id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 18172 Crash on Mac waking from sleep dmitrii.shiriaev@… Eric Pettersen "{{{ The following bug report has been submitted: Platform: macOS-10.16-x86_64-i386-64bit ChimeraX Version: 1.6.1 (2023-05-09 17:57:07 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. 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""d417de97e23772ee386c549338e5524c795fb03d"", ""trialInfo"" : { ""rollouts"" : [ { ""rolloutId"" : ""639124e81d92412bfb4880b3"", ""factorPackIds"" : { }, ""deploymentId"" : 240000012 }, { ""rolloutId"" : ""645eb1d0417dab722a215927"", ""factorPackIds"" : { }, ""deploymentId"" : 240000005 } ], ""experiments"" : [ { ""treatmentId"" : ""f18344bb-554f-48ae-8449-e108a8813a55"", ""experimentId"" : ""6685b5584477001000e8c6c9"", ""deploymentId"" : 400000009 } ] } } ===== Log before crash start ===== Startup Messages --- warning | Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR bundle with that from NMRSTAR bundle UCSF ChimeraX version: 1.6.1 (2023-05-09) © 2016-2023 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open ""/Users/dmitrii.shiriaev/Library/CloudStorage/OneDrive- > KarolinskaInstitutet/Laba/Data/YBEY/coIP/IP structure/ybey- > ko-s27-ip/collection-2-session.cxs"" format session Opened cryosparc_P7_J156_002_volume_map.mrc as #1, grid size 150,150,150, pixel 4.06, shown at level 0.657, step 1, values float32 Opened cryosparc_P7_J156_002_volume_map.mrc z flip as #4, grid size 150,150,150, pixel 4.06, shown at level 0.733, step 1, values float32 Opened cryosparc_P7_J156_002_volume_mask_refine.mrc as #5, grid size 150,150,150, pixel 4.06, shown at level 0.0126, step 1, values float32 Opened mask-lsu-molmap-5ool-15-0c0709.mrc as #6, grid size 150,150,150, pixel 4.06, shown at level 0.0709, step 1, values float32 Opened cryosparc_P7_J159_mask.mrc as #7, grid size 150,150,150, pixel 4.06, shown at level 1, step 1, values float32 Opened cryosparc_P7_J160_mask.mrc as #8, grid size 150,150,150, pixel 4.06, shown at level 1, step 1, values float32 Opened mask-lsu-erased.mrc as #9, grid size 150,150,150, pixel 4.06, shown at level 0.955, step 1, values float32 Opened cryosparc_P7_J161_class_01_00054_volume.mrc as #11, grid size 128,128,128, pixel 4.76, shown at level 1.45, step 1, values float32 Opened cryosparc_P7_J161_class_00_00054_volume.mrc as #12, grid size 128,128,128, pixel 4.76, shown at level 1.17, step 1, values float32 Opened cryosparc_P7_J163_mask.mrc as #13, grid size 150,150,150, pixel 4.06, shown at level 1, step 1, values float32 Opened mask-ssu-erased.mrc as #10, grid size 150,150,150, pixel 4.06, shown at level 1.01, step 1, values float32 Opened cryosparc_P7_J166_mask.mrc as #15, grid size 150,150,150, pixel 4.06, shown at level 1, step 1, values float32 Opened cryosparc_P7_J164_class_01_00054_volume.mrc as #16, grid size 128,128,128, pixel 4.76, shown at level 0.931, step 1, values float32 Opened cryosparc_P7_J164_class_00_00054_volume.mrc as #17, grid size 128,128,128, pixel 4.76, shown at level 1.28, step 1, values float32 Opened cryosparc_P7_J167_class_01_00054_volume.mrc as #14, grid size 128,128,128, pixel 4.76, shown at level 1.54, step 1, values float32 Opened cryosparc_P7_J167_class_00_00054_volume.mrc as #18, grid size 128,128,128, pixel 4.76, shown at level 1.56, step 1, values float32 Opened cryosparc_P7_J171_002_volume_map.mrc as #19, grid size 150,150,150, pixel 4.06, shown at level 1.85, step 1, values float32 Opened cryosparc_P7_J172_002_volume_map.mrc as #20, grid size 150,150,150, pixel 4.06, shown at level 1.24, step 1, values float32 Opened cryosparc_P7_J173_002_volume_map.mrc as #21, grid size 150,150,150, pixel 4.06, shown at level 1.21, step 2, values float32 Opened cryosparc_P7_J174_002_volume_map.mrc as #22, grid size 150,150,150, pixel 4.06, shown at level 0.681, step 1, values float32 Opened cryosparc_P7_J175_class_02_00067_volume.mrc as #23, grid size 128,128,128, pixel 4.76, shown at level 1.45, step 1, values float32 Opened cryosparc_P7_J175_class_01_00067_volume.mrc as #24, grid size 128,128,128, pixel 4.76, shown at level 1.49, step 1, values float32 Opened cryosparc_P7_J175_class_00_00067_volume.mrc as #25, grid size 128,128,128, pixel 4.76, shown at level 2.41, step 1, values float32 Opened mask-16s-immature-erased.mrc as #26, grid size 150,150,150, pixel 4.06, shown at level 0.318, step 1, values float32 Opened cryosparc_P7_J177_mask.mrc as #28, grid size 150,150,150, pixel 4.06, shown at level 1, step 1, values float32 Opened cryosparc_P7_J178_class_02_00068_volume.mrc as #39, grid size 128,128,128, pixel 4.76, shown at level 1.17, step 1, values float32 Opened cryosparc_P7_J178_class_01_00068_volume.mrc as #40, grid size 128,128,128, pixel 4.76, shown at level 1.04, step 1, values float32 Opened cryosparc_P7_J178_class_00_00068_volume.mrc as #41, grid size 128,128,128, pixel 4.76, shown at level 1.42, step 1, values float32 Opened cryosparc_P7_J189_class_01_00042_volume.mrc as #27, grid size 128,128,128, pixel 4.76, shown at level 0.181, step 1, values float32 Opened cryosparc_P7_J189_class_00_00042_volume.mrc as #42, grid size 128,128,128, pixel 4.76, shown at level 0.199, step 1, values float32 Opened mask-malsu1-molmap-5ool.mrc as #43, grid size 150,150,150, pixel 4.06, shown at level 0.0346, step 1, values float32 Opened cryosparc_P7_J193_mask.mrc as #44, grid size 150,150,150, pixel 4.06, shown at level 1, step 1, values float32 Opened cryosparc_P7_J185_005_volume_map.mrc as #46, grid size 600,600,600, pixel 1.02, shown at level 0.0519, step 4, values float32 Opened cryosparc_P7_J194_class_02_00039_volume.mrc as #47, grid size 150,150,150, pixel 4.06, shown at level 1.86, step 1, values float32 Opened cryosparc_P7_J194_class_01_00039_volume.mrc as #48, grid size 150,150,150, pixel 4.06, shown at level 1.82, step 1, values float32 Opened cryosparc_P7_J194_class_00_00039_volume.mrc as #49, grid size 150,150,150, pixel 4.06, shown at level 