0.30879252 -0.04585315 94.82782728 0.30777285 0.95104718 -0.02802013 21.86307939 0.05226092 0.01250743 0.99855514 -7.72509047 Axis 0.06477806 -0.15682267 0.98550010 Axis point -19.04197880 311.20191165 0.00000000 Rotation angle (degrees) 18.22917009 Shift along axis -4.89894087 Drag select of 2 cryosparc_P3_J253_004_volume_map.mrc > ui windowfill toggle > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02834, overlap = 8.39 steps = 48, shift = 0.0109, angle = 0.0108 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.95002360 -0.30880426 -0.04577217 94.81710725 0.30777674 0.95104090 -0.02819015 21.90110791 0.05223644 0.01269370 0.99855407 -7.74834537 Axis 0.06534525 -0.15664858 0.98549034 Axis point -19.17939689 311.18064917 0.00000000 Rotation angle (degrees) 18.22983526 Shift along axis -4.87084966 > select #1 2 models selected > activate #1 Unknown command: activate #1 > select #2 2 models selected > invert sel Unknown command: invert sel > select add #1 4 models selected > select subtract #1 2 models selected > select subtract #2 Nothing selected > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02839, overlap = 8.39 steps = 48, shift = 0.0115, angle = 0.0122 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.94997344 -0.30895493 -0.04579640 94.86561919 0.30793412 0.95099384 -0.02805888 21.84005069 0.05222103 0.01255291 0.99855665 -7.72164589 Axis 0.06488062 -0.15659079 0.98553023 Axis point -18.92874915 311.14198102 0.00000000 Rotation angle (degrees) 18.23849932 Shift along axis -4.87492575 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02837, overlap = 8.389 steps = 48, shift = 0.0151, angle = 0.019 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.95001450 -0.30882171 -0.04584324 94.83063200 0.30778500 0.95103352 -0.02834839 21.92933971 0.05235306 0.01282152 0.99854633 -7.81473725 Axis 0.06579474 -0.15693012 0.98541564 Axis point -19.23451998 311.23024477 0.00000000 Rotation angle (degrees) 18.23205286 Shift along axis -4.90278102 > select add #2 2 models selected > ui mousemode right translate > ui mousemode right zoom > ui mousemode right ""translate selected models"" > ui mousemode right translate > ui mousemode right select > ui mousemode right zoom > ui mousemode right translate > ui mousemode right rotate > ui mousemode right ""translate selected models"" > ui mousemode right ""rotate selected models"" > set bgColor gray > set bgColor #80808000 > set bgColor white > set bgColor #ffffff00 > set bgColor black > set bgColor transparent > lighting simple > lighting soft > lighting full > lighting flat > lighting shadows true intensity 0.5 > graphics silhouettes false > lighting simple > select subtract #2 Nothing selected > view > view orient > ui tool show ""Side View"" > ui mousemode right rotate > ui mousemode right translate > ui mousemode right zoom > ui mousemode right ""translate selected models"" > ui mousemode right ""rotate selected models"" > ui mousemode right ""move picked models"" > ui mousemode right ""translate selected atoms"" > ui mousemode right pivot > ui mousemode right distance > ui mousemode right translate > ui mousemode right zoom > ui mousemode right distance > ui mousemode right translate > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02839, overlap = 8.39 steps = 76, shift = 0.00831, angle = 0.0135 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.95000935 -0.30883842 -0.04583739 94.83702599 0.30781402 0.95103105 -0.02811530 21.87267429 0.05227587 0.01260040 0.99855319 -7.74655049 Axis 0.06506861 -0.15679684 0.98548507 Axis point -19.05935937 311.19243964 0.00000000 Rotation angle (degrees) 18.23212260 Shift along axis -4.89276300 > deactivate #2 Unknown command: deactivate #2 > deactivate #1 Unknown command: deactivate #1 > deactivate Unknown command: deactivate > deactivate #2 Unknown command: deactivate #2 > select add #2 2 models selected > activate only Unknown command: activate only > select add #1 4 models selected > select subtract #1 2 models selected > select subtract #2 Nothing selected > select add #2 2 models selected > select subtract #2 Nothing selected > select add #2 2 models selected > select subtract #2 Nothing selected > select add #1 2 models selected > select subtract #1 Nothing selected > select add #1 2 models selected > select subtract #1 Nothing selected > select add #2 2 models selected > select subtract #2 Nothing selected > select add #1 2 models selected > split #1 #2 > select add #2 4 models selected > select subtract #2 2 models selected > select subtract #1 Nothing selected > select add #2 2 models selected > select subtract #2 Nothing selected > select add #1 2 models selected > select subtract #1 Nothing selected > select add #2 2 models selected > select add #1 4 models selected > select subtract #1 2 models selected > select subtract #2 Nothing selected > unsplit #1 #2 Unknown command: unsplit #1 #2 > close #1 > close #2 > open /Users/dudleyja/Downloads/emd_9216.map Opened emd_9216.map as #1, grid size 600,600,600, pixel 0.685, shown at level 0.00537, step 4, values float32 > open /Users/dudleyja/Downloads/cryosparc_P3_J253_004_volume_map.mrc Opened cryosparc_P3_J253_004_volume_map.mrc as #2, grid size 384,384,384, pixel 1.56, shown at level 0.0778, step 2, values float32 > volume #2 level 0.1103 > select add #2 2 models selected Drag select of 2 cryosparc_P3_J253_004_volume_map.mrc > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.2334, correlation about mean = -0.02839, overlap = 8.39 steps = 372, shift = 72.9, angle = 18.2 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.94999813 -0.30886874 -0.04586568 94.86339556 0.30784260 0.95102100 -0.02814224 21.86182602 0.05231148 0.01261566 0.99855113 -7.76271711 Axis 0.06512868 -0.15688120 0.98546768 Axis point -18.99879558 311.24090480 0.00000000 Rotation angle (degrees) 18.23425855 Shift along axis -4.90128853 > undo > hide #1.1 models > show #1.1 models > hide #!1 models > show #!1 models > hide #!2 models > show #!2 models > hide #2.1 models > show #2.1 models Drag select of 2 cryosparc_P3_J253_004_volume_map.mrc > select subtract #2 Nothing selected > select subtract #2.1 Nothing selected > select add #1 2 models selected > ui mousemode right ""rotate selected models"" > view matrix models > #1,-0.060742,-0.90317,-0.42496,474.03,0.29903,-0.42266,0.85553,113.83,-0.95231,-0.07511,0.29575,336.53 > ui mousemode right ""translate selected models"" > view matrix models > #1,-0.060742,-0.90317,-0.42496,584.06,0.29903,-0.42266,0.85553,103.55,-0.95231,-0.07511,0.29575,439.81 > view matrix models > #1,-0.060742,-0.90317,-0.42496,594.86,0.29903,-0.42266,0.85553,157.6,-0.95231,-0.07511,0.29575,436.26 > ui mousemode right ""rotate selected models"" > view matrix models > #1,0.26734,0.25447,-0.92939,409.7,-0.38803,-0.85441,-0.34556,604.16,-0.88202,0.45302,-0.12968,404.87 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.4741, correlation about mean = 0.1148, overlap = 22.86 steps = 208, shift = 39.8, angle = 8.99 