id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 8737 Crash in event loop chimerax-bug-report@… Eric Pettersen "{{{ The following bug report has been submitted: Platform: macOS-10.16-x86_64-i386-64bit ChimeraX Version: 1.5rc202211182308 (2022-11-18 23:08:37 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. 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All rights reserved. How to cite UCSF ChimeraX > open /Users/fadlof/Downloads/cryosparc_P202_J200_class_00_00800_volume.mrc Opened cryosparc_P202_J200_class_00_00800_volume.mrc as #1, grid size 32,32,32, pixel 5.9, shown at level 0.889, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J200_class_01_00800_volume.mrc Opened cryosparc_P202_J200_class_01_00800_volume.mrc as #2, grid size 32,32,32, pixel 5.9, shown at level 0.657, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J200_class_02_00800_volume.mrc Opened cryosparc_P202_J200_class_02_00800_volume.mrc as #3, grid size 32,32,32, pixel 5.9, shown at level 0.671, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J209_class_00_final_volume.mrc Opened cryosparc_P202_J209_class_00_final_volume.mrc as #4, grid size 64,64,64, pixel 2.95, shown at level 0.235, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J209_class_01_final_volume.mrc Opened cryosparc_P202_J209_class_01_final_volume.mrc as #5, grid size 64,64,64, pixel 2.95, shown at level 0.253, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J209_class_02_final_volume.mrc Opened cryosparc_P202_J209_class_02_final_volume.mrc as #6, grid size 64,64,64, pixel 2.95, shown at level 0.305, step 1, values float32 > tile 6 models tiled > volume #1 level 0.3915 > tile 6 models tiled > set bgColor white > lighting full > volume #2 level 0.2683 > volume #6 level 0.2392 > volume #6 level 0.1548 > volume #5 level 0.2345 > volume #5 level 0.1565 > close #1 > close #2 > close #3 > close #4 > close #5 > close #6 > open /Users/fadlof/Downloads/cryosparc_P202_J75_class_00_final_volume.mrc Opened cryosparc_P202_J75_class_00_final_volume.mrc as #1, grid size 128,128,128, pixel 1.77, shown at level 0.04, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J75_class_01_final_volume.mrc Opened cryosparc_P202_J75_class_01_final_volume.mrc as #2, grid size 128,128,128, pixel 1.77, shown at level 0.101, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J75_class_02_final_volume.mrc Opened cryosparc_P202_J75_class_02_final_volume.mrc as #3, grid size 128,128,128, pixel 1.77, shown at level 0.0255, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J209_class_00_final_volume.mrc Opened cryosparc_P202_J209_class_00_final_volume.mrc as #4, grid size 64,64,64, pixel 2.95, shown at level 0.235, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J209_class_01_final_volume.mrc Opened cryosparc_P202_J209_class_01_final_volume.mrc as #5, grid size 64,64,64, pixel 2.95, shown at level 0.253, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J209_class_02_final_volume.mrc Opened cryosparc_P202_J209_class_02_final_volume.mrc as #6, grid size 64,64,64, pixel 2.95, shown at level 0.305, step 1, values float32 > volume #3 level 0.05495 > tile 6 models tiled > tile 6 models tiled > volume #6 level 0.1092 > volume #1 level 0.1447 > volume #3 level 0.1543 > close #1 > close #2 > close #3 > close #4 > close #5 > close #6 > open /Users/fadlof/Downloads/cryosparc_P202_J75_class_00_final_volume.mrc Opened cryosparc_P202_J75_class_00_final_volume.mrc as #1, grid size 128,128,128, pixel 1.77, shown at level 0.04, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J75_class_01_final_volume.mrc Opened cryosparc_P202_J75_class_01_final_volume.mrc as #2, grid size 128,128,128, pixel 1.77, shown at level 0.101, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J75_class_02_final_volume.mrc Opened cryosparc_P202_J75_class_02_final_volume.mrc as #3, grid size 128,128,128, pixel 1.77, shown at level 0.0255, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J141_class_00_final_volume.mrc Opened cryosparc_P202_J141_class_00_final_volume.mrc as #4, grid size 64,64,64, pixel 2.95, shown at level 0.253, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J141_class_01_final_volume.mrc Opened cryosparc_P202_J141_class_01_final_volume.mrc as #5, grid size 64,64,64, pixel 2.95, shown at level 0.301, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J141_class_02_final_volume.mrc Opened cryosparc_P202_J141_class_02_final_volume.mrc as #6, grid size 64,64,64, pixel 2.95, shown at level 0.242, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J209_class_00_final_volume.mrc Opened cryosparc_P202_J209_class_00_final_volume.mrc as #7, grid size 64,64,64, pixel 2.95, shown at level 0.235, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J209_class_01_final_volume.mrc Opened cryosparc_P202_J209_class_01_final_volume.mrc as #8, grid size 64,64,64, pixel 2.95, shown at level 0.253, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J209_class_02_final_volume.mrc Opened cryosparc_P202_J209_class_02_final_volume.mrc