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Opened 4 years ago
Closed 4 years ago
#4914 closed defect (duplicate)
restore_snapshot for "ZoneColor" returned None
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Sessions | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: Linux-3.10.0-514.21.1.el7.x86_64-x86_64-with-centos-7.3.1611-Core
ChimeraX Version: 1.1 (2020-09-09 22:22:27 UTC)
Description
(Describe the actions that caused this problem to occur here)
Log:
UCSF ChimeraX version: 1.1 (2020-09-09)
© 2016-2020 Regents of the University of California. All rights reserved.
> open
> /data/wangchy/linux/Desktop/PACC1_manuscript/Figure2_overall_architecture/Figure1/Images/Fig1_ver6/ver6..cxs
restore_snapshot for "Volume" returned None
restore_snapshot for "VolumeSurface" returned None
restore_snapshot for "Volume" returned None
restore_snapshot for "VolumeSurface" returned None
restore_snapshot for "Volume" returned None
restore_snapshot for "VolumeSurface" returned None
Error opening map
"/data/wangchy/linux/Desktop/PACC1_manuscript/Figure2_overall_architecture/Figure1/Images/Fig1_ver6/ver6b.cxs":
File ver6b.cxs, format mrc
MRC header value nsymbt (1701082415) is invalid
restore_snapshot for "Volume" returned None
restore_snapshot for "VolumeSurface" returned None
restore_snapshot for "Volume" returned None
restore_snapshot for "VolumeSurface" returned None
restore_snapshot for "Volume" returned None
restore_snapshot for "VolumeSurface" returned None
Error opening map
"/data/wangchy/linux/Desktop/PACC1_manuscript/Figure2_overall_architecture/Figure1/Images/1.cxs":
File 1.cxs, format mrc
MRC header value nsymbt (1701082415) is invalid
restore_snapshot for "Volume" returned None
restore_snapshot for "VolumeSurface" returned None
Error opening map
"/data/wangchy/linux/Desktop/PACC1_manuscript/Figure2_overall_architecture/Figure1/Figure1_ver23.cxs":
File Figure1_ver23.cxs, format mrc
MRC header value nsymbt (1966039912) is invalid
restore_snapshot for "Volume" returned None
restore_snapshot for "VolumeSurface" returned None
restore_snapshot for "Volume" returned None
restore_snapshot for "VolumeSurface" returned None
Log from Thu Jun 3 14:18:38 2021UCSF ChimeraX version: 1.1 (2020-09-09)
© 2016-2020 Regents of the University of California. All rights reserved.
> open
> C:\Users\Administrator\Desktop\Figure2_overall_architecture\Figure1\Images\ver2\ver2a.cxs
> format session
Log from Thu Jun 3 10:52:58 2021UCSF ChimeraX version: 1.1 (2020-09-09)
© 2016-2020 Regents of the University of California. All rights reserved.
> open
> C:\Users\Administrator\Desktop\Figure2_overall_architecture\Figure1\Images\1.cxs
> format session
Log from Wed Jun 2 14:13:25 2021UCSF ChimeraX version: 1.1 (2020-09-09)
© 2016-2020 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> cd Figure2_overall_architecture/Figure1
Current working directory is:
C:\Users\Administrator\Desktop\Figure2_overall_architecture\Figure1
> open resting_pH7p5_Digitonin_composite_map.mrc
Opened resting_pH7p5_Digitonin_composite_map.mrc, grid size 384,384,384, pixel
0.826, shown at level 0.000366, step 2, values float32
> open resting_mask.mrc
Opened resting_mask.mrc, grid size 384,384,384, pixel 0.826, shown at level
0.136, step 2, values float32
> open resting_ref35-coot-1.pdb
No such file/path: resting_ref35-coot-1.pdb
> volume #2 level 0.1746
> volume #1 step 1
> volume #1 level 0.156
> show nucleic
> hide protein|solvent|H
> surface hidePatches
> style (protein|nucleic|solvent) & @@draw_mode=0 stick
Changed 0 atom styles
> cartoon
> cartoon style modeHelix default arrows true arrowsHelix false arrowScale 2