1.85, step 1, values float32 Opened cryosparc_P7_J190_002_volume_map.mrc as #50, grid size 600,600,600, pixel 1.02, shown at level 0.0294, step 4, values float32 Opened cryosparc_P7_J191_005_volume_map.mrc as #51, grid size 600,600,600, pixel 1.02, shown at level 0.0275, step 4, values float32 Opened mask-a-trna-molmap-7qi5.mrc as #53, grid size 300,300,300, pixel 2.03, shown at level 0.031, step 1, values float32 Opened cryosparc_P7_J196_mask.mrc as #54, grid size 300,300,300, pixel 2.03, shown at level 1, step 2, values float32 Opened cryosparc_P7_J197_class_02_00032_volume.mrc as #55, grid size 160,160,160, pixel 3.81, shown at level 0.365, step 1, values float32 Opened cryosparc_P7_J197_class_01_00032_volume.mrc as #56, grid size 160,160,160, pixel 3.81, shown at level 0.391, step 1, values float32 Opened cryosparc_P7_J197_class_00_00032_volume.mrc as #57, grid size 160,160,160, pixel 3.81, shown at level 0.4, step 1, values float32 Opened cryosparc_P7_J198_005_volume_map.mrc as #58, grid size 600,600,600, pixel 1.02, shown at level 0.0478, step 2, values float32 Opened mask-p-trna-molmap-7qi5.mrc as #60, grid size 160,160,160, pixel 3.81, shown at level 0.031, step 1, values float32 Opened cryosparc_P7_J202_mask.mrc as #62, grid size 160,160,160, pixel 3.81, shown at level 1, step 1, values float32 Opened cryosparc_P7_J199_004_volume_map.mrc as #63, grid size 600,600,600, pixel 1.02, shown at level 0.081, step 2, values float32 Opened cryosparc_P7_J203_class_02_00030_volume.mrc as #64, grid size 160,160,160, pixel 3.81, shown at level 0.415, step 1, values float32 Opened cryosparc_P7_J203_class_01_00030_volume.mrc as #65, grid size 160,160,160, pixel 3.81, shown at level 0.458, step 1, values float32 Opened cryosparc_P7_J203_class_00_00030_volume.mrc as #66, grid size 160,160,160, pixel 3.81, shown at level 1.12, step 1, values float32 Opened cryosparc_P7_J200_005_volume_map.mrc as #67, grid size 600,600,600, pixel 1.02, shown at level 0.0665, step 2, values float32 Opened cryosparc_P7_J187_006_volume_map.mrc as #68, grid size 600,600,600, pixel 1.02, shown at level 0.0234, step 4, values float32 Opened cryosparc_P7_J188_004_volume_map.mrc as #69, grid size 600,600,600, pixel 1.02, shown at level 0.0324, step 4, values float32 Opened mask-s27-flag-erased.mrc as #70, grid size 600,600,600, pixel 1.02, shown at level 0.00762, step 1, values float32 Opened cryosparc_P7_J211_mask.mrc as #72, grid size 600,600,600, pixel 1.02, shown at level 1, step 4, values float32 Opened cryosparc_P7_J213_class_02_00031_volume.mrc as #71, grid size 160,160,160, pixel 3.81, shown at level 0.317, step 1, values float32 Opened cryosparc_P7_J213_class_01_00031_volume.mrc as #73, grid size 160,160,160, pixel 3.81, shown at level 0.379, step 1, values float32 Opened cryosparc_P7_J213_class_00_00031_volume.mrc as #74, grid size 160,160,160, pixel 3.81, shown at level 0.327, step 1, values float32 Opened mask-.mrc as #75, grid size 600,600,600, pixel 1.02, shown at level 0.0588, step 2, values float32 Opened cryosparc_P7_J214_004_volume_map.mrc as #77, grid size 600,600,600, pixel 1.02, shown at level 0.061, step 4, values float32 Opened cryosparc_P7_J216_mask.mrc as #78, grid size 600,600,600, pixel 1.02, shown at level 1, step 4, values float32 Opened cryosparc_P7_J216_mask.mrc as #79, grid size 600,600,600, pixel 1.02, shown at level 1, step 4, values float32 Opened cryosparc_P7_J216_mask.mrc as #80, grid size 600,600,600, pixel 1.02, shown at level 1, step 4, values float32 Opened cryosparc_P7_J217_class_02_00020_volume.mrc as #76, grid size 256,256,256, pixel 2.38, shown at level 0.168, step 1, values float32 Opened cryosparc_P7_J217_class_01_00020_volume.mrc as #81, grid size 256,256,256, pixel 2.38, shown at level 0.187, step 1, values float32 Opened cryosparc_P7_J217_class_00_00020_volume.mrc as #82, grid size 256,256,256, pixel 2.38, shown at level 0.156, step 1, values float32 Opened mask_smaller.mrc as #83, grid size 180,180,180, pixel 2.54, shown at level 1, step 1, values float32 Opened mask_larger.mrc as #84, grid size 180,180,180, pixel 2.54, shown at level 1, step 1, values float32 Opened run_class001.mrc as #85, grid size 540,540,540, pixel 0.846, shown at level 0.00448, step 4, values float32 Opened mask-16s-interface-small-from-vivek.mrc as #90, grid size 600,600,600, pixel 1.02, shown at level 1, step 1, values float32 Opened mask-16s-interface-large-from-vivek.mrc as #91, grid size 600,600,600, pixel 1.02, shown at level 1, step 1, values float32 Opened cryosparc_P7_J240_class_02_00039_volume.mrc as #86, grid size 256,256,256, pixel 2.38, shown at level 0.236, step 1, values float32 Opened cryosparc_P7_J240_class_01_00039_volume.mrc as #87, grid size 256,256,256, pixel 2.38, shown at level 0.215, step 1, values float32 Opened cryosparc_P7_J240_class_00_00039_volume.mrc as #88, grid size 256,256,256, pixel 2.38, shown at level 0.211, step 1, values float32 Opened cryosparc_P7_J242_class_02_00038_volume.mrc as #89, grid size 256,256,256, pixel 2.38, shown at level 0.167, step 1, values float32 Opened cryosparc_P7_J242_class_01_00038_volume.mrc as #92, grid size 256,256,256, pixel 2.38, shown at level 0.159, step 1, values float32 Opened cryosparc_P7_J242_class_00_00038_volume.mrc as #93, grid size 256,256,256, pixel 2.38, shown at level 0.161, step 1, values float32 Opened cryosparc_P7_J243_class_02_00037_volume.mrc as #94, grid size 256,256,256, pixel 2.38, shown at level 0.235, step 1, values float32 Opened cryosparc_P7_J243_class_00_00037_volume.mrc as #95, grid size 256,256,256, pixel 2.38, shown at level 0.243, step 1, values float32 Opened cryosparc_P7_J244_class_01_00055_volume.mrc as #96, grid size 256,256,256, pixel 2.38, shown at level 0.221, step 1, values float32 Opened cryosparc_P7_J244_class_00_00055_volume.mrc as #97, grid size 256,256,256, pixel 2.38, shown at level 0.123, step 1, values float32 Opened cryosparc_P7_J245_class_05_00025_volume.mrc as #98, grid