as #9, grid size 64,64,64, pixel 2.95, shown at level 0.305, step 1, values float32 > volume #3 level 0.06719 > tile 9 models tiled > tile 9 models tiled > volume #5 level 0.12 > volume #9 level 0.1386 > volume #1 level 0.1213 > volume #3 level 0.1884 > volume #7 level 0.3877 > volume #7 level 0.2566 > volume #9 level 0.1574 > volume #6 level 0.1584 > volume #6 level 0.2273 > close #1 > close #3 > close #2 > close #4 > close #5 > close #6 > close #7 > close #8 > close #9 > open /Users/fadlof/Downloads/cryosparc_P202_J75_class_02_final_volume.mrc Opened cryosparc_P202_J75_class_02_final_volume.mrc as #1, grid size 128,128,128, pixel 1.77, shown at level 0.0255, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J141_class_02_final_volume.mrc Opened cryosparc_P202_J141_class_02_final_volume.mrc as #2, grid size 64,64,64, pixel 2.95, shown at level 0.242, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J209_class_00_final_volume.mrc Opened cryosparc_P202_J209_class_00_final_volume.mrc as #3, grid size 64,64,64, pixel 2.95, shown at level 0.235, step 1, values float32 > tile 3 models tiled > volume #1 level 0.1653 > close #1 > close #2 > close #3 > open /Users/fadlof/Downloads/cryosparc_P202_J75_class_00_final_volume.mrc Opened cryosparc_P202_J75_class_00_final_volume.mrc as #1, grid size 128,128,128, pixel 1.77, shown at level 0.04, step 1, values float32 > volume #1 level 0.3025 > volume #1 level 0.07263 > close #1 > open /Users/fadlof/Downloads/cryosparc_P202_J75_class_01_final_volume.mrc Opened cryosparc_P202_J75_class_01_final_volume.mrc as #1, grid size 128,128,128, pixel 1.77, shown at level 0.101, step 1, values float32 > close #1 > open /Users/fadlof/Downloads/cryosparc_P202_J75_class_02_final_volume.mrc Opened cryosparc_P202_J75_class_02_final_volume.mrc as #1, grid size 128,128,128, pixel 1.77, shown at level 0.0255, step 1, values float32 > volume #1 level 0.1837 > open /Users/fadlof/Downloads/cryosparc_P202_J141_class_02_final_volume.mrc Opened cryosparc_P202_J141_class_02_final_volume.mrc as #2, grid size 64,64,64, pixel 2.95, shown at level 0.242, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J209_class_00_final_volume.mrc Opened cryosparc_P202_J209_class_00_final_volume.mrc as #3, grid size 64,64,64, pixel 2.95, shown at level 0.235, step 1, values float32 > tile 3 models tiled > tile 3 models tiled > volume #2 level 0.2824 > volume #3 level 0.3033 > select add #3 2 models selected > ui mousemode right ""rotate selected models"" > view matrix models > #3,-0.89795,-0.43457,-0.069549,268.63,-0.40087,0.87284,-0.2783,176.77,0.18165,-0.22202,-0.95797,146.93 > view matrix models > #3,0.33139,-0.22513,0.91624,40.181,0.50733,-0.77625,-0.37423,255.53,0.79548,0.58886,-0.14303,-64.056 > ui mousemode right ""translate selected models"" > view matrix models > #3,0.33139,-0.22513,0.91624,-18.73,0.50733,-0.77625,-0.37423,231.13,0.79548,0.58886,-0.14303,-91.2 > view matrix models > #3,0.33139,-0.22513,0.91624,-82.134,0.50733,-0.77625,-0.37423,183.7,0.79548,0.58886,-0.14303,-102.63 > view matrix models > #3,0.33139,-0.22513,0.91624,-142.97,0.50733,-0.77625,-0.37423,137.21,0.79548,0.58886,-0.14303,-112.74 > view matrix models > #3,0.33139,-0.22513,0.91624,-160.35,0.50733,-0.77625,-0.37423,124.14,0.79548,0.58886,-0.14303,-115.81 > ui mousemode right select > select subtract #3 Nothing selected > volume #1 level 0.1579 > volume #2 level 0.325 > volume #3 level 0.3507 > ui mousemode right ""tape measure"" Drag select of 2 cryosparc_P202_J141_class_02_final_volume.mrc > ui mousemode right ""tape measure"" > set bgColor black > ui mousemode right ""tape measure"" > select clear Drag select of 2 cryosparc_P202_J141_class_02_final_volume.mrc > marker segment #4 position 58.63,88.16,54.44 toPosition 59.4,70.63,64.57 > color yellow radius 0.7381 label 20.27 labelHeight 2.027 labelColor yellow > marker segment #4 position 51.57,94.74,49.29 toPosition 7.774,68.49,44.6 > color yellow radius 0.7381 label 51.28 labelHeight 5.128 labelColor yellow > marker delete #4 > marker segment #4 position 60.5,94.15,67.08 toPosition 7.844,67.34,44.92 > color yellow radius 0.7381 label 63.1 labelHeight 6.31 labelColor yellow > open /Users/fadlof/Downloads/cryosparc_P202_J159_class_00_final_volume.mrc Opened cryosparc_P202_J159_class_00_final_volume.mrc as #5, grid size 64,64,64, pixel 2.95, shown at level 0.268, step 1, values float32 > volume #5 level 0.2305 > close #1 > close #2 > close #3 > close #4 > tile 1 model tiled > volume #5 level 0.3814 > open /Volumes/pool-schulman- > share/Frank/AlphaFold/Fbxo7-180-324-PI31-1-151/AF_results/Fbxo7-180-324-PI31-1-151/ranked_0.pdb Chain information for ranked_0.pdb #1 --- Chain | Description A | No description available B | No description available > select add #1 4699 atoms, 4745 bonds, 296 residues, 1 model selected > select subtract #1 Nothing selected > select add #1 4699 atoms, 4745 bonds, 296 residues, 1 model selected > ui mousemode right ""translate selected models"" > view matrix