id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 18614 Session restore/reset: 'ClipCap' object has no attribute 'was_deleted' chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: macOS-10.16-x86_64-i386-64bit ChimeraX Version: 1.2.5 (2021-05-24 04:13:57 UTC) Description (Describe the actions that caused this problem to occur here) Log: UCSF ChimeraX version: 1.2.5 (2021-05-24) © 2016-2021 Regents of the University of California. All rights reserved. > open ""/Users/wangxuehui/Desktop/figure/figure 1/fig1c 正面pocket.cxs"" Error opening map ""/Users/wangxuehui/Desktop/figure/figure 1/fig1c 正面pocket.cxs"": File fig1c 正面pocket.cxs, format mrc MRC header value nsymbt (15866409) is invalid restore_snapshot for ""Volume"" returned None restore_snapshot for ""VolumeSurface"" returned None Opened 2.mrc zone as #5, grid size 256,256,256, pixel 0.85, shown at level 0.0911, step 1, values float32 Log from Thu Dec 26 15:59:39 2024UCSF ChimeraX version: 1.2.5 (2021-05-24) © 2016-2021 Regents of the University of California. All rights reserved. > open ""/Users/wangxuehui/Desktop/figure/figure 1/fig 1c pocket 正面.cxs"" Opened 2.mrc as #3, grid size 256,256,256, pixel 0.85, shown at level 0.0906, step 1, values float32 Opened 2.mrc zone as #5, grid size 256,256,256, pixel 0.85, shown at level 0.0911, step 1, values float32 Log from Mon Dec 16 17:35:49 2024UCSF ChimeraX version: 1.2.5 (2021-05-24) © 2016-2021 Regents of the University of California. All rights reserved. > open ""/Users/wangxuehui/Desktop/figure/figure 1/fig 1c pocket 正面.cxs"" Opened 2.mrc as #3, grid size 256,256,256, pixel 0.85, shown at level 0.0906, step 1, values float32 Opened 2.mrc zone as #5, grid size 256,256,256, pixel 0.85, shown at level 0.0911, step 1, values float32 Log from Thu Oct 24 09:12:46 2024UCSF ChimeraX version: 1.2.5 (2021-05-24) © 2016-2021 Regents of the University of California. All rights reserved. > open ""/Users/wangxuehui/Desktop/figure/figure 1/fig 1c pocket 正面.cxs"" format > session Opened 2.mrc as #3, grid size 256,256,256, pixel 0.85, shown at level 0.0906, step 1, values float32 Opened 2.mrc zone as #5, grid size 256,256,256, pixel 0.85, shown at level 0.0911, step 1, values float32 Log from Thu Oct 24 09:08:51 2024UCSF ChimeraX version: 1.2.5 (2021-05-24) © 2016-2021 Regents of the University of California. All rights reserved. > open ""/Users/wangxuehui/Desktop/figure/figure 1/fig 1c pocket 正面.cxs"" format > session Opened 2.mrc as #3, grid size 256,256,256, pixel 0.85, shown at level 0.0906, step 1, values float32 Opened 2.mrc zone as #5, grid size 256,256,256, pixel 0.85, shown at level 0.0911, step 1, values float32 Log from Thu Oct 24 09:06:28 2024UCSF ChimeraX version: 1.2.5 (2021-05-24) © 2016-2021 Regents of the University of California. All rights reserved. > open ""/Users/wangxuehui/Desktop/figure/figure 1/fig.cxs"" format session Opened 2.mrc as #3, grid size 256,256,256, pixel 0.85, shown at level 0.0906, step 1, values float32 Opened 2.mrc zone as #5, grid size 256,256,256, pixel 0.85, shown at level 0.0911, step 1, values float32 Log from Wed Oct 23 21:56:23 2024UCSF ChimeraX version: 1.2.5 (2021-05-24) © 2016-2021 Regents of the University of California. All rights reserved. > open ""/Users/wangxuehui/Desktop/figure/figure 1/fig1c-cp55940-map.cxs"" > format session Opened 2.mrc as #3, grid size 256,256,256, pixel 0.85, shown at level 0.0317, step 1, values float32 Opened 2.mrc zone as #5, grid size 256,256,256, pixel 0.85, shown at level 0.0911, step 1, values float32 Log from Wed Oct 23 17:59:13 2024UCSF ChimeraX version: 1.2.5 (2021-05-24) © 2016-2021 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open /Users/wangxuehui/Desktop/CB2文章图/cp55940-molecule.pdb > open /Users/wangxuehui/Desktop/CB2结构/1.pdb Chain information for 1.pdb #2 --- Chain | Description A | No description available B | No description available C | No description available R | No description available > open /Users/wangxuehui/Desktop/CB2结构/2.mrc Opened 2.mrc as #3, grid size 256,256,256, pixel 0.85, shown at level 0.0317, step 1, values float32 > volume #3 level 0.03358 > volume #3 level 0.03739 > volume #3 level 0.0393 > volume #3 level 0.04121 > volume #3 level 0.04311 > volume #3 level 0.04502 > hide #1 models > fitmap #2 inMap #3 Fit molecule 1.pdb (#2) to map 2.mrc (#3) using 7082 atoms average map value = 0.1306, steps = 44 shifted from previous position = 0.0164 rotated from previous position = 0.00859 degrees atoms outside contour = 1337, contour level = 0.045019 Position of 1.pdb (#2) relative to 2.mrc (#3) coordinates: Matrix rotation and translation 0.99999999 -0.00004761 0.00010951 -0.00341177 0.00004760 0.99999999 0.00009057 0.00294440 -0.00010951 -0.00009057 0.99999999 0.02230555 Axis -0.60432270 0.73068845 0.31762945 Axis point 170.91530182 0.00000000 -31.18268291 Rotation angle (degrees) 0.00858703 Shift along axis 0.01129815 > show #1 models > surface dust #3 size 8.5 Fit in map shortcut requires 1 displayed atomic model and 1 map or two maps, got 2 atomic models, 1 maps. > zone > volume > zone #1 [ residueDistance dr ] [ labelDistance dl ] [ surfaceDistance ds ] [ > label true | false ] [ ribbons true | false ] Expected a keyword > zone #1 [ residueDistance 3.5 ] [ labelDistance dl ] [ surfaceDistance 3.5 ] > [ label true ribbons true Expected a keyword > zone #1 [ residueDistance 3.5 ] [ labelDistance dl ] [ surfaceDistance 3.5 ] > label true ribbons true Expected a keyword > volume zone #3 nearAtoms #2 range 3.5 newMap true Opened 2.mrc zone as #4, grid size 256,256,256, pixel 0.85, shown at step 1, values float32 > hide #!2 models > volume zone #3 nearAtoms #1 range 3.5 newMap true Opened 2.mrc zone as #5, grid size 256,256,256, pixel 0.85, shown at step 1, values float32 > hide #!4 models > volume zone #3 nearAtoms #1 range 4 newMap true Opened 2.mrc zone as #6, grid size 256,256,256, pixel 0.85, shown at step 1, values float32 > hide #!5 models > show #!5 models > select #5 2 models selected > close #5 > select #6 2 models selected > hide #!6 models > close #6 > close #4 > volume zone #3 nearAtoms #1 range 4 newMap true Opened 2.mrc zone as #4, grid size 256,256,256, pixel 0.85, shown at step 1, values float32 > volume #4 level 0.04704 > volume #4 level 0.04805 > volume #4 level 0.01572 > surface dust #4 size 8.5 > volume #4 level 0.03795 > volume #4 style mesh > volume #4 level 0.03896 > volume #4 level 0.03997 > volume #4 level 0.04098 > volume #4 level 0.043 > volume #4 level 0.04401 > volume #4 level 0.04502 > volume #4 level 0.04603 > volume #4 level 0.04704 > volume #4 level 0.04805 > volume #4 level 0.04906 > volume #4 level 0.05007 > volume #4 level 0.05108 > volume #4 level 0.05209 > volume #4 level 0.0531 > volume #4 level 0.05411 > volume #4 level 0.05512 > volume #4 level 0.05613 > volume #4 level 0.05714 > volume #4 level 0.05815 > volume #4 level 0.05916 > volume #4 level 0.05815 > volume #4 level 0.05512 > volume #4 level 0.0531 > volume #4 level 0.05209 > volume #4 level 0.05108 > volume #4 level 0.05007 > volume #4 level 0.04906 > volume #4 level 0.04805 > volume #4 level 0.04704 > volume #4 level 0.04906 > volume #4 level 0.05512 > volume #4 level 0.05815 > volume #4 level 0.05916 > surface dust #4 size 8.5 > volume #4 level 0.07432 > volume #4 level 0.07533 > volume #4 level 0.07937 > volume #4 level 0.08341 > set bgColor white > select ::name=""CP5"" 54 atoms, 56 bonds, 2 residues, 2 models selected > ui tool show ""Color Actions"" > color sel medium purple > color (#1 & sel) byhetero > select clear > volume #4 level 0.0824 > volume #4 level 0.08139 > volume #4 level 0.08038 > volume #4 level 0.07937 > volume #4 level 0.07836 > volume #4 level 0.07735 > volume #4 level 0.07634 > volume #4 level 0.07533 > volume #4 level 0.07432 > volume #4 level 0.07331 > volume #4 level 0.0723 > volume #4 level 0.07129 > volume #4 level 0.07028 > volume #4 level 0.06927 > volume #4 level 0.06826 > volume #4 level 0.06725 > volume #4 level 0.06624 > volume #4 level 0.06523 > volume #4 level 0.06321 > volume #4 level 0.06119 > volume #4 level 0.06017 > volume #4 level 0.05916 > volume #4 level 0.05815 > volume #4 level 0.05714 > volume #4 level 0.05512 > volume #4 level 0.05411 > volume #4 level 0.0531 > volume #4 level 0.05209 > volume #4 level 0.05108 > volume #4 level 0.05007 > volume #4 level 0.04906 > volume #4 level 0.04805 > volume #4 level 0.04704 > volume #4 level 0.04603 > volume #4 level 0.04502 > volume #4 level 0.04401 > volume #4 level 0.043 > volume #4 level 0.04199 > volume #4 level 0.04098 > volume #4 level 0.03997 > volume #4 level 0.03896 > volume #4 level 0.03795 > volume #4 level 0.03593 > volume #4 level 0.03491 > volume #4 level 0.0339 > volume #4 level 0.03289 > volume #4 level 0.03188 > volume #4 level 0.03087 > surface dust #4 size 8.5 > surface dust #4 size 8.5 > volume zone #3 nearAtoms #1 range 3 newMap true Opened 2.mrc zone as #5, grid size 256,256,256, pixel 0.85, shown at step 1, values float32 > hide #!4 models > hide #4.1 models > surface dust #5 size 8.5 > close #4 > volume #5 style mesh > surface dust #5 size 8.5 > volume zone #3 nearAtoms #1 range 3 newMap true Opened 2.mrc zone as #4, grid size 256,256,256, pixel 0.85, shown at step 1, values float32 > hide #!5 models > close #5 > volume #4 style mesh > volume #4 level 0.03852 > volume #4 level 0.02552 > volume #4 level 0.01809 > volume #4 level 0.006025 > surface dust #4 size 8.5 > volume #4 level 0.03759 > surface dust #4 size 8.5 > volume #4 level 0.03852 > volume #4 level 0.03945 > volume #4 level 0.04038 > volume #4 level 0.04131 > volume #4 level 0.04223 > volume #4 level 0.04316 > volume #4 level 0.04409 > volume #4 level 0.04502 > volume #4 level 0.04595 > volume #4 level 0.04688 > volume #4 level 0.0478 > volume #4 level 0.04873 > volume #4 level 0.04966 > volume #4 level 0.05059 > volume #4 level 0.05152 > volume #4 level 0.05245 > volume #4 level 0.05337 > volume #4 level 0.0543 > volume #4 level 0.05523 > volume #4 level 0.05616 > volume #4 level 0.05709 > volume #4 level 0.05802 > volume #4 level 0.05895 > volume #4 level 0.05987 > volume #4 level 0.0608 > volume #4 level 0.06173 > volume #4 level 0.06266 > volume #4 level 0.06359 > volume #4 level 0.06452 > volume #4 level 0.0673 > volume #4 level 0.06823 > volume #4 level 0.07009 > volume #4 level 0.07287 > volume #4 level 0.07194 > volume #4 level 0.07009 > volume #4 level 0.06916 > volume #4 level 0.06823 > volume #4 level 0.0673 > volume #4 level 0.06637 > volume #4 level 0.06544 > volume #4 level 0.06452 > volume #4 level 0.06359 > volume #4 level 0.06266 > volume #4 level 0.06173 > volume #4 level 0.06544 > volume zone #3 nearAtoms #1 range 3.5 newMap true Opened 2.mrc zone as #5, grid size 256,256,256, pixel 0.85, shown at step 1, values float32 > close #3 > close #4 > volume #5 style mesh > volume #5 level 0.03385 > volume #5 level 0.0003617 > surface dust #5 size 8.5 > volume #5 level 0.04502 > volume #5 