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation 0.18902660 0.14197864 -0.97165375 430.92590045 -0.36350032 -0.90908427 -0.20355171 609.31406651 -0.91221514 0.39167314 -0.12023182 417.45303130 Axis 0.76003280 -0.07589618 -0.64543777 Axis point -0.00000000 269.14288635 473.56867599 Rotation angle (degrees) 156.94725249 Shift along axis 11.83325621 > view matrix models > #1,-0.021314,-0.65719,-0.75343,580.96,0.069305,0.75081,-0.65687,298.47,0.99737,-0.066216,0.029543,112.98 > fitmap #1 inMap #2 Fit map emd_9216.map in map cryosparc_P3_J253_004_volume_map.mrc using 33743 points correlation = 0.8483, correlation about mean = 0.4534, overlap = 75.42 steps = 272, shift = 39.4, angle = 25.6 degrees Position of emd_9216.map (#1) relative to cryosparc_P3_J253_004_volume_map.mrc (#2) coordinates: Matrix rotation and translation -0.16161724 -0.89491524 -0.41594060 606.54494749 -0.04533003 0.42776881 -0.90275081 405.19784616 0.98581188 -0.12704549 -0.10970135 163.52245989 Axis 0.42776267 -0.77299635 0.46850373 Axis point 352.35019193 0.00000000 450.72248472 Rotation angle (degrees) 114.94669460 Shift along axis 22.85171176 > volume #2 level 0.1014 ===== Log before crash end ===== Log: UCSF ChimeraX version: 1.8 (2024-06-10) © 2016-2024 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX OpenGL version: 4.1 Metal - 88.1 OpenGL renderer: Apple M2 Pro OpenGL vendor: Apple Python: 3.11.4 Locale: UTF-8 Qt version: PyQt6 6.6.1, Qt 6.6.1 Qt runtime version: 6.6.3 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Pro Model Identifier: Mac14,9 Model Number: Z17G002HSLL/A Chip: Apple M2 Pro Total Number of Cores: 10 (6 performance and 4 efficiency) Memory: 16 GB System Firmware Version: 10151.140.19 OS Loader Version: 10151.140.19 Software: System Software Overview: System Version: macOS 14.6.1 (23G93) Kernel Version: Darwin 23.6.0 Time since boot: 7 days, 7 hours, 46 minutes Graphics/Displays: Apple M2 Pro: Chipset Model: Apple M2 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 Installed Packages: alabaster: 0.7.16 appdirs: 1.4.4 appnope: 0.1.4 asttokens: 2.4.1 Babel: 2.15.0 beautifulsoup4: 4.12.3 blockdiag: 3.0.0 blosc2: 2.0.0 build: 1.2.1 certifi: 2023.11.17 cftime: 1.6.4 charset-normalizer: 3.3.2 ChimeraX-AddCharge: 1.5.17 ChimeraX-AddH: 2.2.6 ChimeraX-AlignmentAlgorithms: 2.0.2 ChimeraX-AlignmentHdrs: 3.5 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 2.12.7 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.1.1 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.1 ChimeraX-Atomic: 1.57.1 ChimeraX-AtomicLibrary: 14.0.6 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.4 ChimeraX-BasicActions: 1.1.2 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 2.4.6 ChimeraX-BondRot: 2.0.4 ChimeraX-BugReporter: 1.0.1 ChimeraX-BuildStructure: 2.12.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.2.7 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: 2.2.4 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: 1.8 ChimeraX-CoreFormats: 1.2 ChimeraX-coulombic: 1.4.3 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0.1 ChimeraX-DataFormats: 1.2.3 ChimeraX-Dicom: 1.2.4 ChimeraX-DiffPlot: 1.0 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: 1.1.1 ChimeraX-Hbonds: 2.4 ChimeraX-Help: 1.2.2 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.1 ChimeraX-ImageFormats: 1.2 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.1 ChimeraX-ItemsInspection: 1.0.1 ChimeraX-IUPAC: 1.0 ChimeraX-Label: 1.1.10 ChimeraX-ListInfo: 1.2.2 ChimeraX-Log: 