models #1,1,0,0,104.34,0,1,0,104.13,0,0,1,65.904 > fitmap #1 inMap #5 Fit molecule ranked_0.pdb (#1) to map cryosparc_P202_J159_class_00_final_volume.mrc (#5) using 4699 atoms average map value = 0.426, steps = 124 shifted from previous position = 35.1 rotated from previous position = 69.6 degrees atoms outside contour = 1958, contour level = 0.38142 Position of ranked_0.pdb (#1) relative to cryosparc_P202_J159_class_00_final_volume.mrc (#5) coordinates: Matrix rotation and translation 0.70220720 -0.24640462 0.66797442 91.30014113 0.69284976 0.45248109 -0.56144464 95.99360916 -0.16390325 0.85705638 0.48845686 94.74280038 Axis 0.74903558 0.43927072 0.49597070 Axis point 0.00000000 5.75443656 42.10304412 Rotation angle (degrees) 71.24194620 Shift along axis 157.54388914 > volume #5 color #b2b2ff95 > set bgColor white > lighting full > fitmap #1 inMap #5 Fit molecule ranked_0.pdb (#1) to map cryosparc_P202_J159_class_00_final_volume.mrc (#5) using 4699 atoms average map value = 0.426, steps = 64 shifted from previous position = 3.54 rotated from previous position = 0.0424 degrees atoms outside contour = 1960, contour level = 0.38142 Position of ranked_0.pdb (#1) relative to cryosparc_P202_J159_class_00_final_volume.mrc (#5) coordinates: Matrix rotation and translation 0.70240018 -0.24694620 0.66757141 91.34215036 0.69280698 0.45231042 -0.56163492 96.00641179 -0.16325590 0.85699059 0.48878897 94.73519107 Axis 0.74914894 0.43874397 0.49626564 Axis point 0.00000000 5.84408081 42.15372900 Rotation angle (degrees) 71.23122301 Shift along axis 157.56493048 > fitmap #1 inMap #5 Fit molecule ranked_0.pdb (#1) to map cryosparc_P202_J159_class_00_final_volume.mrc (#5) using 4699 atoms average map value = 0.426, steps = 48 shifted from previous position = 0.0736 rotated from previous position = 0.105 degrees atoms outside contour = 1961, contour level = 0.38142 Position of ranked_0.pdb (#1) relative to cryosparc_P202_J159_class_00_final_volume.mrc (#5) coordinates: Matrix rotation and translation 0.70216055 -0.24547257 0.66836652 91.27340918 0.69265420 0.45292174 -0.56133062 95.98578675 -0.16492647 0.85709108 0.48805138 94.74468472 Axis 0.74899215 0.44001717 0.49537425 Axis point 0.00000000 5.61598677 42.03651133 Rotation angle (degrees) 71.24229328 Shift along axis 157.53253842 > fitmap #1 inMap #5 Fit molecule ranked_0.pdb (#1) to map cryosparc_P202_J159_class_00_final_volume.mrc (#5) using 4699 atoms average map value = 0.426, steps = 40 shifted from previous position = 0.0149 rotated from previous position = 0.0417 degrees atoms outside contour = 1958, contour level = 0.38142 Position of ranked_0.pdb (#1) relative to cryosparc_P202_J159_class_00_final_volume.mrc (#5) coordinates: Matrix rotation and translation 0.70222444 -0.24607753 0.66807687 91.28717273 0.69274689 0.45266785 -0.56142104 95.98993871 -0.16426382 0.85705174 0.48834386 94.74442476 Axis 0.74903289 0.43952239 0.49575175 Axis point 0.00000000 5.70308278 42.08538870 Rotation angle (degrees) 71.23919280 Shift along axis 157.53653680 > fitmap #1 inMap #5 Fit molecule ranked_0.pdb (#1) to map cryosparc_P202_J159_class_00_final_volume.mrc (#5) using 4699 atoms average map value = 0.426, steps = 40 shifted from previous position = 0.0404 rotated from previous position = 0.0438 degrees atoms outside contour = 1962, contour level = 0.38142 Position of ranked_0.pdb (#1) relative to cryosparc_P202_J159_class_00_final_volume.mrc (#5) coordinates: Matrix rotation and translation 0.70241884 -0.24666082 0.66765727 91.32586171 0.69270122 0.45254255 -0.56157837 95.99962449 -0.16362395 0.85695023 0.48873666 94.74282475 Axis 0.74912445 0.43899932 0.49607676 Axis point 0.00000000 5.78872073 42.13610873 Rotation angle (degrees) 71.22521721 Shift along axis 157.55791950 > fitmap #1 inMap #5 Fit molecule ranked_0.pdb (#1) to map cryosparc_P202_J159_class_00_final_volume.mrc (#5) using 4699 atoms average map value = 0.426, steps = 40 shifted from previous position = 0.0501 rotated from previous position = 0.0873 degrees atoms outside contour = 1960, contour level = 0.38142 Position of ranked_0.pdb (#1) relative to cryosparc_P202_J159_class_00_final_volume.mrc (#5) coordinates: Matrix rotation and translation 0.70223130 -0.24538434 0.66832458 91.27797553 0.69257385 0.45295634 -0.56140184 95.98918240 -0.16496264 0.85709806 0.48802690 94.74311766 Axis 0.74904431 0.44002051 0.49529242 Axis point 0.00000000 5.60851453 42.04276866 Rotation angle (degrees) 71.23984639 Shift along axis 157.53400450 > fitmap #1 inMap #5 Fit molecule ranked_0.pdb (#1) to map cryosparc_P202_J159_class_00_final_volume.mrc (#5) using 4699 atoms average map value = 0.426, steps = 44 shifted from previous position = 0.00633 rotated from previous position = 0.0124 degrees atoms outside contour = 1961, contour level = 0.38142 Position of ranked_0.pdb (#1) relative to cryosparc_P202_J159_class_00_final_volume.mrc (#5) coordinates: Matrix rotation and translation 0.70220543 -0.24559120 0.66827577 91.27602124 0.69263889 0.45290496 -0.56136305 95.98312482 -0.16479960 0.85706597 0.48813833 94.74209149 Axis 0.74901147 0.43991134 0.49543903 Axis point 0.00000000 5.63108349 42.04631956 Rotation angle (degrees) 71.23881218 Shift along axis 157.52978164 > fitmap #1 inMap #5 Fit molecule ranked_0.pdb (#1) to map cryosparc_P202_J159_class_00_final_volume.mrc (#5) using 4699 atoms average map value = 0.426, steps = 40 shifted from previous position = 0.0751 rotated from previous position = 0.129 degrees atoms outside contour = 1961, contour level = 0.38142 Position of ranked_0.pdb (#1) relative to cryosparc_P202_J159_class_00_final_volume.mrc (#5) coordinates: Matrix rotation and translation 0.70234004 -0.24742151 0.66745867 91.34445993 0.69299992 0.45196186 -0.56167749 96.00959310 -0.16269477 0.85703739 0.48889399 94.73596977 Axis 0.74915532 0.43836424 0.49659148 Axis point 0.00000000 5.91752333 42.18860369 Rotation angle (degrees) 71.24041064 Shift along axis 157.56343594 > fitmap #1 inMap #5 Fit molecule ranked_0.pdb (#1) to map cryosparc_P202_J159_class_00_final_volume.mrc (#5) using 4699 atoms average map value = 0.426, steps = 48 shifted from previous position = 0.0611 rotated from previous position = 0.142 degrees atoms outside contour = 1957, contour level = 0.38142 Position of ranked_0.pdb (#1) relative to cryosparc_P202_J159_class_00_final_volume.mrc (#5) coordinates: Matrix rotation and translation 0.70211381 -0.24539756 0.66844316 91.28875778 0.69268742 0.45289012 -0.56131515 95.98942673 -0.16498594 0.85712927 0.48796420 94.74123302 Axis 0.74898192 0.44007599 0.49533748 Axis point 0.00000000 5.61421255 42.01917088 Rotation angle (degrees) 71.24730162 Shift along axis 157.54515369 > fitmap #1 inMap #5 Fit molecule ranked_0.pdb (#1) to map cryosparc_P202_J159_class_00_final_volume.mrc (#5) using 4699 atoms average map value = 0.426, steps = 44 shifted from previous position = 0.0553 rotated from previous position = 0.121 degrees atoms outside contour = 1957, contour level = 0.38142 Position of ranked_0.pdb (#1) relative to cryosparc_P202_J159_class_00_final_volume.mrc (#5) coordinates: Matrix rotation and translation 0.70237255 -0.24721110 0.66750242 91.33938059 0.69284721 0.45244409 -0.56147761 96.00035458 -0.16320404 0.85684364 0.48906383 94.75515394 Axis 0.74903949 0.43871016 0.49646072 Axis point 0.00000000 5.84935076 42.15235578 Rotation angle (degrees) 71.21969739 Shift along axis 157.57534529 > volume #5 level 0.4534 > open /Users/fadlof/Downloads/Chimera/PDB/4ouh_PI31-FP_dimer.pdb 4ouh_PI31-FP_dimer.pdb title: Crystal structure of the FP domain of human Π31 proteasome inhibitor [more info...] Chain information for 4ouh_PI31-FP_dimer.pdb #2 --- Chain | Description | UniProt A B | HPI31 | PSMF1_HUMAN > select add #5 4699 atoms, 4745 bonds, 296 residues, 3 models selected > select subtract #1 2 models selected > select add #2 2615 atoms, 2383 bonds, 2 pseudobonds, 577 residues, 4 models selected > fitmap #2 inMap #5 Fit molecule 4ouh_PI31-FP_dimer.pdb (#2) to map cryosparc_P202_J159_class_00_final_volume.mrc (#5) using 2615 atoms average map value = 0.4169, steps = 436 shifted from previous position = 126 rotated from previous position = 147 degrees atoms outside contour = 1462, contour level = 0.4534 Position of 4ouh_PI31-FP_dimer.pdb (#2) relative to cryosparc_P202_J159_class_00_final_volume.mrc (#5) coordinates: Matrix rotation and translation -0.04748182 0.96000060 -0.27594267 113.93997204 -0.12535988 -0.27979717 -0.95183951 199.20698172 -0.99097447 -0.01060293 0.13363085 83.22101945 Axis 0.58653369 0.44557368 -0.67634483 Axis point 150.61740250 106.32774437 0.00000000 Rotation angle (degrees) 126.64277525 Shift along axis 99.30491456 > fitmap #2 inMap #5 Fit molecule 4ouh_PI31-FP_dimer.pdb (#2) to map cryosparc_P202_J159_class_00_final_volume.mrc (#5) using 2615 atoms average map value = 0.4169, steps = 104 shifted from previous position = 20.4 rotated from previous position = 0.0638 degrees atoms outside contour = 1464, contour level = 0.4534 Position of 4ouh_PI31-FP_dimer.pdb (#2) relative to cryosparc_P202_J159_class_00_final_volume.mrc (#5) coordinates: Matrix rotation and translation -0.04701370 0.95979427 -0.27673939 114.02765011 -0.12474175 -0.28051824 -0.95170848 199.19208818 -0.99107479 -0.01022239 0.13291463 83.29219428 Axis 0.58695302 0.44533990 -0.67613499 Axis point 150.70420735 106.33327226 0.00000000 Rotation angle (degrees) 126.67738641 Shift along axis 99.32029002 > fitmap #2 inMap #5 Fit molecule 4ouh_PI31-FP_dimer.pdb (#2) to map cryosparc_P202_J159_class_00_final_volume.mrc (#5) using 2615 atoms average map value = 0.4168, steps = 48 shifted from previous position = 0.0571 rotated from previous position = 0.0914 degrees atoms outside contour = 1463, contour level = 0.4534 Position of 4ouh_PI31-FP_dimer.pdb (#2) relative to cryosparc_P202_J159_class_00_final_volume.mrc (#5) coordinates: Matrix rotation and translation -0.04762777 0.95986542 -0.27638741 113.99624462 -0.12616950 -0.28026629 -0.95159449 199.18308588 -0.99086471 -0.01045067 0.13445421 83.18284746 Axis 0.58641929 0.44518516 -0.67669978 Axis point 150.59946818 106.23173331 0.00000000 Rotation angle (degrees) 126.63533876 Shift along axis 99.23313629 > fitmap #2 inMap #5 Fit molecule 4ouh_PI31-FP_dimer.pdb (#2) to map cryosparc_P202_J159_class_00_final_volume.mrc (#5) using 2615 atoms average map value = 0.4169, steps = 48 shifted from previous position = 0.069 rotated from previous position = 0.0995 degrees atoms outside contour = 1466, contour level = 0.4534 Position of 4ouh_PI31-FP_dimer.pdb (#2) relative to cryosparc_P202_J159_class_00_final_volume.mrc (#5) coordinates: Matrix rotation and translation -0.04682836 0.95980221 -0.27674329 114.02001979 -0.12467130 -0.28049675 -0.95172405 199.19994973 -0.99109243 -0.01006574 0.13279500 83.29327451 Axis 0.58703662 0.44533043 -0.67606865 Axis point 150.72047810 106.34465070 -0.00000000 Rotation angle (degrees) 126.67427171 Shift along axis 99.33175497 > fitmap #2 inMap #5 Fit molecule 4ouh_PI31-FP_dimer.pdb (#2) to map cryosparc_P202_J159_class_00_final_volume.mrc (#5) using 2615 atoms average map value = 0.4169, steps = 44 shifted from previous position = 0.0058 rotated from previous position = 0.0293 degrees atoms outside contour = 1465, contour level = 0.4534 Position of 4ouh_PI31-FP_dimer.pdb (#2) relative to cryosparc_P202_J159_class_00_final_volume.mrc (#5) coordinates: Matrix rotation and translation -0.04707388 0.95987975 -0.27643254 113.98881610 -0.12499725 -0.28022462 -0.95176145 199.20158493 -0.99103974 -0.01024981 0.13317361 83.25848767 Axis 0.58683483 0.44540755 -0.67619302 Axis point 150.67799687 106.33252031 0.00000000 Rotation angle (degrees) 126.65979948 Shift along axis 99.31968802 > fitmap #2 inMap #5 Fit molecule 4ouh_PI31-FP_dimer.pdb (#2) to map cryosparc_P202_J159_class_00_final_volume.mrc (#5) using 2615 atoms average map value = 0.4169, steps = 68 shifted from previous position = 11.7 rotated from previous position = 0.0789 degrees atoms outside contour = 1465, contour level = 0.4534 Position of 4ouh_PI31-FP_dimer.pdb (#2) relative to cryosparc_P202_J159_class_00_final_volume.mrc (#5) coordinates: Matrix rotation and translation -0.04779645 0.96011231 -0.27549931 113.89133723 -0.12570106 -0.27940342 -0.95191018 199.21471003 -0.99091613 -0.01086738 0.13404164 83.16761735 Axis 0.58627985 0.44571242 -0.67647348 Axis point 150.55632236 106.32190151 0.00000000 Rotation angle (degrees) 126.62528574 Shift along axis 99.30397894 > fitmap #2 inMap #5 Fit molecule 4ouh_PI31-FP_dimer.pdb (#2) to map cryosparc_P202_J159_class_00_final_volume.mrc (#5) using 2615 atoms average map value = 0.4169, steps = 40 shifted from previous position = 0.0166 rotated from previous position = 0.0159 degrees atoms outside contour = 1461, contour level = 0.4534 Position of 4ouh_PI31-FP_dimer.pdb (#2) relative to cryosparc_P202_J159_class_00_final_volume.mrc (#5) coordinates: Matrix rotation and translation -0.04765601 0.96007485 -0.27565416 113.91059308 -0.12551755 -0.27953613 -0.95189543 199.21081954 -0.99094615 -0.01076411 0.13382783 83.20635069 Axis 0.58639097 0.44567719 -0.67640038 Axis point 150.59114769 106.33045906 0.00000000 Rotation angle (degrees) 126.63264225 Shift along axis 99.29905482 > fitmap #2 inMap #5 Fit molecule 4ouh_PI31-FP_dimer.pdb (#2) to map cryosparc_P202_J159_class_00_final_volume.mrc (#5) using 2615 atoms average map value = 0.4168, steps = 48 shifted from previous position = 0.0542 rotated from previous position = 0.0417 degrees atoms outside contour = 1464, contour level = 0.4534 Position of 4ouh_PI31-FP_dimer.pdb (#2) relative to cryosparc_P202_J159_class_00_final_volume.mrc (#5) coordinates: Matrix rotation and translation -0.04724226 0.96021525 -0.27523600 113.86734843 -0.12594294 -0.27907061 -0.95197583 199.22371628 -0.99091199 -0.01030946 0.13411627 83.22509977 Axis 0.58640735 0.44567553 -0.67638727 Axis point 150.64244007 106.33457399 -0.00000000 Rotation angle (degrees) 126.59096677 Shift along axis 99.26938686 > fitmap #2 inMap #5 Fit molecule 4ouh_PI31-FP_dimer.pdb (#2) to map cryosparc_P202_J159_class_00_final_volume.mrc (#5) using 2615 atoms average map value = 0.4169, steps = 44 shifted from previous position = 0.0739 rotated from previous position = 0.147 degrees atoms outside contour = 1464, contour level = 0.4534 Position of 4ouh_PI31-FP_dimer.pdb (#2) relative to cryosparc_P202_J159_class_00_final_volume.mrc (#5) coordinates: Matrix rotation and translation -0.04736512 0.95951510 -0.27764609 114.12556128 -0.12527685 -0.28146964 -0.95135722 199.15957412 -0.99099055 -0.01027853 0.13353689 83.21594514 Axis 0.58688457 0.44486275 -0.67650841 Axis point 150.64575034 106.22238798 0.00000000 Rotation angle (degrees) 126.70169983 Shift along axis 99.28092028 > fitmap #2 inMap #5 Fit molecule 4ouh_PI31-FP_dimer.pdb (#2) to map cryosparc_P202_J159_class_00_final_volume.mrc (#5) using 2615 atoms average map value = 0.4169, steps = 44 shifted from previous position = 0.0528 rotated from previous position = 