level 0.05897 > volume #5 level 0.06363 > volume zone #3 nearAtoms #1 range 4 newMap true > volume zone #3 nearAtoms #1 range 4 newMap true > open /Users/wangxuehui/Desktop/CB2结构/2.mrc Opened 2.mrc as #3, grid size 256,256,256, pixel 0.85, shown at level 0.0317, step 1, values float32 > volume zone #5 nearAtoms #1 range 4 newMap true Opened 2.mrc zone zone as #4, grid size 256,256,256, pixel 0.85, shown at step 1, values float32 > hide #!4 models > volume zone #3 nearAtoms #1 range 4 newMap true Opened 2.mrc zone as #6, grid size 256,256,256, pixel 0.85, shown at step 1, values float32 > close #5 > close #4 > close #6 > show #!3 models > volume zone #3 nearAtoms #1 range 4 newMap true Opened 2.mrc zone as #4, grid size 256,256,256, pixel 0.85, shown at step 1, values float32 > volume #4 style mesh > volume #4 level 0.064 > surface dust #4 size 8.5 > volume zone #3 nearAtoms #1 range 4 newMap true Opened 2.mrc zone as #5, grid size 256,256,256, pixel 0.85, shown at step 1, values float32 > close #4 > volume #5 style mesh > volume #5 level -0.0006614 > volume #5 level 0.004391 > surface dust #5 size 8.5 > volume #5 level 0.005401 > volume #5 level 0.006411 > volume #5 level 0.007422 > volume #5 level 0.009442 > volume #5 level 0.01045 > volume #5 level 0.01146 > volume #5 level 0.01247 > volume #5 level 0.01348 > volume #5 level 0.01449 > volume #5 level 0.0155 > volume #5 level 0.01652 > volume #5 level 0.01753 > volume #5 level 0.01854 > volume #5 level 0.01955 > volume #5 level 0.02056 > volume #5 level 0.02157 > volume #5 level 0.02258 > volume #5 level 0.02359 > volume #5 level 0.02561 > volume #5 level 0.02662 > volume #5 level 0.02763 > volume #5 level 0.02864 > volume #5 level 0.02965 > volume #5 level 0.03066 > volume #5 level 0.03167 > volume #5 level 0.03268 > volume #5 level 0.0347 > volume #5 level 0.03571 > volume #5 level 0.03672 > volume #5 level 0.03672 > volume #5 level 0.03773 > volume #5 level 0.03874 > volume #5 level 0.03975 > volume #5 level 0.04076 > volume #5 level 0.04177 > volume #5 level 0.04279 > volume #5 level 0.04885 > volume #5 level 0.04986 > volume #5 level 0.05087 > volume #5 level 0.05188 > volume #5 level 0.05289 > volume #5 level 0.0539 > volume #5 level 0.05491 > volume #5 level 0.05491 > volume #5 level 0.05592 > volume #5 level 0.05693 > volume #5 level 0.05794 > volume #5 level 0.05895 > volume #5 level 0.05996 > volume #5 level 0.06097 > volume #5 level 0.06198 > volume #5 level 0.06299 > volume #5 level 0.064 > volume #5 level 0.06501 > volume #5 level 0.06602 > volume #5 level 0.06703 > volume #5 level 0.06602 > volume #5 level 0.07411 > volume #5 level 0.08623 > volume #5 level 0.08219 > volume zone #3 nearAtoms #1 range 3.5 newMap true Opened 2.mrc zone as #4, grid size 256,256,256, pixel 0.85, shown at step 1, values float32 > hide #!4 models > show #!4 models > volume #4 style mesh > close #5 > volume #4 level 0.07075 > select clear > select #4 2 models selected > select clear > volume #4 level 0.04004 > surface dust #4 size 8.5 > volume #4 level 0.06702 > volume #4 level 0.06889 > volume #4 level 0.06982 > volume #4 level 0.07075 > volume #4 level 0.06795 > volume #4 level 0.02237 > volume #4 style surface > volume #4 transparency 0.5 > volume #4 transparency 0.4 > volume #4 transparency 0.1 > volume #4 transparency 0.7 > volume #4 level 0.0233 > volume #4 level 0.0233 > volume #4 level 0.02423 > volume #4 level 0.02516 > volume #4 level 0.02609 > volume #4 level 0.02609 > volume #4 level 0.02702 > volume #4 level 0.02795 > volume #4 level 0.02795 > volume #4 level 0.02888 > volume #4 level 0.02981 > volume #4 level 0.03074 > volume #4 level 0.03167 > volume #4 level 0.0326 > volume #4 level 0.03353 > volume #4 level 0.03353 > volume #4 level 0.03446 > volume #4 level 0.03539 > volume #4 level 0.03632 > volume #4 level 0.03818 > volume #4 level 0.03911 > volume #4 level 0.03911 > volume #4 level 0.04004 > volume #4 level 0.04097 > volume #4 level 0.0419 > volume #4 level 0.04284 > volume #4 level 0.04377 > volume #4 level 0.0447 > volume #4 level 0.04563 > volume #4 level 0.04563 > volume #4 level 0.04656 > volume #4 level 0.04749 > volume #4 level 0.04749 > volume #4 level 0.04842 > volume #4 level 0.04935 > volume #4 level 0.05028 > volume #4 level 0.05121 > volume #4 level 0.05214 > volume #4 level 0.05307 > volume #4 level 0.054 > volume #4 level 0.05493 > volume #4 level 0.05586 > volume #4 level 0.05679 > volume #4 level 0.05772 > volume #4 level 0.05865 > volume #4 level 0.05958 > volume #4 level 0.06051 > volume #4 level 0.06144 > volume #4 level 0.06237 > volume #4 level 0.0633 > volume #4 level 0.06423 > volume #4 level 0.06423 > volume #4 level 0.06516 > volume #4 level 0.06423 > volume #4 level 0.0633 > volume #4 level 0.06237 > volume #4 level 0.06144 > volume #4 level 0.06051 > volume #4 level 0.05586 > volume #4 level 0.05493 > volume #4 level 0.054 > volume #4 level 0.05307 > volume #4 level 0.05214 > volume #4 level 0.05121 > volume #4 level 0.05028 > volume #4 level 0.05307 > volume #4 level 0.05493 > volume #4 level 0.05586 > volume #4 level 0.05679 > volume #4 level 0.05772 > volume #4 level 0.05679 > volume #4 level 0.05586 > volume #4 level 0.05493 > volume #4 level 0.05307 > volume #4 level 0.04842 > volume #4 level 0.04749 > volume #4 level 0.04749 > volume #4 level 0.04656 > volume #4 level 0.04656 > volume #4 level 0.04563 > volume #4 level 0.04563 > volume #4 level 0.0447 > volume #4 level 0.04377 > volume #4 level 