> width 2 thickness 0.6 sides 12 divisions 20
> cartoon style ~(nucleic|strand) xsection round
> cartoon style (nucleic|strand) xsection rectangle
> cartoon style nucleic xsection round width 1.6 thickness 1.6
> nucleotides stubs
> set bgColor white
> lighting soft
> graphics silhouettes true
> size stickRadius 0.4
Changed 0 bond radii
> hide #!2 models
> show #!2 models
> hide #!1 models
> show #!1 models
> open resting_ref35-coot-1
'resting_ref35-coot-1' has no suffix
> open resting_ref35-coot-0
'resting_ref35-coot-0' has no suffix
> open resting_ref35-coot-0.pdb
Chain information for resting_ref35-coot-0.pdb #3
---
Chain | Description
A B C | No description available
> hide #!2 models
> hide #!1 models
> show #!2 models
> show #!1 models
> hide #!2 models
> show #!2 models
> hide #!1 models
> hide #!2 models
> show #!2 models
> show #!1 models
> hide #!2 models
> show #!2 models
> show nucleic
> hide protein|solvent|H
> surface hidePatches
> style (protein|nucleic|solvent) & @@draw_mode=0 stick
Changed 0 atom styles
> cartoon
> cartoon style modeHelix default arrows true arrowsHelix false arrowScale 2
> width 2 thickness 0.6 sides 12 divisions 20
> cartoon style ~(nucleic|strand) xsection round
> cartoon style (nucleic|strand) xsection rectangle
> cartoon style nucleic xsection round width 1.6 thickness 1.6
> nucleotides stubs
> hide #!2 models
> hide #!1 models
> set bgColor white
> set bgColor black
> set bgColor black
> set bgColor white
> lighting simple
> lighting simple
> lighting soft
> lighting full
> lighting soft
> lighting simple
> lighting soft
> lighting full
> lighting full
> lighting soft
> preset cartoons/nucleotides cylinders/stubs
Changed 0 atom styles
Preset expands to these ChimeraX commands:
show nucleic
hide protein|solvent|H
surf hide
style (protein|nucleic|solvent) & @@draw_mode=0 stick
cartoon
cartoon style modeh def arrows t arrowshelix f arrowscale 2 wid 2 thick 0.4 sides 12 div 20
cartoon style ~(nucleic|strand) x round
cartoon style (nucleic|strand) x rect
cartoon style protein modeh tube rad 2 sides 24 thick 0.6
cartoon style nucleic x round width 1.6 thick 1.6
nucleotides stubs
> show nucleic
> hide protein|solvent|H
> surface hidePatches
> style (protein|nucleic|solvent) & @@draw_mode=0 stick
Changed 0 atom styles
> cartoon
> cartoon style modeHelix default arrows true arrowsHelix false arrowScale 2
> width 2 thickness 0.6 sides 12 divisions 20
> cartoon style ~(nucleic|strand) xsection round
> cartoon style (nucleic|strand) xsection rectangle
> cartoon style nucleic xsection round width 1.6 thickness 1.6
> nucleotides stubs
> cartoon style protein modeHelix tube radius 2 sides 24 thickness 0.6
> set bgColor white
> lighting soft
> graphics silhouettes true
> size stickRadius 0.4
Changed 6795 bond radii
> show #!2 models
> hide #3 models
> show #!1 models
> hide #!2 models
> volume #1 level 0.15
> show #!2 models
> hide #!1 models
> volume #2 level 0.1
> volume #2 level 0.12
> volume #2 level 0.15
> volume #2 step 1 level 0.15
> color #2 silver
> volume #2 transparency 0.95
> show #!1 models
> volume #2 transparency 0.9
> volume #2 level 0.18
> volume #2 level 0.16
> volume #2 level 0.17
> volume #2 level 0.16
> color #2 grey
> volume #2 transparency 0.95
> volume #2 transparency 0.95
> show #3 models
> hide #3 models
> hide #!2 models
> show #!2 models
> color #1-2 orange
> color #1-2 orange
> color #1-2 yellow
> color /A royal blue
> color /B grey
> color /C silver
> show #3 models
> hide #!2 models
> hide #!1 models
> setattr :207-212 res ss_type 1
Assigning ss_type attribute to 18 items