0.115 degrees atoms outside contour = 1462, contour level = 0.4534 Position of 4ouh_PI31-FP_dimer.pdb (#2) relative to cryosparc_P202_J159_class_00_final_volume.mrc (#5) coordinates: Matrix rotation and translation -0.04779179 0.95999612 -0.27590474 113.93472113 -0.12612333 -0.27980934 -0.95173507 199.20344363 -0.99086269 -0.01068710 0.13445051 83.17064678 Axis 0.58628101 0.44542497 -0.67666179 Axis point 150.56911015 106.26968582 0.00000000 Rotation angle (degrees) 126.62501399 Shift along axis 99.24955288 > select subtract #5 2615 atoms, 2383 bonds, 2 pseudobonds, 577 residues, 2 models selected > select add #5 2615 atoms, 2383 bonds, 2 pseudobonds, 577 residues, 4 models selected > hide #!5 models > select subtract #2 2 models selected > select subtract #5 Nothing selected > select add #2 2615 atoms, 2383 bonds, 2 pseudobonds, 577 residues, 2 models selected > view matrix models > #2,0.62846,0.577,0.52164,27.711,0.76058,-0.59634,-0.25671,121.49,0.16295,0.55808,-0.81363,167.26 > view matrix models > #2,0.62846,0.577,0.52164,14.84,0.76058,-0.59634,-0.25671,104.05,0.16295,0.55808,-0.81363,156.11 > view matrix models > #2,0.62846,0.577,0.52164,4.1092,0.76058,-0.59634,-0.25671,98.176,0.16295,0.55808,-0.81363,150.45 > view matrix models > #2,0.62846,0.577,0.52164,-7.5665,0.76058,-0.59634,-0.25671,89.832,0.16295,0.55808,-0.81363,143.46 > view matrix models > #2,0.64657,0.24743,0.72161,-28.152,0.64603,-0.68066,-0.34546,99.94,0.4057,0.68955,-0.59994,118.79 > ui mousemode right ""rotate selected models"" > view matrix models > #2,0.58652,0.71175,0.38653,7.0178,0.62077,-0.70157,0.34993,23.782,0.52024,0.034709,-0.85332,148.77 > view matrix models > #2,0.64414,0.75347,-0.13178,63.577,0.59643,-0.38688,0.70327,-16.119,0.47891,-0.5316,-0.6986,134.05 > view matrix models > #2,0.63638,0.23088,0.73601,-29.642,0.6497,-0.67478,-0.35008,100.41,0.41582,0.70098,-0.57942,116.47 > view matrix models > #2,0.60195,0.22027,0.76755,-32.968,0.63316,-0.71736,-0.29069,94.104,0.48658,0.66096,-0.57129,115.53 > ui mousemode right ""rotate selected models"" > ui mousemode right select > select add #5 2615 atoms, 2383 bonds, 2 pseudobonds, 577 residues, 4 models selected > select subtract #2 2 models selected > select add #1 4699 atoms, 4745 bonds, 296 residues, 3 models selected > select subtract #5 4699 atoms, 4745 bonds, 296 residues, 1 model selected > select subtract #1 Nothing selected > show #!5 models > hide #!5 models > open /Users/fadlof/Downloads/cryosparc_P202_J209_class_02_final_volume.mrc Opened cryosparc_P202_J209_class_02_final_volume.mrc as #3, grid size 64,64,64, pixel 2.95, shown at level 0.305, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J75_class_00_final_volume.mrc Opened cryosparc_P202_J75_class_00_final_volume.mrc as #4, grid size 128,128,128, pixel 1.77, shown at level 0.04, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J75_class_01_final_volume.mrc Opened cryosparc_P202_J75_class_01_final_volume.mrc as #6, grid size 128,128,128, pixel 1.77, shown at level 0.101, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J75_class_02_final_volume.mrc Opened cryosparc_P202_J75_class_02_final_volume.mrc as #7, grid size 128,128,128, pixel 1.77, shown at level 0.0255, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J141_class_00_final_volume.mrc Opened cryosparc_P202_J141_class_00_final_volume.mrc as #8, grid size 64,64,64, pixel 2.95, shown at level 0.253, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J141_class_01_final_volume.mrc Opened cryosparc_P202_J141_class_01_final_volume.mrc as #9, grid size 64,64,64, pixel 2.95, shown at level 0.301, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J141_class_02_final_volume.mrc Opened cryosparc_P202_J141_class_02_final_volume.mrc as #10, grid size 64,64,64, pixel 2.95, shown at level 0.242, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J159_class_00_final_volume.mrc Opened cryosparc_P202_J159_class_00_final_volume.mrc as #11, grid size 64,64,64, pixel 2.95, shown at level 0.268, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J159_class_01_final_volume.mrc Opened cryosparc_P202_J159_class_01_final_volume.mrc as #12, grid size 64,64,64, pixel 2.95, shown at level 0.315, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J159_class_02_final_volume.mrc Opened cryosparc_P202_J159_class_02_final_volume.mrc as #13, grid size 64,64,64, pixel 2.95, shown at level 0.268, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J209_class_00_final_volume.mrc Opened cryosparc_P202_J209_class_00_final_volume.mrc as #14, grid size 64,64,64, pixel 2.95, shown at level 0.235, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J209_class_01_final_volume.mrc Opened cryosparc_P202_J209_class_01_final_volume.mrc as #15, grid size 64,64,64, pixel 2.95, shown at level 0.253, step 1, values float32 > close #5 > close #3 > close #4 > close #6 > close #7 > close #8 > close #9 > close #10 > close #11 > close #12 > close #13 > close #14 > close #15 > close > open /Users/fadlof/Downloads/cryosparc_P202_J209_class_02_final_volume.mrc Opened cryosparc_P202_J209_class_02_final_volume.mrc as #1, grid size 64,64,64, pixel 2.95, shown at level 0.305, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J75_class_00_final_volume.mrc Opened cryosparc_P202_J75_class_00_final_volume.mrc as #2, grid size 128,128,128, pixel 1.77, shown at level 0.04, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J75_class_01_final_volume.mrc Opened cryosparc_P202_J75_class_01_final_volume.mrc as #3, grid size 128,128,128, pixel 1.77, shown at level 0.101, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J75_class_02_final_volume.mrc Opened cryosparc_P202_J75_class_02_final_volume.mrc as #4, grid size 128,128,128, pixel 1.77, shown at level 0.0255, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J141_class_00_final_volume.mrc Opened cryosparc_P202_J141_class_00_final_volume.mrc as #5, grid size 64,64,64, pixel 2.95, shown at level 0.253, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J141_class_01_final_volume.mrc Opened cryosparc_P202_J141_class_01_final_volume.mrc as #6, grid size 64,64,64, pixel 2.95, shown at level 0.301, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J141_class_02_final_volume.mrc Opened cryosparc_P202_J141_class_02_final_volume.mrc as #7, grid size 64,64,64, pixel 2.95, shown at level 0.242, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J159_class_00_final_volume.mrc Opened cryosparc_P202_J159_class_00_final_volume.mrc as #8, grid size 64,64,64, pixel 2.95, shown at level 0.268, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J159_class_01_final_volume.mrc Opened cryosparc_P202_J159_class_01_final_volume.mrc as #9, grid size 64,64,64, pixel 2.95, shown at level 0.315, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J159_class_02_final_volume.mrc Opened cryosparc_P202_J159_class_02_final_volume.mrc as #10, grid size 64,64,64, pixel 2.95, shown at level 0.268, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J209_class_00_final_volume.mrc Opened cryosparc_P202_J209_class_00_final_volume.mrc as #11, grid size 64,64,64, pixel 2.95, shown at level 0.235, step 1, values float32 > open /Users/fadlof/Downloads/cryosparc_P202_J209_class_01_final_volume.mrc Opened cryosparc_P202_J209_class_01_final_volume.mrc as #12, grid size 64,64,64, pixel 2.95, shown at level 0.253, step 1, values float32 > tile 12 models tiled > volume #1 level 0.2185 > volume #2 level 0.169 > volume #3 level 0.1623 > volume #4 level 0.1505 > volume #1 level 0.3336 > volume #1 level 0.2232 > volume #1 level 0.2279 > volume #1 level 0.1269 > volume #2 level 0.08597 > select clear > volume #3 level 0.05453 > volume #6 level 0.1991 > volume #3 level 0.1489 > volume #1 level 0.2655 > select clear > volume #7 level 0.1981 > close #1 > close #2 > close #3 > close #5 > close #6 > close #9 > close #10 > close #12 > tile 4 models tiled > set bgColor black > volume #4 level 0.2 > volume #7 level 0.2 > volume #8 level 0.2 > volume #11 level 0.2 > volume #4 level 0.1 ===== Log before crash end ===== Log: UCSF ChimeraX version: 1.5rc202211182308 (2022-11-18) © 2016-2022 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX OpenGL version: 4.1 INTEL-20.2.44 OpenGL renderer: Intel(R) Iris(TM) Plus Graphics 655 OpenGL vendor: Intel Inc. Python: 3.9.11 Locale: UTF-8 Qt version: PyQt6 6.3.1, Qt 6.3.1 Qt runtime version: 6.3.2 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Pro Model Identifier: MacBookPro15,2 Processor Name: Quad-Core Intel Core i7 Processor Speed: 2,7 GHz Number of Processors: 1 Total Number of Cores: 4 L2 Cache (per Core): 256 KB L3 Cache: 8 MB Hyper-Threading Technology: Enabled Memory: 16 GB System Firmware Version: 1916.40.8.0.0 (iBridge: 20.16.420.0.0,0) OS Loader Version: 564.40.4~27 Software: System Software Overview: System Version: macOS 13.0.1 (22A400) Kernel Version: Darwin 22.1.0 Time since boot: 5 Tage und 3 Stunden Graphics/Displays: Intel Iris Plus Graphics 655: Chipset Model: Intel Iris Plus Graphics 655 Type: GPU Bus: Built-In VRAM (Dynamic, Max): 1536 MB Vendor: Intel Device ID: 0x3ea5 Revision ID: 0x0001 Metal Support: Metal 3 Displays: Color LCD: Display Type: Built-In Retina LCD Resolution: 2560 x 1600 Retina Framebuffer Depth: 24-Bit Color (ARGB8888) Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: Yes Connection Type: Internal DELL U2718Q: Resolution: 5120 x 2880 (5K/UHD+ - Ultra High Definition Plus) UI Looks like: 2560 x 1440 @ 30.00Hz Framebuffer Depth: 30-Bit Color (ARGB2101010) Display Serial Number: FN84K91L0H2L Mirror: Off Online: Yes Rotation: Supported Connection Type: DVI or HDMI Adapter Firmware Version: 7,55 Installed Packages: alabaster: 0.7.12 appdirs: 1.4.4 appnope: 0.1.3 asttokens: 2.1.0 Babel: 2.11.0 backcall: 0.2.0 blockdiag: 3.0.0 build: 0.8.0 certifi: 2021.10.8 cftime: 1.6.2 charset-normalizer: 2.1.1 ChimeraX-AddCharge: 1.4 ChimeraX-AddH: 2.2.1 ChimeraX-AlignmentAlgorithms: 2.0 ChimeraX-AlignmentHdrs: 3.2.1 ChimeraX-AlignmentMatrices: 2.0 ChimeraX-Alignments: 2.6 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.0.3 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.0 ChimeraX-Atomic: 1.41.5 ChimeraX-AtomicLibrary: 8.0.3 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.3 ChimeraX-BasicActions: 1.1.2 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 2.1.2 ChimeraX-BondRot: 2.0.1 ChimeraX-BugReporter: 1.0.1 ChimeraX-BuildStructure: 2.7.