0.04284 > volume #4 level 0.0419 > volume #4 level 0.04097 > volume #4 level 0.04097 > volume #4 level 0.04004 > volume #4 level 0.03911 > volume #4 level 0.03911 > volume #4 level 0.03818 > volume #4 level 0.03725 > volume #4 level 0.03632 > volume #4 level 0.03539 > volume #4 level 0.03446 > volume #4 level 0.03353 > volume #4 level 0.0326 > volume #4 level 0.03167 > volume #4 level 0.03074 > volume #4 level 0.02981 > volume #4 level 0.02888 > volume #4 level 0.02795 > volume #4 level 0.02702 > volume #4 level 0.02702 > volume #4 level 0.02609 > volume #4 level 0.02516 > volume #4 level 0.02423 > volume #4 level 0.0233 > volume #4 level 0.02237 > volume #4 level 0.02144 > volume #4 level 0.02237 > volume #4 level 0.0233 > volume #4 level 0.02516 > volume #4 level 0.02609 > volume #4 level 0.02702 > volume #4 level 0.02795 > volume #4 level 0.02888 > volume #4 level 0.02795 > volume #4 level 0.02702 > volume #4 level 0.02609 > volume #4 level 0.0233 > volume #4 level 0.07075 > volume #4 level 0.08098 > volume #4 level 0.06889 > volume #4 level 0.054 > volume #4 level 0.06795 > volume #4 level 0.08191 > volume #4 level 0.08098 > volume #4 level 0.08005 > volume #4 level 0.07912 > volume #4 level 0.07819 > volume #4 level 0.07726 > volume #4 level 0.07633 > volume #4 level 0.0754 > volume #4 level 0.07447 > volume #4 level 0.07354 > volume #4 level 0.07261 > volume #4 level 0.07168 > volume #4 level 0.07075 > volume #4 level 0.06982 > volume #4 level 0.06982 > volume #4 level 0.06889 > volume #4 level 0.06795 > volume #4 level 0.06702 > volume #4 level 0.06609 > volume #4 level 0.06516 > volume #4 level 0.06423 > volume #4 level 0.0633 > volume #4 level 0.06237 > volume #4 level 0.06144 > volume #4 level 0.06051 > volume #4 level 0.05958 > volume #4 level 0.05865 > volume #4 level 0.05865 > volume #4 level 0.05772 > volume #4 level 0.05679 > volume #4 level 0.05586 > volume #4 level 0.05493 > volume #4 level 0.054 > volume #4 level 0.05307 > volume #4 level 0.05307 > volume #4 level 0.05214 > volume #4 level 0.05121 > volume #4 level 0.05028 > volume #4 level 0.04935 > volume #4 level 0.04842 > volume #4 level 0.04656 > volume #4 level 0.04563 > volume #4 level 0.04377 > volume #4 level 0.04284 > volume #4 level 0.04097 > volume #4 level 0.04004 > volume #4 level 0.03818 > volume #4 level 0.03632 > volume #4 level 0.03446 > volume #4 level 0.0326 > volume #4 level 0.03167 > volume #4 level 0.03074 > volume #4 level 0.02981 > volume #4 level 0.02888 > volume #4 level 0.02795 > volume #4 level 0.02702 > volume #4 level 0.02702 > volume #4 level 0.02516 > volume #4 level 0.02423 > volume #4 level 0.0233 > volume #4 level 0.02237 > volume #4 level 0.02144 > volume #4 level 0.01865 > volume #4 level 0.01772 > volume #4 level 0.01772 > volume #4 level 0.01679 > volume #4 level 0.01585 > volume #4 level 0.01492 > volume #4 level 0.01399 > volume #4 level 0.01306 > volume #4 level 0.01213 > volume #4 level 0.01306 > volume #4 level 0.02051 > volume #4 level 0.02516 > volume #4 level 0.02609 > volume #4 level 0.02702 > volume #4 level 0.02795 > volume #4 level 0.02888 > volume #4 level 0.02981 > volume #4 level 0.02888 > volume #4 level 0.02795 > volume #4 level 0.02702 > volume #4 level 0.02609 > volume #4 level 0.02516 > volume #4 level 0.02423 > volume #4 style image > volume #4 style mesh > volume #4 style surface > volume #4 change image level 2.203e-05,0 level 0.02912,0.8 level 0.291,1 > volume #4 level 0.02516 > volume #4 level 0.0633 > volume #4 level 0.0233 > volume zone #3 nearAtoms #1 range 3.5 newMap true Opened 2.mrc zone as #5, grid size 256,256,256, pixel 0.85, shown at step 1, values float32 > volume zone #3 nearAtoms #1 range 4 newMap true Opened 2.mrc zone as #6, grid size 256,256,256, pixel 0.85, shown at step 1, values float32 > volume #6 level 0.03369 > volume #6 level 0.03571 > volume #6 level 0.03773 > volume #6 level 0.03773 > volume #6 level 0.03874 > volume #6 level 0.03975 > volume #6 level 0.04076 > volume #6 level 0.04076 > volume #6 level 0.04177 > volume #6 level 0.04279 > volume #6 level 0.0438 > volume #6 level 0.04481 > volume #6 level 0.04683 > volume #6 level 0.04885 > volume #6 level 0.05087 > volume #6 level 0.05188 > volume #6 level 0.05491 > volume #6 level 0.05592 > volume #6 level 0.05794 > volume #6 level 0.05895 > volume #6 level 0.05996 > volume #6 level 0.06097 > volume #6 level 0.06198 > volume #6 level 0.06299 > volume #6 level 0.06501 > volume #6 level 0.06906 > volume #6 level 0.07007 > volume #6 level 0.07209 > volume #6 level 0.0731 > volume #6 level 0.07613 > volume #6 level 0.07714 > volume #6 level 0.07916 > volume #6 level 0.08118 > volume #6 level 0.08219 > volume #6 level 0.0832 > volume #6 level 0.08421 > volume #6 level 0.08522 > volume #6 level 0.08623 > volume #6 level 0.08724 > volume #6 level 0.08825 > volume #6 level 0.08724 > volume #6 level 0.08421 > volume #6 level 0.0832 > volume #6 level 0.07815 > volume #6 level 0.07714 > volume #6 style mesh > volume #6 level 0.1105 > surface dust #6 size 8.5 > volume #6 level 0.07714 > volume #6 level 0.08421 > close #5 > volume #6 step 4 > volume #6 step 2 > volume #6 step 8 > volume #6 step 1 > volume #4 step 2 > volume #4 step 1 > volume #4 > volume #6 style surface > volume #4 level 0.05865 > volume #4 level 0.06051 > volume #4 level 0.06237 > volume #4 level 0.0633 > volume #4 level 0.06423 > volume #4 level 0.0633 > volume #4 level 0.06237 > volume #4 level 0.06144 > volume #4 level 0.06051 > volume #4 level 0.05958 > volume #4 level 0.05865 > volume #4 level 0.05772 > volume #4 level 0.05679 > volume #4 level 0.05772 > volume #4 level 0.05865 > volume #4 level 0.05958 > volume #4 level 0.06051 > volume #4 level 0.06144 > volume #4 level 0.06237 > volume #4 level 0.0633 > volume #4 style mesh > volume #4 level 0.07075 > volume #4 level 0.0847 > volume #4 level 0.02795 > volume #4 style surface > volume #4 level 0.02888 > volume #4 level 0.02981 > volume #4 level 0.03074 > volume #4 level 0.03167 > volume #4 level 0.0326 > volume #4 level 0.03353 > volume #4 level 0.03446 > volume #4 level 0.03446 > volume #4 level 0.03539 > volume #4 level 0.03632 > volume #4 level 0.03632 > volume #4 level 0.03725 > volume #4 level 0.03818 > volume #4 level 0.03911 > volume #4 level 0.04004 > volume #4 level 0.04097 > volume #4 level 0.0419 > volume #4 level 0.04284 > volume #4 level 0.04377 > volume #4 level 0.0447 > volume #4 level 0.04563 > volume #4 level 0.04656 > volume #4 level 0.04656 > volume #4 level 0.04749 > volume #4 level 0.04842 > volume #4 level 0.04935 > volume #4 level 0.05028 > volume #4 level 0.05121 > volume #4 level 0.05028 > volume #4 level 0.05121 > volume #4 level 0.05214 > volume #4 level 0.05307 > volume #4 level 0.05307 > volume #4 level 0.054 > volume #4 level 0.05493 > volume #4 level 0.05493 > volume #4 level 0.05586 > volume #4 level 0.05679 > volume #4 level 0.05772 > volume #4 level 0.05865 > volume #4 level 0.05958 > volume #4 level 0.06051 > volume #4 level 0.06144 > volume #4 level 0.06237 > volume #4 level 0.0633 > volume #4 level 0.06423 > volume #4 level 0.06516 > volume #4 level 0.06609 > volume #4 level 0.06702 > volume #4 level 0.06795 > volume #4 level 0.06889 > volume #4 level 0.06982 > volume #4 level 0.07075 > volume #4 level 0.07168 > volume #4 level 0.07261 > volume #4 level 0.07354 > volume #4 level 0.07447 > volume #4 level 0.0754 > volume #4 level 0.07633 > volume #4 level 0.07726 > volume #4 level 0.07819 > volume #4 level 0.07912 > volume #4 level 0.07912 > volume #4 level 0.08005 > volume #4 level 0.08098 > volume #4 level 0.08191 > volume #4 level 0.08284 > volume #4 level 0.08377 > volume #4 level 0.08284 > volume #4 level 0.08191 > volume #4 level 0.08098 > volume #4 level 0.08005 > volume #4 level 0.07912 > volume #4 level 0.07819 > volume #4 level 0.07726 > volume #4 level 0.07633 > volume #4 level 0.0754 > volume #4 level 0.07447 > volume #4 level 0.07354 > volume #4 level 0.07261 > volume #4 level 0.07168 > volume #4 level 0.07075 > volume #4 level 0.06982 > volume #4 level 0.06889 > volume #4 level 0.06795 > volume #4 level 0.06702 > volume #4 level 0.06609 > volume #4 level 0.06516 > volume #4 level 0.06423 > volume #4 level 0.0633 > volume #4 level 0.06237 > volume #4 level 0.0633 > volume #4 level 0.06516 > volume #4 level 0.06609 > volume #4 level 0.06516 > volume #4 level 0.06423 > volume #4 level 0.0633 > volume #4 level 0.06423 > volume #4 level 0.08005 > volume zone #3 nearAtoms #1 range 3 newMap true Opened 2.mrc zone as #5, grid size 256,256,256, pixel 0.85, shown at step 1, values float32 > volume #5 level 0.03167 > volume #5 level 0.0326 > volume #5 level 0.03353 > volume #5 level 0.03446 > volume #5 level 0.03538 > volume #5 level 0.03631 > volume #5 level 0.03724 > volume #5 level 0.03817 > volume #5 level 0.0391 > volume #5 level 0.04003 > volume #5 level 0.04003 > volume #5 level 0.04096 > volume #5 level 0.04188 > volume #5 level 0.04188 > volume #5 level 0.04281 > volume #5 level 0.04374 > volume #5 level 0.0456 > volume #5 level 0.04653 > volume #5 level 0.04745 > volume #5 level 0.04838 > volume #5 level 0.04838 > volume #5 level 0.04931 > volume #5 level 0.05024 > volume #5 level 0.05117 > volume #5 level 0.0521 > volume #5 level 0.05302 > volume #5 level 0.05395 > volume #5 level 0.05488 > volume #5 level 0.05581 > volume #5 level 0.05674 > volume #5 level 0.05767 > volume #5 level 0.0586 > volume #5 level 0.05952 > volume #5 level 0.06138 > volume #5 level 0.06417 > volume #5 level 0.06509 > volume #5 level 0.06602 > volume #5 level 0.06695 > volume #5 level 0.06788 > volume #5 level 0.06974 > volume #5 level 0.07067 > volume #5 level 0.07159 > volume #5 level 0.07252 > volume #5 level 0.07345 > volume #5 level 0.07438 > volume #5 level 0.07531 > volume #5 level 0.07624 > volume #5 level 0.07624 > volume #5 level 0.07716 > volume #5 level 0.07809 > volume #5 level 0.07902 > volume #5 level 0.07995 > volume #5 level 0.08088 > volume #5 level 0.08181 > volume #5 level 0.08366 > volume #5 level 0.08459 > volume #5 level 0.08552 > volume #5 level 0.08645 > volume #5 level 0.08738 > volume #5 level 0.08831 > volume #5 level 0.08923 > volume #5 level 0.09016 > volume #5 level 0.09109 > volume #5 level 0.09202 > volume #5 level 0.09295 > volume #5 level 0.09388 > volume #5 level 0.0948 > volume #5 level 0.09573 > volume #5 level 0.09666 > volume #5 level 0.09759 > volume #5 level 0.09852 > volume #5 level 0.09945 > volume #5 level 0.1004 > volume #5 level 0.1013 > volume #5 level 0.1022 > volume #5 level 0.1032 > volume #5 level 0.1041 > volume #5 level 0.105 > volume #5 level 0.1059 > volume #5 level 0.1069 > volume #5 level 0.1078 > volume #5 level 0.1115 > volume #5 level 0.1124 > volume #5 level 0.1134 > volume #5 level 0.1143 > volume #5 level 0.1152 > volume #5 level 0.1162 > volume #5 level 0.1171 > volume #5 level 0.118 > volume #5 level 0.1189 > volume #5 level 0.118 > volume #5 level 0.1162 > volume #5 