size 256,256,256, pixel 2.38, shown at level 0.233, step 1, values float32 Opened cryosparc_P7_J245_class_04_00025_volume.mrc as #99, grid size 256,256,256, pixel 2.38, shown at level 0.243, step 1, values float32 Opened cryosparc_P7_J245_class_03_00025_volume.mrc as #100, grid size 256,256,256, pixel 2.38, shown at level 0.236, step 1, values float32 Opened cryosparc_P7_J245_class_02_00025_volume.mrc as #101, grid size 256,256,256, pixel 2.38, shown at level 0.305, step 1, values float32 Opened cryosparc_P7_J245_class_01_00025_volume.mrc as #102, grid size 256,256,256, pixel 2.38, shown at level 0.294, step 1, values float32 Opened cryosparc_P7_J245_class_00_00025_volume.mrc as #103, grid size 256,256,256, pixel 2.38, shown at level 0.276, step 1, values float32 Opened cryosparc_P7_J248_002_volume_map.mrc as #104, grid size 600,600,600, pixel 1.02, shown at level 0.0408, step 1, values float32 Opened cryosparc_P7_J246_005_volume_map.mrc as #105, grid size 600,600,600, pixel 1.02, shown at level 0.0536, step 4, values float32 Opened backproject.mrc as #106, grid size 128,128,128, pixel 4.76, shown at level 0.172, step 1, values float32 Opened vol_000.mrc as #107, grid size 128,128,128, pixel 4.76, shown at level 0.067, step 1, values float32 Opened vol_001.mrc as #108, grid size 128,128,128, pixel 4.76, shown at level 0.0561, step 1, values float32 Opened vol_002.mrc as #109, grid size 128,128,128, pixel 4.76, shown at level 0.134, step 1, values float32 Opened vol_003.mrc as #110, grid size 128,128,128, pixel 4.76, shown at level 0.117, step 1, values float32 Opened vol_004.mrc as #111, grid size 128,128,128, pixel 4.76, shown at level 0.11, step 1, values float32 Opened vol_005.mrc as #112, grid size 128,128,128, pixel 4.76, shown at level 0.0933, step 1, values float32 Opened vol_006.mrc as #113, grid size 128,128,128, pixel 4.76, shown at level 0.0926, step 1, values float32 Opened vol_007.mrc as #114, grid size 128,128,128, pixel 4.76, shown at level 0.13, step 1, values float32 Opened vol_008.mrc as #115, grid size 128,128,128, pixel 4.76, shown at level 0.15, step 1, values float32 Opened vol_009.mrc as #116, grid size 128,128,128, pixel 4.76, shown at level 0.171, step 1, values float32 Opened vol_010.mrc as #117, grid size 128,128,128, pixel 4.76, shown at level 0.189, step 1, values float32 Opened vol_011.mrc as #118, grid size 128,128,128, pixel 4.76, shown at level 0.092, step 1, values float32 Opened vol_012.mrc as #119, grid size 128,128,128, pixel 4.76, shown at level 0.123, step 1, values float32 Opened vol_013.mrc as #120, grid size 128,128,128, pixel 4.76, shown at level 0.113, step 1, values float32 Opened vol_014.mrc as #121, grid size 128,128,128, pixel 4.76, shown at level 0.115, step 1, values float32 Opened vol_015.mrc as #122, grid size 128,128,128, pixel 4.76, shown at level 0.08, step 1, values float32 Opened vol_016.mrc as #123, grid size 128,128,128, pixel 4.76, shown at level 0.0973, step 1, values float32 Opened vol_017.mrc as #124, grid size 128,128,128, pixel 4.76, shown at level 0.11, step 1, values float32 Opened vol_018.mrc as #125, grid size 128,128,128, pixel 4.76, shown at level 0.121, step 1, values float32 Opened vol_019.mrc as #126, grid size 128,128,128, pixel 4.76, shown at level 0.0882, step 1, values float32 Opened cryosparc_P7_J183_006_volume_map.mrc as #127, grid size 600,600,600, pixel 1.02, shown at level 0.0257, step 4, values float32 Opened cryosparc_P7_J252_class_02_00037_volume.mrc as #128, grid size 256,256,256, pixel 2.38, shown at level 0.0766, step 1, values float32 Opened cryosparc_P7_J252_class_01_00037_volume.mrc as #129, grid size 256,256,256, pixel 2.38, shown at level 0.0659, step 1, values float32 Opened cryosparc_P7_J252_class_00_00037_volume.mrc as #130, grid size 256,256,256, pixel 2.38, shown at level 0.0662, step 1, values float32 Opened cryosparc_P7_J253_002_volume_map.mrc as #131, grid size 600,600,600, pixel 1.02, shown at level 0.0464, step 2, values float32 opened ChimeraX session > open /Users/dmitrii.shiriaev/Downloads/cryosparc_P7_J277_001_volume_map.mrc Opened cryosparc_P7_J277_001_volume_map.mrc as #132, grid size 150,150,150, pixel 4.06, shown at level 1.8, step 1, values float32 > select add #132 2 models selected > ui mousemode right ""translate selected models"" > view matrix models #132,1,0,0,-16.234,0,1,0,-17.332,0,0,1,-236.74 > view matrix models > #132,-0.9784,0.029452,-0.2046,735.79,-0.1108,-0.91031,0.39881,503.39,-0.17451,0.41287,0.89392,-273.1 > view matrix models > #132,-0.9784,0.029452,-0.2046,660.66,-0.1108,-0.91031,0.39881,510.85,-0.17451,0.41287,0.89392,-288.1 > view matrix models > #132,-0.96136,0.0058291,-0.27525,684.33,-0.11979,-0.90903,0.39914,513.51,-0.24788,0.41669,0.8746,-257.39 > view matrix models > #132,-0.90584,0.19552,0.37581,400.11,-0.045402,-0.92682,0.37276,501.23,0.42119,0.3206,0.84842,-454.41 > view matrix models > #132,-0.91767,0.17182,0.35827,417.31,-0.24356,-0.95565,-0.16554,749.22,0.31394,-0.23917,0.91882,-260.89 > view matrix models > #132,-0.95996,0.09282,0.26433,486.8,-0.27538,-0.48597,-0.82946,819.66,0.051465,-0.86903,0.49207,165.68 > view matrix models > #132,-0.99428,0.028444,-0.10295,634.66,0.088005,-0.32805,-0.94055,676.32,-0.060527,-0.94423,0.32367,281.9 > view matrix models > #132,-0.76854,-0.07653,-0.63521,755.57,-0.30452,0.91691,0.25797,42.848,0.56269,0.39169,-0.72799,-31.936 > view matrix models > #132,-0.88657,-0.19963,-0.41731,767.85,-0.32215,0.91383,0.24725,53.406,0.33199,0.35364,-0.87448,107.44 > view matrix models > #132,-0.93418,-0.35561,-0.028984,712.27,-0.35182,0.90461,0.24064,68.864,-0.059356,0.235,-0.97018,313.07 > view matrix models > #132,-0.92732,-0.36829,0.066567,683.88,-0.34236,0.90662,0.24662,63.013,-0.15118,0.20591,-0.96682,353.62 > view matrix models > #132,-0.95986,0.17431,-0.21975,612.86,-0.26194,-0.27681,0.92454,197.8,0.10033,0.94498,0.31136,-371.09 > view matrix models > #132,-0.86487,0.25761,-0.43085,619.2,-0.23035,0.55892,0.79659,-38.658,0.44602,0.78819,-0.42405,-212.21 > view matrix models > #132,-0.76612,0.10849,-0.63348,695.39,0.10295,0.99364,0.045664,-58.456,0.6344,-0.030231,-0.77241,90.779 > view matrix models > #132,-0.76612,0.10849,-0.63348,663.22,0.10295,0.99364,0.045664,-19.993,0.6344,-0.030231,-0.77241,357.59 > fitmap #132 inMap 3131 Invalid ""inMap"" argument: invalid density map specifier > fitmap #132 inMap #131 Fit map cryosparc_P7_J277_001_volume_map.mrc in map cryosparc_P7_J253_002_volume_map.mrc using 33750 points correlation = 0.7771, correlation about mean = 0.2015, overlap = 8560 steps = 548, shift = 38.5, angle = 26.8 degrees Position of cryosparc_P7_J277_001_volume_map.mrc (#132) relative to cryosparc_P7_J253_002_volume_map.mrc (#131) coordinates: Matrix rotation and translation -0.94984629 -0.11179421 -0.29205158 712.99353485 -0.13484771 0.98904986 0.05997073 28.97589079 0.28214918 0.09634547 -0.95452051 478.36072136 Axis 0.06317104 -0.99719933 -0.04003641 Axis point 322.14913164 0.00000000 291.18880246 Rotation angle (degrees) 163.26732481 Shift along axis -3.00603830 > hide #!2 models > view matrix models > #132,-0.94985,-0.11179,-0.29205,654.04,-0.13485,0.98905,0.059971,41.883,0.28215,0.096345,-0.95452,320.47 > view matrix models > #132,-0.94985,-0.11179,-0.29205,648.7,-0.13485,0.98905,0.059971,53.229,0.28215,0.096345,-0.95452,281.08 > view matrix models > #132,-0.94985,-0.11179,-0.29205,637.8,-0.13485,0.98905,0.059971,78.636,0.28215,0.096345,-0.95452,216.35 > volume flip #132 Opened cryosparc_P7_J277_001_volume_map.mrc z flip as #133, grid size 150,150,150, pixel 4.06, shown at step 1, values float32 > select add #133 4 models selected > select subtract #132 2 models selected > view matrix models > #133,-0.98608,-0.1604,-0.04374,593.73,-0.14475,0.95772,-0.24864,181.92,0.081772,-0.23885,-0.96761,397.26 > view matrix models > #133,-0.76395,0.24129,0.59847,200.89,-0.53703,0.27645,-0.79698,696.2,-0.35775,-0.93025,-0.081612,513.86 > view matrix models > #133,-0.53914,0.61551,0.57486,9.6589,-0.79305,-0.14123,-0.59255,859.6,-0.28353,-0.77537,0.56428,250.49 > view matrix models > #133,-0.32583,0.94517,0.021909,-9.269,-0.92495,-0.32348,0.19958,733.38,0.19573,0.044766,0.97964,-299.85 > view matrix models > #133,-0.66934,0.74236,-0.029782,191.25,-0.7378,-0.66887,-0.090895,861.72,-0.087398,-0.038866,0.99542,-178.11 > view matrix models > #133,-0.81721,0.49531,0.29467,227.4,-0.43885,-0.86621,0.23893,723.06,0.37359,0.065938,0.92525,-353.42 > view matrix models > #133,-0.83514,0.39244,0.3854,239.98,-0.26626,-0.90155,0.34105,643.74,0.4813,0.18221,0.85741,-408.56 > view matrix models > #133,-0.99355,0.087137,-0.072524,526.1,-0.075064,-0.02623,0.99683,107.39,0.084959,0.99585,0.032602,-287.28 > view matrix models > #133,-0.99038,-0.13812,0.0088621,572.85,-0.12242,0.90406,0.40949,-0.49375,-0.06457,0.40447,-0.91227,228.34 > view matrix models > #133,-0.98621,-0.1593,0.044905,567.62,-0.14521,0.96301,0.22698,41.944,-0.079401,0.21733,-0.97286,310.66 > view matrix models > #133,-0.87678,-0.39814,0.26971,539.49,-0.32959,0.90592,0.26586,113.73,-0.35018,0.14421,-0.92551,415.52 > view matrix models > #133,-0.90032,-0.38126,0.20994,559.82,-0.267,0.86474,0.42536,58.328,-0.34372,0.32691,-0.88034,342.05 > view matrix models > #133,-0.90032,-0.38126,0.20994,570.68,-0.267,0.86474,0.42536,-18.728,-0.34372,0.32691,-0.88034,558.03 > fitmap #133 inMap #131 Fit map cryosparc_P7_J277_001_volume_map.mrc z flip in map cryosparc_P7_J253_002_volume_map.mrc using 33750 points correlation = 0.8951, correlation about mean = 0.3851, overlap = 1.159e+04 steps = 644, shift = 67.8, angle = 39.4 degrees Position of cryosparc_P7_J277_001_volume_map.mrc z flip (#133) relative to cryosparc_P7_J253_002_volume_map.mrc (#131) coordinates: Matrix rotation and translation -0.98415313 -0.05660863 -0.16804198 672.64626914 -0.05370647 0.99831944 -0.02176908 21.62154561 0.16899189 -0.01239915 -0.98553943 552.04748398 Axis 0.02778938 -0.99957674 0.00860724 Axis point 313.17953004 0.00000000 304.68118915 Rotation angle (degrees) 170.29425047 Shift along axis 1.83163013 > select subtract #133 Nothing selected > hide #!131 models > show #!68 models > color #68 #d0bc6dd6 models > volume #68 level 0.04908 > volume #133 level 0.6908 > hide #!68 models > show #!19 models > volume #19 level 0.8611 > volume #133 level 1.305 Must specify one map, got 0 > fitmap #133 inMap #19 Fit map cryosparc_P7_J277_001_volume_map.mrc z flip in map cryosparc_P7_J171_002_volume_map.mrc using 41518 points correlation = 0.9544, correlation about mean = 0.7823, overlap = 5.318e+05 steps = 52, shift = 4.56, angle = 0.459 degrees Position of cryosparc_P7_J277_001_volume_map.mrc z flip (#133) relative to cryosparc_P7_J171_002_volume_map.mrc (#19) coordinates: Matrix rotation and translation -0.98355160 -0.06456502 -0.16869387 679.54031276 -0.06152925 0.99783637 -0.02316712 24.86525566 0.16982466 -0.01240644 -0.98539618 550.75433240 Axis 0.03177025 -0.99945501 0.00896293 Axis point 316.66578643 0.00000000 304.48179078 Rotation angle (degrees) 170.24988048 Shift along axis 1.67383542 > hide #!19 models > show #!19 models > hide #!19 models > show #!19 models > hide #!19 models > show #!19 models > hide #!19 models > show #!19 models > volume #133 level 1.367 > volume #133 level 1.428 > volume #133 level 1.459 > volume #133 level 1.52 > volume #133 level 1.551 > volume #133 level 1.582 > volume #133 level 1.674 > volume #133 level 1.704 > volume #133 level 1.735 > volume #133 level 1.766 > volume #133 level 1.735 > volume #133 level 1.674 > volume #133 level 1.643 > volume #133 level 1.582 > volume #133 level 1.52 > volume #133 level 1.489 > volume #133 level 1.459 > volume #133 level 1.428 > volume #133 level 1.305 > volume #133 level 1.244 > volume #133 level 1.213 > volume #133 level 1.152 > volume #133 level 1.09 > volume #133 level 1.059 > volume #133 level 0.8137 > volume #133 level 0.7829 > volume #133 level 0.7522 > volume #133 level 