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.2 ChimeraX-ButtonPanel: 1.0.1 ChimeraX-CageBuilder: 1.0.1 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.3.1 ChimeraX-ChangeChains: 1.0.2 ChimeraX-CheckWaters: 1.3 ChimeraX-ChemGroup: 2.0 ChimeraX-Clashes: 2.2.4 ChimeraX-ColorActions: 1.0.3 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.2 ChimeraX-CommandLine: 1.2.4 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.5rc202211182308 ChimeraX-CoreFormats: 1.1 ChimeraX-coulombic: 1.3.2 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0.1 ChimeraX-DataFormats: 1.2.2 ChimeraX-Dicom: 1.1 ChimeraX-DistMonitor: 1.3 ChimeraX-DockPrep: 1.0 ChimeraX-Dssp: 2.0 ChimeraX-EMDB-SFF: 1.0 ChimeraX-ExperimentalCommands: 1.0 ChimeraX-FileHistory: 1.0.1 ChimeraX-FunctionKey: 1.0.1 ChimeraX-Geometry: 1.2 ChimeraX-gltf: 1.0 ChimeraX-Graphics: 1.1 ChimeraX-Hbonds: 2.4 ChimeraX-Help: 1.2.1 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-Label: 1.1.7 ChimeraX-ListInfo: 1.1.1 ChimeraX-Log: 1.1.5 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.8.2 ChimeraX-Map: 1.1.2 ChimeraX-MapData: 2.0 ChimeraX-MapEraser: 1.0.1 ChimeraX-MapFilter: 2.0 ChimeraX-MapFit: 2.0 ChimeraX-MapSeries: 2.1.1 ChimeraX-Markers: 1.0.1 ChimeraX-Mask: 1.0.1 ChimeraX-MatchMaker: 2.0.9 ChimeraX-MDcrds: 2.6 ChimeraX-MedicalToolbar: 1.0.2 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1 ChimeraX-mmCIF: 2.8 ChimeraX-MMTF: 2.2 ChimeraX-Modeller: 1.5.6 ChimeraX-ModelPanel: 1.3.6 ChimeraX-ModelSeries: 1.0.1 ChimeraX-Mol2: 2.0 ChimeraX-Mole: 1.0 ChimeraX-Morph: 1.0.1 ChimeraX-MouseModes: 1.1.1 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.9.1 ChimeraX-PDB: 2.6.8 ChimeraX-PDBBio: 1.0 ChimeraX-PDBLibrary: 1.0.2 ChimeraX-PDBMatrices: 1.0 ChimeraX-PickBlobs: 1.0.1 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.1 ChimeraX-PubChem: 2.1 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.1 ChimeraX-RemoteControl: 1.0 ChimeraX-RenumberResidues: 1.1 ChimeraX-ResidueFit: 1.0.1 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: 2.7.2 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.1.1 ChimeraX-ShowSequences: 1.0.1 ChimeraX-SideView: 1.0.1 ChimeraX-Smiles: 2.1 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.10 ChimeraX-STL: 1.0 ChimeraX-Storm: 1.0 ChimeraX-StructMeasure: 1.1 ChimeraX-Struts: 1.0.1 ChimeraX-Surface: 1.0 ChimeraX-SwapAA: 2.0.1 ChimeraX-SwapRes: 2.1.3 ChimeraX-TapeMeasure: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.1.2 ChimeraX-ToolshedUtils: 1.2.1 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.24.3 ChimeraX-uniprot: 2.2.1 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.1.4 ChimeraX-VIPERdb: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0.1 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0.1 ChimeraX-WebServices: 1.1.0 ChimeraX-Zone: 1.0.1 colorama: 0.4.5 cxservices: 1.2 cycler: 0.11.0 Cython: 0.29.32 debugpy: 1.6.3 decorator: 5.1.1 docutils: 0.19 entrypoints: 0.4 executing: 1.2.0 filelock: 3.7.1 fonttools: 4.38.0 funcparserlib: 1.0.1 grako: 3.16.5 h5py: 3.7.0 html2text: 2020.1.16 idna: 3.4 ihm: 0.33 imagecodecs: 2022.7.31 imagesize: 1.4.1 importlib-metadata: 5.0.0 ipykernel: 6.15.3 ipython: 8.4.0 ipython-genutils: 0.2.0 jedi: 0.18.1 Jinja2: 3.1.2 jupyter-client: 7.3.4 jupyter-core: 5.0.0 kiwisolver: 1.4.4 line-profiler: 3.5.1 lxml: 4.9.1 lz4: 4.0.2 MarkupSafe: 2.1.1 matplotlib: 3.5.2 matplotlib-inline: 0.1.6 msgpack: 1.0.4 nest-asyncio: 1.5.6 netCDF4: 1.6.0 networkx: 2.8.5 numexpr: 2.8.4 numpy: 1.23.1 openvr: 1.23.701 packaging: 21.3 ParmEd: 3.4.3 parso: 0.8.3 pep517: 0.13.0 pexpect: 4.8.0 pickleshare: 0.7.5 Pillow: 9.2.0 pip: 22.2.2 pkginfo: 1.8.3 platformdirs: 2.5.4 prompt-toolkit: 3.0.32 psutil: 5.9.1 ptyprocess: 0.7.0 pure-eval: 0.2.2 pycollada: 0.7.2 pydicom: 2.3.0 Pygments: 2.12.0 PyOpenGL: 3.1.5 PyOpenGL-accelerate: 3.1.5 pyparsing: 3.0.9 PyQt6-commercial: 6.3.1 PyQt6-Qt6: 6.3.2 PyQt6-sip: 13.4.0 PyQt6-WebEngine-commercial: 6.3.1 PyQt6-WebEngine-Qt6: 6.3.2 python-dateutil: 2.8.2 pytz: 2022.6 pyzmq: 24.0.1 qtconsole: 5.3.1 QtPy: 2.3.0 RandomWords: 0.4.0 requests: 2.28.1 scipy: 1.9.0 setuptools: 65.1.1 setuptools-scm: 7.0.5 sfftk-rw: 0.7.2 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 Sphinx: 5.1.1 sphinx-autodoc-typehints: 1.19.1 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 stack-data: 0.6.1 tables: 3.7.0 tifffile: 2022.7.31 tinyarray: 1.2.4 tomli: 2.0.1 tornado: 6.2 traitlets: 5.3.0 typing-extensions: 4.4.0 urllib3: 1.26.12 wcwidth: 0.2.5 webcolors: 1.12 wheel: 0.37.1 wheel-filename: 1.4.1 zipp: 3.10.0 }}} " defect closed normal Core can't reproduce Tom Goddard all ChimeraX