level 0.1143 > volume #5 level 0.105 > volume #5 level 0.1041 > volume #5 level 0.1004 > volume #5 level 0.09666 > volume #5 level 0.09573 > volume #5 level 0.0948 > volume #5 level 0.09388 > volume #5 level 0.09388 > volume #5 level 0.09295 > volume #5 level 0.09388 > volume #5 level 0.09759 > volume #5 level 0.09852 > volume #5 level 0.1013 > volume #5 level 0.1087 > volume #5 level 0.1134 > volume #5 level 0.1152 > volume #5 level 0.1171 > volume #5 level 0.1189 > volume #5 level 0.1199 > volume #5 level 0.1208 > volume #5 level 0.1199 > volume #5 level 0.1189 > volume #5 level 0.1171 > volume #5 level 0.1162 > volume #5 level 0.1152 > volume #5 level 0.1134 > volume #5 level 0.1124 > volume #5 level 0.1106 > volume #5 level 0.1097 > volume #5 level 0.1059 > volume #5 level 0.105 > volume #5 level 0.1041 > volume #5 level 0.1032 > volume #5 level 0.1022 > volume #5 level 0.1013 > volume #5 level 0.1004 > volume #5 level 0.1004 > volume #5 level 0.09945 > volume #5 level 0.09759 > volume #5 level 0.09573 > volume #5 > volume #5 style mesh > volume #5 level 0.105 > volume #5 level 0.1041 > volume #5 level 0.1032 > volume #5 level 0.1022 > volume #5 level 0.1013 > volume #5 level 0.1004 > volume #5 level 0.09945 > volume #5 level 0.09852 > volume #5 level 0.09759 > volume #5 level 0.09666 > volume #5 level 0.09573 > volume #5 level 0.0948 > volume #5 level 0.09388 > volume #5 level 0.09388 > volume #5 level 0.09388 > volume #5 level 0.09295 > volume #5 level 0.09202 > volume #5 level 0.09202 > volume #5 level 0.09109 > volume #5 level 0.09016 > volume #5 level 0.09016 > volume #5 level 0.08923 > volume #5 level 0.09016 > volume #5 level 0.09202 > volume #5 level 0.09295 > volume #5 level 0.09388 > volume #5 level 0.09295 > volume #5 level 0.09202 > volume #5 level 0.09109 > volume #5 level 0.1041 > volume #5 style surface > close #6 > volume #5 transparency 0.8 > volume #5 level 0.1032 > volume #5 level 0.1022 > volume #5 level 0.09388 > surface dust #5 size 8.5 > surface dust #5 size 8.5 > surface dust #5 size 8.5 > surface dust #5 size 3 > volume #5 style mesh > volume #5 color #b2ffb233 > close #4 > volume #5 level 0.09109 > save ""/Users/wangxuehui/Desktop/figure/figure 1/fig1c-cp55940-map.cxs"" > save ""/Users/wangxuehui/Desktop/figure/figure 1/fig1c-cp55940-map.png"" width > 864 height 723 supersample 3 transparentBackground true > volume #5 surfaceSmoothing true > volume #5 surfaceSmoothing false > volume #5 meshLighting false > volume #5 meshLighting true > volume #5 dimTransparency false > volume #5 dimTransparency false > volume #5 squareMesh false > volume #5 squareMesh false dimTransparency false > volume #5 squareMesh false dimTransparency false meshLighting true > volume #5 dimTransparency false > volume #5 meshLighting true > volume #5 level 0.07995 > surface dust #5 size 8.5 > surface dust #5 size 8.5 > surface dust #5 size 7 > surface dust #5 size 6 > surface dust #5 size 5 > surface dust #5 size 3 > surface dust #5 size 3.5 > volume #5 level 0.07716 > volume #5 style surface > volume #5 style mesh > save ""/Users/wangxuehui/Desktop/figure/figure 1/fig1c-cp55940-map.png"" width > 864 height 723 supersample 3 transparentBackground true > volume #5 level 0.07809 > volume #5 level 0.07902 > volume #5 level 0.07995 > volume #5 level 0.08088 > volume #5 level 0.08088 > volume #5 level 0.08181 > volume #5 level 0.08273 > volume #5 level 0.08366 > volume #5 level 0.08459 > volume #5 level 0.08552 > volume #5 level 0.08645 > volume #5 level 0.08738 > volume #5 level 0.08552 > surface dust #5 size 3 > surface dust #5 size 3 > volume #5 level 0.09109 > volune Unknown command: volune > volume > volume > volume #5 meshLighting false > volume #5 meshLighting true > volume #5 squareMesh false > volume #5 squareMesh true > volume #5 squareMesh false > volume #5 twoSidedLighting false > volume #5 capFaces false > volume #5 flipNormals false > volume #5 subdivisionLevels 3 > volume #5 subdivideSurface true > volume #5 subdivisionLevels 1 > save ""/Users/wangxuehui/Desktop/figure/figure 1/fig1c-cp55940-map.png"" width > 864 height 723 supersample 3 transparentBackground true > save ""/Users/wangxuehui/Desktop/figure/figure 1/fig1c-cp55940-map.cxs"" ——— End of log from Wed Oct 23 17:59:13 2024 ——— opened ChimeraX session > hide #!5 models > hide #1 models > show #!2 models > show #!3 models > volume #3 level 0.08271 > ui tool show Clashes > clashes 179 clashes > hide #!3 models > ui tool show H-Bonds > hbonds reveal true 698 hydrogen bonds found > ui tool show Contacts > ui tool show ""Hide Dust"" > ui tool show ""Show Volume Menu"" > ui tool show ""Measure Volume and Area"" > select clear > toolshed show > close #6 > close #4 > hide #!2 atoms > hide #!2 atoms > select ::name=""CP5"" 54 atoms, 56 bonds, 2 residues, 2 models selected > show sel & #!2 atoms > select ::name=""ECL"" 27 atoms, 29 bonds, 1 residue, 1 model selected > show sel atoms > color sel hot pink > color sel byhetero > select #2/R:401@C17 1 atom, 1 residue, 1 model selected > select #2/R:401@C19 1 atom, 1 residue, 1 model selected > select ::name=""CP5"" 54 atoms, 56 bonds, 2 residues, 2 models selected > ui tool show ""Color Actions"" > color sel medium purple > color (#!2 & sel) byhetero > show #!3 models > volume #3 level 0.09057 > hide #!3 models > show sel & #!2 surfaces > show sel & #!2 surfaces > hide sel & #!2 surfaces > hide sel & #!2 surfaces > select clear > select #2/R 2367 atoms, 2431 bonds, 300 residues, 1 model