0.7215 > volume #133 level 0.6908 > volume #133 level 0.7215 > volume #133 level 0.7522 > volume #133 level 0.7829 > volume #19 level 0.5749 > hide #!133 models > show #!133 models > hide #!133 models > show #!133 models > hide #!19 models > show #!29 models > hide #!29 models > color #133 #b2b2b2e2 models > color #133 #92bf7ee2 models > color #133 #92bf7edc models > color #133 #92bf7edb models > show #!29 models > color #133 #7bc7bcdb models > color #133 #7bc7bce6 models > color #133 #8be1d5e6 models > color #133 #8be1d5af models > color #133 #8be1d5b0 models > hide #!29 models > show #!30 models > hide #!30 models > show #!31 models > hide #!31 models > show #!32 models > hide #!32 models > show #!33 models > hide #!33 models > show #!34 models > hide #!34 models > show #!35 models > show #!36 models > hide #!35 models > hide #!36 models > show #!37 models > hide #!37 models > show #!38 models > hide #!38 models > show #!52 models > hide #!52 models > show #!45 models > hide #!45 models > show #!3 models > hide #!3 models > show #!4 models > hide #!4 models > show #!2 models > hide #!2 models > show #!19 models > combine #133 No structures specified > vop add #133 Opened cryosparc_P7_J277_001_volume_map.mrc z flip resampled as #134, grid size 150,150,150, pixel 4.06, shown at step 1, values float32 > select add #134 2 models selected > view matrix models > #134,-0.93264,0.35963,0.028994,475.37,-0.29947,-0.81644,0.49371,496.94,0.20123,0.45177,0.86914,-155.06 > color #134 #b2ffffc5 models > color #134 #b2ffffc4 models > view matrix models > #134,-0.93264,0.35963,0.028994,473.88,-0.29947,-0.81644,0.49371,662.61,0.20123,0.45177,0.86914,34.895 > volume #19 level 0.783 > view matrix models > #134,-0.92275,-0.37604,-0.084366,728.88,-0.29023,0.82207,-0.48986,454.63,0.25356,-0.42753,-0.86771,806.02 > view matrix models > #134,-0.95276,-0.28386,-0.10802,717.18,0.24508,-0.50846,-0.82547,794.32,0.1794,-0.81295,0.55401,521.28 > hide #!134 models > show #!133 models > select subtract #134 Nothing selected > show #!3 models > show #!29 models > hide #!29 models > hide #!133 models > show #!133 models > hide #!133 models > show #!133 models > hide #!133 models > show #!133 models > hide #!133 models > show #!134 models > hide #!134 models > show #!133 models > volume #133 level 0.5986 > show #!2 models > volume #19 level 0.4448 > hide #!2 models > hide #!3 models > hide #!133 models > show #!133 models > hide #!133 models > volume #19 level 0.3667 > show #!133 models > hide #!133 models > volume #19 level 0.809 > show #!133 models > hide #!133 models > show #!133 models > hide #!133 models > show #!133 models > volume #19 level 0.4968 > hide #!133 models > show #!133 models > hide #!133 models > show #!133 models > hide #!133 models > show #!133 models > show #!2 models > volume #134 level 0.9672 > volume #133 level 0.9058 > volume #133 level 0.6294 > volume #133 level 0.5372 > show #!3 models > show #!29 models > hide #!29 models > show #!59 models > open /Users/dmitrii.shiriaev/Downloads/cryosparc_P7_J280_map.mrc Opened cryosparc_P7_J280_map.mrc as #135, grid size 128,128,128, pixel 4.76, shown at level 2.1, step 1, values float32 > fitmap #135 inMap #19 Fit map cryosparc_P7_J280_map.mrc in map cryosparc_P7_J171_002_volume_map.mrc using 20971 points correlation = 0.6897, correlation about mean = 0.2323, overlap = 2.192e+05 steps = 148, shift = 18, angle = 23.3 degrees Position of cryosparc_P7_J280_map.mrc (#135) relative to cryosparc_P7_J171_002_volume_map.mrc (#19) coordinates: Matrix rotation and translation 0.91926652 0.14626098 0.36545422 -128.89016958 -0.15894189 0.98727685 0.00467877 38.58795569 -0.36012017 -0.06238702 0.93081755 134.76673598 Axis -0.08489308 0.91844506 -0.38633126 Axis point 287.90562574 0.00000000 417.60671571 Rotation angle (degrees) 23.26606926 Shift along axis -5.68180199 > fitmap #135 inMap #19 Fit map cryosparc_P7_J280_map.mrc in map cryosparc_P7_J171_002_volume_map.mrc using 20971 points correlation = 0.6897, correlation about mean = 0.2324, overlap = 2.192e+05 steps = 64, shift = 0.0248, angle = 0.0567 degrees Position of cryosparc_P7_J280_map.mrc (#135) relative to cryosparc_P7_J171_002_volume_map.mrc (#19) coordinates: Matrix rotation and translation 0.91893345 0.14702829 0.36598359 -129.18776556 -0.15967763 0.98715962 0.00435189 38.96468655 -0.36064437 -0.06243849 0.93061113 135.01394355 Axis -0.08438150 0.91800584 -0.38748554 Axis point 287.86893170 0.00000000 418.05329833 Rotation angle (degrees) 23.31365279 Shift along axis -5.64508376 > select add #135 2 models selected > view matrix models > #135,0.91893,0.14703,0.36598,-220.48,-0.15968,0.98716,0.0043519,37.687,-0.36064,-0.062438,0.93061,-106.61 > view matrix models > #135,0.78532,-0.06657,-0.6155,167.61,0.093066,-0.97021,0.22368,472.94,-0.61205,-0.23294,-0.75573,509.05 > view matrix models > #135,0.78532,-0.06657,-0.6155,304.88,0.093066,-0.97021,0.22368,480.97,-0.61205,-0.23294,-0.75573,741.1 > view matrix models > #135,0.78532,-0.06657,-0.6155,286.08,0.093066,-0.97021,0.22368,498.09,-0.61205,-0.23294,-0.75573,766.26 > view matrix models > #135,0.78844,-0.10315,-0.6064,293.17,0.061286,-0.96776,0.2443,499.83,-0.61205,-0.22978,-0.7567,765.63 > view matrix models > #135,0.99071,-0.024048,-0.13383,76.084,-0.01786,-0.99872,0.047249,588.36,-0.13479,-0.04442,-0.98988,652.35 > view matrix models > #135,0.99071,-0.024048,-0.13383,62.591,-0.01786,-0.99872,0.047249,593.97,-0.13479,-0.04442,-0.98988,657.04 > fitmap #135 inMap #19 Fit map cryosparc_P7_J280_map.mrc in map cryosparc_P7_J171_002_volume_map.mrc using 20971 points correlation = 0.953, correlation about mean = 0.7095, overlap = 3.922e+05 steps = 60, shift = 7.94, angle = 6.24 degrees Position of cryosparc_P7_J280_map.mrc (#135) relative to cryosparc_P7_J171_002_volume_map.mrc (#19) coordinates: Matrix rotation and translation 0.98405605 0.06240571 -0.16655082 41.74872208 0.05949021 -0.99797657 -0.02244203 595.73817087 -0.16761433 