1.1.6 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.9.1 ChimeraX-Map: 1.2 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: 2.1.3 ChimeraX-MCopy: 1.0 ChimeraX-MDcrds: 2.7.1 ChimeraX-MedicalToolbar: 1.0.3 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.14.1 ChimeraX-MMTF: 2.2 ChimeraX-Modeller: 1.5.17 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-Neuron: 1.0 ChimeraX-Nifti: 1.2 ChimeraX-NMRSTAR: 1.0.2 ChimeraX-NRRD: 1.2 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.13.5 ChimeraX-PDB: 2.7.5 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: 1.1.1 ChimeraX-PubChem: 2.2 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.2 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.4.1 ChimeraX-RenumberResidues: 1.1 ChimeraX-ResidueFit: 1.0.1 ChimeraX-RestServer: 1.2 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: 3.0.15 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.11.2 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.1.1 ChimeraX-ShowSequences: 1.0.3 ChimeraX-SideView: 1.0.1 ChimeraX-Smiles: 2.1.2 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.16.5 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: 1.1.2 ChimeraX-ToolshedUtils: 1.2.4 ChimeraX-Topography: 1.0 ChimeraX-ToQuest: 1.0 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.39.1 ChimeraX-uniprot: 2.3 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.4.3 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: 1.2.1 cxservices: 1.2.2 cycler: 0.12.1 Cython: 3.0.10 debugpy: 1.8.1 decorator: 5.1.1 docutils: 0.20.1 executing: 2.0.1 filelock: 3.13.4 fonttools: 4.53.0 funcparserlib: 2.0.0a0 glfw: 2.7.0 grako: 3.16.5 h5py: 3.11.0 html2text: 2024.2.26 idna: 3.7 ihm: 1.0 imagecodecs: 2024.1.1 imagesize: 1.4.1 ipykernel: 6.29.2 ipython: 8.21.0 ipywidgets: 8.1.3 jedi: 0.19.1 jinja2: 3.1.4 jupyter-client: 8.6.0 jupyter-core: 5.7.2 jupyterlab-widgets: 3.0.11 kiwisolver: 1.4.5 line-profiler: 4.1.2 lxml: 5.2.1 lz4: 4.3.3 MarkupSafe: 2.1.5 matplotlib: 3.8.4 matplotlib-inline: 0.1.7 msgpack: 1.0.8 nest-asyncio: 1.6.0 netCDF4: 1.6.5 networkx: 3.3 nibabel: 5.2.0 nptyping: 2.5.0 numexpr: 2.10.0 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: 10.3.0 pip: 24.0 pkginfo: 1.10.0 platformdirs: 4.2.2 prompt-toolkit: 3.0.47 psutil: 5.9.8 ptyprocess: 0.7.0 pure-eval: 0.2.2 py-cpuinfo: 9.0.0 pycollada: 0.8 pydicom: 2.4.4 pygments: 2.17.2 pynmrstar: 3.3.4 pynrrd: 1.0.0 PyOpenGL: 3.1.7 PyOpenGL-accelerate: 3.1.7 pyopenxr: 1.0.3401 pyparsing: 3.1.2 pyproject-hooks: 1.1.0 PyQt6-commercial: 6.6.1 PyQt6-Qt6: 6.6.3 PyQt6-sip: 13.6.0 PyQt6-WebEngine-commercial: 6.6.0 PyQt6-WebEngine-Qt6: 6.6.3 python-dateutil: 2.9.0.post0 pytz: 2024.1 pyzmq: 26.0.3 qtconsole: 5.5.1 QtPy: 2.4.1 RandomWords: 0.4.0 requests: 2.31.0 scipy: 1.13.0 setuptools: 69.5.1 setuptools-scm: 8.0.4 sfftk-rw: 0.8.1 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 soupsieve: 2.5 sphinx: 7.2.6 sphinx-autodoc-typehints: 2.0.1 sphinxcontrib-applehelp: 1.0.8 sphinxcontrib-blockdiag: 3.0.0 sphinxcontrib-devhelp: 1.0.6 sphinxcontrib-htmlhelp: 2.0.5 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.7 sphinxcontrib-serializinghtml: 1.1.10 stack-data: 0.6.3 superqt: 0.6.3 tables: 3.8.0 tcia-utils: 1.5.1 tifffile: 2024.1.30 tinyarray: 1.2.4 tornado: 6.4.1 traitlets: 5.14.2 typing-extensions: 4.12.2 tzdata: 2024.1 urllib3: 2.2.1 wcwidth: 0.2.13 webcolors: 1.13 wheel: 0.43.0 wheel-filename: 1.4.1 widgetsnbextension: 4.0.11 }}} " defect closed normal Window Toolkit duplicate all ChimeraX