selected > show sel surfaces > select #2/A 1687 atoms, 1716 bonds, 2 pseudobonds, 215 residues, 2 models selected > hide sel cartoons Drag select of 341 residues Drag select of 61 residues Drag select of 394 residues > hide sel cartoons Drag select of 1 residues > hide sel cartoons > clip > clip model #!2 false > hide #!2 models > show #!2 models > hide sel cartoons > hide ~:ecl cp5 targ ar Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models', 'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword > hide sel cartoons > hide sel cartoons > hide #!2 models > show #!2 models > select #2/R 2367 atoms, 2431 bonds, 300 residues, 1 model selected > hide sel cartoons > hide sel cartoons > select clear > hide ~:ecl & cp5 targ ar Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models', 'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword > hide ~:ecl target ar > hide ~:cp5 target ar > ui tool show ""Color Actions"" > color :ecl & C hot pink > color :cp5 & C mediumblue purpule Expected a collection of one of 'All', 'atoms', 'bonds', 'cartoons', 'labels', 'pseudobonds', 'ribbons', 'rings', or 'surfaces' or a keyword > color :cp5 & C medium purple > ui mousemode right clip > ui mousemode right ""clip rotate"" > ui mousemode right clip > ui mousemode right ""clip rotate"" > clip model #!2 false > select ::name=""CP5"" 54 atoms, 56 bonds, 2 residues, 2 models selected > hide sel & #!2 surfaces > show sel & #!2 atoms > select ::name=""ECL"" 27 atoms, 29 bonds, 1 residue, 1 model selected > show sel atoms > show sel atoms > select clear > lighting soft > transparency #2.3 30 > transparency #2.3 70 > transparency #2.3 10 > transparency #2.3 0 > save ""/Users/wangxuehui/Desktop/figure/figure 1/fig.cxs"" ——— End of log from Wed Oct 23 21:56:23 2024 ——— opened ChimeraX session > save ""/Users/wangxuehui/Desktop/figure/figure 1/fig1c 正面pocket.png"" width > 864 height 723 supersample 3 transparentBackground true > save ""/Users/wangxuehui/Desktop/figure/figure 1/fig 1c pocket 正面.cxs"" ——— End of log from Thu Oct 24 09:06:28 2024 ——— opened ChimeraX session > graphics silhouettes false > save ""/Users/wangxuehui/Desktop/figure/figure 1/fig 1c pocket 正面.cxs"" ——— End of log from Thu Oct 24 09:08:51 2024 ——— opened ChimeraX session > save ""/Users/wangxuehui/Desktop/figure/figure 1/fig1c 正面pocket.png"" width > 804 height 670 supersample 3 transparentBackground true > save ""/Users/wangxuehui/Desktop/figure/figure 1/fig 1c pocket 正面.cxs"" ——— End of log from Thu Oct 24 09:12:46 2024 ——— opened ChimeraX session > graphics silhouettes false > hide #2.1 models > hide #2.2 models > hide #!2.3 models > show #!2.3 models > hide #!2.3 models > show #!2.3 models > hide #!2.3 models > show #!2.3 models > ui mousemode right clip > ui mousemode right ""clip rotate"" > save ""/Users/wangxuehui/Desktop/figure/figure 1/fig 1c pocket 正面.cxs"" ——— End of log from Mon Dec 16 17:35:49 2024 ——— opened ChimeraX session > ui mousemode right ""clip rotate"" > show #!2 cartoons > hide #!2 surfaces > show #!2 surfaces > hide #!2 cartoons > close #2.6 > close #2.2 > close #2.5 > close #2.4 > ui mousemode right clip > ui mousemode right ""clip rotate"" > ui mousemode right clip > show #!2 cartoons > ui mousemode right ""clip rotate"" > hide #!2 cartoons > ui mousemode right clip > ui mousemode right ""clip rotate"" > ui mousemode right clip > save ""/Users/wangxuehui/Desktop/figure/figure 1/fig1c 正面pocket.png"" width > 808 height 670 supersample 3 transparentBackground true > save ""/Users/wangxuehui/Desktop/figure/figure 1/fig1c 正面pocket.cxs"" ——— End of log from Thu Dec 26 15:59:39 2024 ——— opened ChimeraX session restore_snapshot for ""Volume"" returned None restore_snapshot for ""VolumeSurface"" returned None Unable to restore session, resetting. Traceback (most recent call last): File ""/Users/wangxuehui/Desktop/ChimeraX-1.2.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/core/session.py"", line 713, in restore obj = sm.restore_snapshot(self, data) File ""/Users/wangxuehui/Desktop/ChimeraX-1.2.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/surface/cap.py"", line 231, in restore_snapshot c = ClipCap(data['clip_plane_name'], data['clip_cap_owner']) File ""/Users/wangxuehui/Desktop/ChimeraX-1.2.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/surface/cap.py"", line 210, in __init__ Surface.__init__(self, 'cap ' + plane_name, drawing.session) AttributeError: 'NoneType' object has no attribute 'session' Exception ignored in: Traceback (most recent call last): File ""/Users/wangxuehui/Desktop/ChimeraX-1.2.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site- packages/chimerax/graphics/drawing.py"", line 1182, in __del__ if not self.was_deleted: AttributeError: 'ClipCap' object has no attribute 'was_deleted' opened ChimeraX session OpenGL version: 4.1 Metal - 71.7.1 OpenGL renderer: Apple M1 OpenGL vendor: AppleHardware: Hardware Overview: Model Name: MacBook Air Model Identifier: MacBookAir10,1 Processor Name: Unknown Processor Speed: 2.4 GHz Number of Processors: 1 Total Number of Cores: 8 L2 Cache (per Core): 4 MB Memory: 8 GB Software: System Software Overview: System Version: macOS 11.7.10 (20G1427) Kernel Version: Darwin 20.6.0 Time since boot: 27 days 33 minutes Graphics/Displays: Apple M1: Chipset Model: Apple M1 Type: GPU Bus: Built-In Total Number of Cores: 7 Vendor: Apple (0x106b) Metal Family: Supported, Metal GPUFamily Apple 7 Displays: Color LCD: Resolution: 2880 x 1800 UI Looks like: 1440 