0.01217607 -0.98577743 650.07555665 Axis 0.99600573 0.03059848 -0.08388279 Axis point 0.00000000 294.38999861 329.39392473 Rotation angle (degrees) 179.00423720 Shift along axis 5.28049882 > open /Users/dmitrii.shiriaev/Downloads/cryosparc_P7_J281_002_volume_map.mrc Opened cryosparc_P7_J281_002_volume_map.mrc as #136, grid size 600,600,600, pixel 1.02, shown at level 0.0555, step 4, values float32 > fitmap #136 inMap #19 Fit map cryosparc_P7_J281_002_volume_map.mrc in map cryosparc_P7_J171_002_volume_map.mrc using 33738 points correlation = 0.6799, correlation about mean = 0.222, overlap = 8724 steps = 132, shift = 18.5, angle = 21.3 degrees Position of cryosparc_P7_J281_002_volume_map.mrc (#136) relative to cryosparc_P7_J171_002_volume_map.mrc (#19) coordinates: Matrix rotation and translation 0.93265540 0.10504917 0.34513560 -114.38838945 -0.11885373 0.99272960 0.01901906 19.32033986 -0.34062839 -0.05875888 0.93836011 124.39918006 Axis -0.10719540 0.94513619 -0.30858828 Axis point 287.50960121 0.00000000 389.97366638 Rotation angle (degrees) 21.27138053 Shift along axis -7.86586748 > fitmap #136 inMap #19 Fit map cryosparc_P7_J281_002_volume_map.mrc in map cryosparc_P7_J171_002_volume_map.mrc using 33738 points correlation = 0.6799, correlation about mean = 0.2221, overlap = 8724 steps = 44, shift = 0.0216, angle = 0.0579 degrees Position of cryosparc_P7_J281_002_volume_map.mrc (#136) relative to cryosparc_P7_J171_002_volume_map.mrc (#19) coordinates: Matrix rotation and translation 0.93242901 0.10597733 0.34546338 -114.70007483 -0.11975036 0.99262777 0.01870726 19.73320009 -0.34093400 -0.05881256 0.93824575 124.54511808 Axis -0.10667266 0.94453058 -0.31061701 Axis point 287.42902770 0.00000000 390.64994489 Rotation angle (degrees) 21.30630227 Shift along axis -7.81185942 > select add #136 4 models selected > select subtract #135 2 models selected > view matrix models > #136,0.92765,0.19841,0.31638,-131.65,-0.11315,0.9567,-0.26819,114.08,-0.35589,0.21299,0.90993,57.867 > view matrix models > #136,0.92146,0.34793,0.17279,-130.66,-0.08562,0.61574,-0.78328,359.75,-0.37892,0.70697,0.59717,13.581 > view matrix models > #136,0.87462,0.48397,0.028558,-115.16,-0.10044,0.2385,-0.96593,527.62,-0.4743,0.84195,0.25721,100.21 > view matrix models > #136,0.83463,0.53877,-0.11457,-78.134,-0.080894,-0.085858,-0.99302,624.92,-0.54484,0.83807,-0.028076,204.51 > view matrix models > #136,0.76277,0.49265,-0.4189,44.451,0.03009,-0.67412,-0.73801,691.31,-0.64597,0.55033,-0.52902,463.44 > view matrix models > #136,0.77662,0.52122,-0.35383,13.195,-0.0016261,-0.56,-0.82849,693.28,-0.62997,0.64399,-0.43406,403.8 > view matrix models > #136,0.75527,0.47047,-0.45631,63.974,0.050782,-0.73614,-0.67493,685.21,-0.65344,0.48658,-0.57988,499.04 > view matrix models > #136,0.75527,0.47047,-0.45631,66.918,0.050782,-0.73614,-0.67493,706.9,-0.65344,0.48658,-0.57988,512.04 > fitmap #136 inMap #19 Fit map cryosparc_P7_J281_002_volume_map.mrc in map cryosparc_P7_J171_002_volume_map.mrc using 33738 points correlation = 0.9581, correlation about mean = 0.7413, overlap = 1.616e+04 steps = 188, shift = 20.1, angle = 49.8 degrees Position of cryosparc_P7_J281_002_volume_map.mrc (#136) relative to cryosparc_P7_J171_002_volume_map.mrc (#19) coordinates: Matrix rotation and translation 0.98355870 0.06394349 -0.16888901 42.14471756 0.06090406 -0.99787579 -0.02312139 595.49777858 -0.17000872 0.01245522 -0.98536384 650.69914706 Axis 0.99588088 0.03134346 -0.08508154 Axis point 0.00000000 294.16573558 329.81950638 Rotation angle (degrees) 178.97653503 Shift along axis 5.27359445 > hide #!133 models > select subtract #136 Nothing selected > hide #!135 models > show #!68 models > hide #!3 models > hide #!2 models > volume #136 level 0.03981 > volume #136 level 0.05455 > volume #68 level 0.04117 > show #!134 models > hide #!134 models > show #!133 models > volume #133 level 1.336 > volume #136 level 0.03391 > hide #!133 models > volume #68 level 0.03128 > volume #68 level 0.04809 > volume #136 step 1 > volume #136 level 0.04044 > volume #136 level 0.05023 > volume #136 level 0.06656 > open /Users/dmitrii.shiriaev/Downloads/cryosparc_P7_J281_007_volume_map.mrc Opened cryosparc_P7_J281_007_volume_map.mrc as #137, grid size 600,600,600, pixel 1.02, shown at level 0.0549, step 4, values float32 > hide #!59 models > hide #!136 models > color #137 #80f7e7ff models > select add #137 2 models selected > view matrix models #137,1,0,0,0.58023,0,1,0,-1.4263,0,0,1,1.9977 > view matrix models > #137,0.99698,-0.020053,-0.074988,29.548,0.040097,0.96023,0.27632,-82.73,0.066465,-0.27849,0.95814,77.986 > view matrix models > #137,0.98658,-0.016436,-0.16248,57.3,0.10562,0.82304,0.55807,-144.01,0.12455,-0.56774,0.81373,189.86 > fitmap #137 inMap #19 Fit map cryosparc_P7_J281_007_volume_map.mrc in map cryosparc_P7_J171_002_volume_map.mrc using 33746 points correlation = 0.6723, correlation about mean = 0.1571, overlap = 8752 steps = 132, shift = 4.79, angle = 24.3 degrees Position of cryosparc_P7_J281_007_volume_map.mrc (#137) relative to cryosparc_P7_J171_002_volume_map.mrc (#19) coordinates: Matrix rotation and translation 0.96536412 0.14460287 0.21716838 -102.51643518 -0.23467328 0.84499542 0.48053220 -26.56733063 -0.11401995 -0.51485217 0.84966269 231.16533007 Axis -0.89232632 0.29689844 -0.34000744 Axis point 0.00000000 397.77899411 186.68286528 Rotation angle (degrees) 33.90011972 Shift along axis 4.99238227 > view matrix models > #137,0.87587,0.21705,0.43098,-163.7,-0.16382,0.97383,-0.15752,107.33,-0.45389,0.067364,0.88851,139.76 > view matrix models > #137,0.87587,0.21705,0.43098,-157.63,-0.16382,0.97383,-0.15752,105.37,-0.45389,0.067364,0.88851,167.5 > view matrix models > #137,0.87587,0.21705,0.43098,-159.27,-0.16382,0.97383,-0.15752,107.87,-0.45389,0.067364,0.88851,163.25 > view matrix models > #137,0.63941,0.7613,0.10762,-158.99,0.75502,-0.59527,-0.27494,357.25,-0.14525,0.25705,-0.95542,575.97 > view matrix models > #137,0.63941,0.7613,0.10762,-156.4,0.75502,-0.59527,-0.27494,338.75,-0.14525,0.25705,-0.95542,558.66 > fitmap #137 inMap #19 Fit map cryosparc_P7_J281_007_volume_map.mrc in map cryosparc_P7_J171_002_volume_map.mrc using 33746 points correlation = 0.9544, correlation about mean = 0.7326, overlap = 1.628e+04 steps = 200, shift = 7.84, angle = 50.4 degrees Position of cryosparc_P7_J281_007_volume_map.mrc (#137) relative to cryosparc_P7_J171_002_volume_map.mrc (#19) coordinates: Matrix rotation and translation 0.98348429 0.06479498 -0.16899826 42.01742065 0.06182005 -0.99782667 -0.02281133 595.05380761 -0.17010903 0.01198709 -0.98535240 650.87370964 Axis 0.99586208 0.03178804 -0.08513655 Axis point 0.00000000 293.99934022 329.84227071 Rotation angle (degrees) 178.99890551 Shift along axis 5.34600967 > select subtract #137 Nothing selected > volume #137 level 0.04045 > volume #137 level 0.02394 > open /Users/dmitrii.shiriaev/Downloads/cryosparc_P7_J286_006_volume_map.mrc Opened cryosparc_P7_J286_006_volume_map.mrc as #138, grid size 600,600,600, pixel 1.02, shown at level 0.0562, step 4, values float32 > hide #!137 models > hide #!68 models > volume #138 level 0.03356 > volume #138 step 1 > volume #138 level 0.05774 > volume #138 level 0.0928 > show #!1 models > hide #!1 models > show #!4 models > hide #!4 models > show #!68 models > volume #138 step 4 > volume #138 level 0.04971 > volume #138 level 0.03463 > show #!84 models > show #!83 models > hide #!84 models > hide #!138 models > show #!132 models > hide #!132 models > show #!134 models > hide #!134 models > show #!133 models > hide #!83 models > hide #!68 models > show #!68 models > ui mousemode right ""translate selected models"" > ui mousemode right zoom > volume #133 level 1.059 > hide #!68 models > show #!29 models > volume #68 step 8 > volume #68 level 0.04019 > open > /Users/dmitrii.shiriaev/Downloads/cryosparc_P7_J290_class_05_00030_volume.mrc Opened cryosparc_P7_J290_class_05_00030_volume.mrc as #139, grid size 256,256,256, pixel 2.38, shown at level 0.202, step 1, values float32 > open > /Users/dmitrii.shiriaev/Downloads/cryosparc_P7_J290_class_04_00030_volume.mrc Opened cryosparc_P7_J290_class_04_00030_volume.mrc as #140, grid size 256,256,256, pixel 2.38, shown at level 0.223, step 1, values float32 > open > /Users/dmitrii.shiriaev/Downloads/cryosparc_P7_J290_class_03_00030_volume.mrc Opened cryosparc_P7_J290_class_03_00030_volume.mrc as #141, grid size 256,256,256, pixel 2.38, shown at level 0.205, step 1, values float32 > open > /Users/dmitrii.shiriaev/Downloads/cryosparc_P7_J290_class_02_00030_volume.mrc Opened cryosparc_P7_J290_class_02_00030_volume.mrc as #142, grid size 256,256,256, pixel 2.38, shown at level 0.217, step 1, values float32 > open > /Users/dmitrii.shiriaev/Downloads/cryosparc_P7_J290_class_01_00030_volume.mrc Opened cryosparc_P7_J290_class_01_00030_volume.mrc as #143, grid size 256,256,256, pixel 2.38, shown at level 0.219, step 1, values float32 > open > /Users/dmitrii.shiriaev/Downloads/cryosparc_P7_J290_class_00_00030_volume.mrc Opened cryosparc_P7_J290_class_00_00030_volume.mrc as #144, grid size 256,256,256, pixel 2.38, shown at level 0.223, step 1, values float32 > hide #!29 models > show #!134 models > hide #!133 models > hide #!134 models > volume #144 level 0.3132 > hide #!68 models > volume #139 level 0.2426 > volume #139 level 0.2022 > volume #141 level 0.2594 > volume #143 color #f969ff > volume #144 color #6dfe6f > volume #144 level 0.1785 > volume #143 level 0.1966 > volume #142 level 0.1802 > volume #141 level 0.1792 > volume #141 level 0.4031 > volume #141 level 0.289 > volume #140 level 0.1474 > volume #139 color #6a5be6 > volume #139 level 0.1619 > volume #139 level 0.3031 > volume #140 level 0.2261 > volume #141 level 0.4031 > volume #142 level 0.2909 > volume #143 level 0.3325 > volume #144 level 0.2715 > volume #140 level 0.3561 > volume #144 level 0.3453 > volume #139 level 0.3717 > volume #144 level 0.371 > volume #143 level 0.3692 > volume #142 level 0.3178 > volume #141 level 0.4792 > volume #140 level 0.3835 > volume #139 level 0.4281 > show #!3 models > volume #139 level 0.2829 > hide #!3 models > show #!59 models > volume #141 level 0.3059 > volume #139 level 0.2305 > volume #141 level 0.2679 > volume #140 level 0.1987 > volume #142 level 0.2306 > volume #143 level 0.2554 > volume #144 level 0.2587 Unsupported scale factor (0.000000) detected on Display0 QPainter::begin: Paint device returned engine == 0, type: 3 ===== Log before crash end ===== Log: Startup Messages --- warning | Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR bundle with that from NMRSTAR bundle UCSF ChimeraX version: 1.6.1 (2023-05-09) © 2016-2023 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX OpenGL version: 4.1 ATI-7.0.3 OpenGL renderer: AMD Radeon Pro 5300M OpenGL Engine OpenGL vendor: ATI Technologies Inc. Python: 3.9.11 Locale: en_US.UTF-8 Qt version: PyQt6 6.4.2, Qt 6.4.2 Qt runtime version: 6.4.3 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Pro Model Identifier: MacBookPro16,1 Processor Name: 6-Core Intel Core i7 Processor Speed: 2,6 GHz Number of Processors: 1 Total Number of Cores: 6 L2 Cache (per Core): 256 KB L3 Cache: 12 MB Hyper-Threading Technology: Enabled Memory: 64 GB System Firmware Version: 2075.120.2.0.0 (iBridge: 22.16.15072.0.0,0) OS Loader Version: 583~1350 Software: System Software Overview: System Version: macOS 15.5 (24F74) Kernel Version: Darwin 24.5.0 Time since boot: 2 days, 23 hours, 41 minutes Graphics/Displays: Intel UHD Graphics 630: Chipset Model: Intel UHD Graphics 630 Type: GPU Bus: Built-In VRAM (Dynamic, Max): 1536 MB Vendor: Intel Device ID: 0x3e9b Revision ID: 0x0000 Automatic Graphics Switching: Supported gMux Version: 5.0.0 Metal Support: Metal 3 AMD Radeon Pro 5300M: Chipset Model: AMD Radeon Pro 5300M Type: GPU Bus: PCIe PCIe Lane Width: x16 VRAM (Total): 4 GB Vendor: AMD (0x1002) Device ID: 0x7340 Revision ID: 0x0043 ROM Revision: 113-D3220E-190 VBIOS Version: 113-D32207P1-019 Option ROM Version: 113-D32207P1-019 EFI Driver Version: 01.A1.190 Automatic Graphics Switching: Supported gMux Version: 5.0.0 Metal Support: Metal 3 Displays: Color LCD: Display Type: Built-In Retina LCD Resolution: 3072 x 1920 Retina Framebuffer Depth: 24-Bit Color (ARGB8888) Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: Yes Connection Type: Internal VG272U V: Resolution: 2560 x 1440 (QHD/WQHD - Wide Quad High Definition) UI Looks like: 2560 x 1440 @ 59.00Hz Framebuffer Depth: 30-Bit Color (ARGB2101010) Display Serial Number: 3107183DA4201 Mirror: Off Online: Yes Rotation: Supported Connection Type: DVI or HDMI Adapter Firmware Version: 2,55 Installed Packages: alabaster: 0.7.13 appdirs: 1.4.4 appnope: 0.1.3 asttokens: 2.2.1 Babel: 2.12.1 backcall: 0.2.0 beautifulsoup4: 4.11.2 blockdiag: 3.0.0 build: 0.10.0 certifi: 2021.10.8 cftime: 1.6.2 charset-normalizer: 3.1.0 ChimeraX-AddCharge: 1.5.9.1 ChimeraX-AddH: 2.2.5 ChimeraX-AlignmentAlgorithms: 2.0.1 ChimeraX-AlignmentHdrs: 3.3.1 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 2.9.3 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.0.3 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.1 ChimeraX-Atomic: 1.43.10 ChimeraX-AtomicLibrary: 10.0.6 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.3.2 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: 2.8 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.2.2 ChimeraX-ButtonPanel: 1.0.1 ChimeraX-CageBuilder: 1.0.1 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.3.2 ChimeraX-ChangeChains: 1.0.2 ChimeraX-CheckWaters: 1.3.1 ChimeraX-ChemGroup: 2.0.1 ChimeraX-Clashes: 2.2.4 ChimeraX-ColorActions: 1.0.3 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.3 ChimeraX-CommandLine: 1.2.5 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.6.1 ChimeraX-CoreFormats: 1.1 ChimeraX-coulombic: 1.4.2 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0.1 ChimeraX-DataFormats: 1.2.3 ChimeraX-Dicom: 1.2 ChimeraX-DistMonitor: 1.4 ChimeraX-DockPrep: 1.1.1 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: 1.2.1 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: 1.1.4 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: 2.0.12 ChimeraX-MDcrds: 2.6 ChimeraX-MedicalToolbar: 1.0.2 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.12 ChimeraX-MMTF: 2.2 ChimeraX-Modeller: 1.5.9 ChimeraX-ModelPanel: 1.3.7 ChimeraX-ModelSeries: 1.0.1 ChimeraX-Mol2: 2.0 ChimeraX-Mole: 1.0 ChimeraX-Morph: 1.0.2 ChimeraX-MouseModes: 1.2 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nifti: 1.0 ChimeraX-NRRD: 1.0 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.10.1 ChimeraX-PDB: 2.7.2 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-RenderByAttr: 1.1 ChimeraX-RenumberResidues: 1.1 ChimeraX-ResidueFit: 1.0.1 ChimeraX-RestServer: 1.1 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 3.0 ChimeraX-RotamerLibsDunbrack: 2.0 ChimeraX-RotamerLibsDynameomics: 2.0 ChimeraX-RotamerLibsRichardson: 2.0 ChimeraX-SaveCommand: 1.5.1 ChimeraX-SchemeMgr: 1.0 ChimeraX-SDF: 2.0.1 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0.1 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.8.3 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: 1.10.3 ChimeraX-STL: 1.0.1 ChimeraX-Storm: 1.0 ChimeraX-StructMeasure: 1.1.2 ChimeraX-Struts: 1.0.1 ChimeraX-Surface: 1.0.1 ChimeraX-SwapAA: 2.0.1 ChimeraX-SwapRes: 2.2.1 ChimeraX-TapeMeasure: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.1.2 ChimeraX-ToolshedUtils: 1.2.1 ChimeraX-Topography: 1.0 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.28.4 ChimeraX-uniprot: 2.2.2 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.2 ChimeraX-VIPERdb: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0.1 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0.2 ChimeraX-WebServices: 1.1.1 ChimeraX-Zone: 1.0.1 colorama: 0.4.6 comm: 0.1.3 contourpy: 1.0.7 cxservices: 1.2.2 cycler: 0.11.0 Cython: 0.29.33 debugpy: 1.6.7 decorator: 5.1.1 docutils: 0.19 executing: 1.2.0 filelock: 3.9.0 fonttools: 4.39.3 funcparserlib: 1.0.1 grako: 3.16.5 h5py: 3.8.0 html2text: 2020.1.16 idna: 3.4 ihm: 0.35 imagecodecs: 2022.2.22 imagesize: 1.4.1 importlib-metadata: 6.6.0 ipykernel: 6.21.1 ipython: 8.10.0 ipython-genutils: 0.2.0 ipywidgets: 8.0.6 jedi: 0.18.2 Jinja2: 3.1.2 jupyter-client: 8.0.2 jupyter-core: 5.3.0 jupyterlab-widgets: 3.0.7 kiwisolver: 1.4.4 line-profiler: 4.0.2 lxml: 4.9.2 lz4: 4.3.2 MarkupSafe: 2.1.2 matplotlib: 3.6.3 matplotlib-inline: 0.1.6 msgpack: 1.0.4 nest-asyncio: 1.5.6 netCDF4: 1.6.2 networkx: 2.8.8 nibabel: 5.0.1 nptyping: 2.5.0 numexpr: 2.8.4 numpy: 1.23.5 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: 9.3.0 pip: 23.0 pkginfo: 1.9.6 platformdirs: 3.5.0 prompt-toolkit: 3.0.38 psutil: 5.9.4 ptyprocess: 0.7.0 pure-eval: 0.2.2 pycollada: 0.7.2 pydicom: 2.3.0 Pygments: 2.14.0 pynrrd: 1.0.0 PyOpenGL: 3.1.5 PyOpenGL-accelerate: 3.1.5 pyparsing: 3.0.9 pyproject-hooks: 1.0.0 PyQt6-commercial: 6.4.2 PyQt6-Qt6: 6.4.3 PyQt6-sip: 13.4.1 PyQt6-WebEngine-commercial: 6.4.0 PyQt6-WebEngine-Qt6: 6.4.3 python-dateutil: 2.8.2 pytz: 2023.3 pyzmq: 25.0.2 qtconsole: 5.4.0 QtPy: 2.3.1 RandomWords: 0.4.0 requests: 2.28.2 scipy: 1.9.3 setuptools: 67.4.0 setuptools-scm: 7.0.5 sfftk-rw: 0.7.3 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 soupsieve: 2.4.1 sphinx: 6.1.3 sphinx-autodoc-typehints: 1.22 sphinxcontrib-applehelp: 1.0.4 sphinxcontrib-blockdiag: 3.0.0 sphinxcontrib-devhelp: 1.0.2 sphinxcontrib-htmlhelp: 2.0.1 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.3 sphinxcontrib-serializinghtml: 1.1.5 stack-data: 0.6.2 tables: 3.7.0 tcia-utils: 1.2.0 tifffile: 2022.10.10 tinyarray: 1.2.4 tomli: 2.0.1 tornado: 6.3.1 traitlets: 5.9.0 typing-extensions: 4.5.0 tzdata: 2023.3 urllib3: 1.26.15 wcwidth: 0.2.6 webcolors: 1.12 wheel: 0.38.4 wheel-filename: 1.4.1 widgetsnbextension: 4.0.7 zipp: 3.15.0 }}} " defect closed normal Window Toolkit duplicate Tom Goddard all ChimeraX