x 900 @ 60.00Hz Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: No Connection Type: Internal Locale: (None, 'UTF-8') PyQt5 5.15.2, Qt 5.15.2 Installed Packages: alabaster: 0.7.12 appdirs: 1.4.4 appnope: 0.1.2 Babel: 2.9.1 backcall: 0.2.0 blockdiag: 2.0.1 certifi: 2020.12.5 cftime: 1.5.0 chardet: 3.0.4 ChimeraX-AddCharge: 1.0.1 ChimeraX-AddH: 2.1.6 ChimeraX-AlignmentAlgorithms: 2.0 ChimeraX-AlignmentHdrs: 3.2 ChimeraX-AlignmentMatrices: 2.0 ChimeraX-Alignments: 2.1 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.0 ChimeraX-Atomic: 1.13.2 ChimeraX-AtomicLibrary: 3.1.3 ChimeraX-AtomSearch: 2.0 ChimeraX-AtomSearchLibrary: 1.0 ChimeraX-AxesPlanes: 2.0 ChimeraX-BasicActions: 1.1 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 1.1 ChimeraX-BondRot: 2.0 ChimeraX-BugReporter: 1.0 ChimeraX-BuildStructure: 2.5.2 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.1 ChimeraX-ButtonPanel: 1.0 ChimeraX-CageBuilder: 1.0 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.1 ChimeraX-ChemGroup: 2.0 ChimeraX-Clashes: 2.1 ChimeraX-ColorActions: 1.0 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.2.1 ChimeraX-CommandLine: 1.1.4 ChimeraX-ConnectStructure: 2.0 ChimeraX-Contacts: 1.0 ChimeraX-Core: 1.2.5 ChimeraX-CoreFormats: 1.0 ChimeraX-coulombic: 1.1.1 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0 ChimeraX-DataFormats: 1.1 ChimeraX-Dicom: 1.0 ChimeraX-DistMonitor: 1.1.3 ChimeraX-DistUI: 1.0 ChimeraX-Dssp: 2.0 ChimeraX-EMDB-SFF: 1.0 ChimeraX-ExperimentalCommands: 1.0 ChimeraX-FileHistory: 1.0 ChimeraX-FunctionKey: 1.0 ChimeraX-Geometry: 1.1 ChimeraX-gltf: 1.0 ChimeraX-Graphics: 1.0 ChimeraX-Hbonds: 2.1 ChimeraX-Help: 1.1 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.0 ChimeraX-ImageFormats: 1.1 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.1 ChimeraX-Label: 1.0 ChimeraX-ListInfo: 1.1.1 ChimeraX-Log: 1.1.2 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.8.1 ChimeraX-Map: 1.0.2 ChimeraX-MapData: 2.0 ChimeraX-MapEraser: 1.0 ChimeraX-MapFilter: 2.0 ChimeraX-MapFit: 2.0 ChimeraX-MapSeries: 2.0 ChimeraX-Markers: 1.0 ChimeraX-Mask: 1.0 ChimeraX-MatchMaker: 1.2.1 ChimeraX-MDcrds: 2.2 ChimeraX-MedicalToolbar: 1.0.1 ChimeraX-Meeting: 1.0 ChimeraX-MLP: 1.1 ChimeraX-mmCIF: 2.3 ChimeraX-MMTF: 2.1 ChimeraX-Modeller: 1.0.1 ChimeraX-ModelPanel: 1.0.1 ChimeraX-ModelSeries: 1.0 ChimeraX-Mol2: 2.0 ChimeraX-Morph: 1.0 ChimeraX-MouseModes: 1.1 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nucleotides: 2.0.1 ChimeraX-OpenCommand: 1.5 ChimeraX-PDB: 2.4.1 ChimeraX-PDBBio: 1.0 ChimeraX-PDBLibrary: 1.0.1 ChimeraX-PDBMatrices: 1.0 ChimeraX-PickBlobs: 1.0 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.0.1 ChimeraX-PubChem: 2.0.1 ChimeraX-ReadPbonds: 1.0 ChimeraX-Registration: 1.1 ChimeraX-RemoteControl: 1.0 ChimeraX-ResidueFit: 1.0 ChimeraX-RestServer: 1.1 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 2.0 ChimeraX-RotamerLibsDunbrack: 2.0 ChimeraX-RotamerLibsDynameomics: 2.0 ChimeraX-RotamerLibsRichardson: 2.0 ChimeraX-SaveCommand: 1.4 ChimeraX-SchemeMgr: 1.0 ChimeraX-SDF: 2.0 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0 ChimeraX-SeqView: 2.3 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0 ChimeraX-Shortcuts: 1.0 ChimeraX-ShowAttr: 1.0 ChimeraX-ShowSequences: 1.0 ChimeraX-SideView: 1.0 ChimeraX-Smiles: 2.0.1 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.3.1 ChimeraX-STL: 1.0 ChimeraX-Storm: 1.0 ChimeraX-Struts: 1.0 ChimeraX-Surface: 1.0 ChimeraX-SwapAA: 2.0 ChimeraX-SwapRes: 2.1 ChimeraX-TapeMeasure: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.0.1 ChimeraX-ToolshedUtils: 1.2 ChimeraX-Tug: 1.0 ChimeraX-UI: 1.7.6 ChimeraX-uniprot: 2.1 ChimeraX-UnitCell: 1.0 ChimeraX-ViewDockX: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0 ChimeraX-WebServices: 1.0 ChimeraX-Zone: 1.0 colorama: 0.4.3 comtypes: 1.1.7 cxservices: 1.0 cycler: 0.10.0 Cython: 0.29.21 decorator: 5.0.9 distlib: 0.3.1 docutils: 0.16 filelock: 3.0.12 funcparserlib: 0.3.6 grako: 3.16.5 h5py: 2.10.0 html2text: 2020.1.16 idna: 2.10 ihm: 0.17 imagecodecs: 2020.5.30 imagesize: 1.2.0 ipykernel: 5.3.4 ipython: 7.18.1 ipython-genutils: 0.2.0 jedi: 0.17.2 Jinja2: 2.11.2 jupyter-client: 6.1.7 jupyter-core: 4.7.1 kiwisolver: 1.3.1 line-profiler: 2.1.2 lxml: 4.6.2 lz4: 3.1.0 MarkupSafe: 2.0.1 matplotlib: 3.3.2 matplotlib-inline: 0.1.2 msgpack: 1.0.0 netCDF4: 1.5.4 networkx: 2.5 numexpr: 2.7.3 numpy: 1.19.2 numpydoc: 1.1.0 openvr: 1.14.1501 packaging: 20.9 ParmEd: 3.2.0 parso: 0.7.1 pexpect: 4.8.0 pickleshare: 0.7.5 Pillow: 7.2.0 pip: 21.0.1 pkginfo: 1.5.0.1 prompt-toolkit: 3.0.18 psutil: 5.7.2 ptyprocess: 0.7.0 pycollada: 0.7.1 pydicom: 2.0.0 Pygments: 2.7.1 PyOpenGL: 3.1.5 PyOpenGL-accelerate: 3.1.5 pyparsing: 2.4.7 PyQt5-commercial: 5.15.2 PyQt5-sip: 12.8.1 PyQtWebEngine-commercial: 5.15.2 python-dateutil: 2.8.1 pytz: 2021.1 pyzmq: 22.0.3 qtconsole: 4.7.7 QtPy: 1.9.0 RandomWords: 0.3.0 requests: 2.24.0 scipy: 1.5.2 setuptools: 50.3.2 sfftk-rw: 0.6.7.dev1 six: 1.15.0 snowballstemmer: 2.1.0 sortedcontainers: 2.2.2 Sphinx: 3.2.1 sphinxcontrib-applehelp: 1.0.2 sphinxcontrib-blockdiag: 2.0.0 sphinxcontrib-devhelp: 1.0.2 sphinxcontrib-htmlhelp: 2.0.0 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.3 sphinxcontrib-serializinghtml: 1.1.5 suds-jurko: 0.6 tables: 3.6.1 tifffile: 2020.9.3 tinyarray: 1.2.3 tornado: 6.1 traitlets: 5.0.5 urllib3: 1.25.11 wcwidth: 0.2.5 webcolors: 1.11.1 wheel: 0.36.0 wheel-filename: 1.3.0 }}} " defect closed normal Sessions duplicate all ChimeraX