> show :148 :155 :162 :190
> color byhetero
> color zone #1 near #3 distance 5
> show #!1 models
> hide #!1 models
> color /A royal blue
> color /B wheat
> color /C silver
> color zone #1 near #3 distance 5
> show #!1 models
> show #!2 models
> hide #3 models
> lighting full
> lighting soft
> lighting full
> lighting soft
> lighting simple
> lighting simple
> lighting simple
> lighting simple
> lighting soft
> lighting full
> lighting soft
> lighting soft
> lighting simple
> lighting soft
> lighting soft
> lighting full
> lighting soft
> volume #2 color #ffffff0c
> show #3 models
> hide #!2 models
> hide #!1 models
> color /A royal blue
> color /B blue
> color /C navy
> show #!1 models
> hide #3 models
> show #3 models
> color zone #1 near #3 distance 5
> show #!2 models
> hide #3 models
> clear all
Unknown command: clear all
> delete all
> delete all
> close #2
> close #1
> cd Figure2_overall_architecture/Figure1/
[WinError 3] 系统找不到指定的路径。: 'Figure2_overall_architecture/Figure1/'
> open resting_pH7p5_Digitonin_composite_map.mrc
Opened resting_pH7p5_Digitonin_composite_map.mrc, grid size 384,384,384, pixel
0.826, shown at level 0.000366, step 2, values float32
> open resting_mask.mrc
Opened resting_mask.mrc, grid size 384,384,384, pixel 0.826, shown at level
0.136, step 2, values float32
> open resting_ref35-coot-0.pdb
Chain information for resting_ref35-coot-0.pdb #3
---
Chain | Description
A B C | No description available
> show nucleic
> hide protein|solvent|H
> surface hidePatches
> style (protein|nucleic|solvent) & @@draw_mode=0 stick
Changed 0 atom styles
> cartoon
> cartoon style modeHelix default arrows true arrowsHelix false arrowScale 2
> width 2 thickness 0.6 sides 12 divisions 20
> cartoon style ~(nucleic|strand) xsection round
> cartoon style (nucleic|strand) xsection rectangle
> cartoon style protein modeHelix tube radius 2 sides 24 thickness 0.6
> cartoon style nucleic xsection round width 1.6 thickness 1.6
> nucleotides stubs
> set bgColor white
> lighting soft
> graphics silhouettes true
> view orient
> turn x -90
> turn y 240
> zoom 1.5
> volume #2 step 1 level 0.16
> color #2 silver
> volume #2 transparency 0.90
> volume #1 step 1 level 0.16
> volume #1 level 0.15
> volume #1 level 0.06513
> hide #3 models
> volume #1 level 0.12
> volume #1 level 0.15
> volume #1 level 0.12
> color /A royal blue
> hide #!1 models
> show #3 models
> color /B royal blue
> color /A royalblue wheat
Expected a collection of one of 'All', 'atoms', 'bonds', 'cartoons', 'labels',
'pseudobonds', 'ribbons', 'rings', or 'surfaces' or a keyword
> color /A royalblue white
Expected a collection of one of 'All', 'atoms', 'bonds', 'cartoons', 'labels',
'pseudobonds', 'ribbons', 'rings', or 'surfaces' or a keyword
> color /A wheat
> color /C silver
> zoom 2
> show #!1 models
> hide #!2 models
> show #!2 models
> hide #!1 models
> hide #3 models
> show #3 models
> hide #!2 models
> lighting soft
> lighting full
> lighting soft
> color /B blue
> color /steel blue
> color /B steel blue
> color /C white
> show #!1 models
> hide #!1 models
> show #!2 models
> show #!1 models
> hide #!1 models
> hide #3 models
> show #3 models
> hide #!2 models
> color zone #1 near #3 distance 5
> show #!1 models
> hide #3 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!1 models
> show #!1 models
> hide #!2 models
> show #!2 models
> volume #1 transparency 0.1
> hide #!1 models
> show #!1 models
> hide #!2 models
> volume #1 transparency 0.05
> volume #1 transparency 0.5
> volume #1 transparency 0.0
> volume #1 transparency 0.01
> show #!2 models
> hide #!2 models
> show #3 models
> volume #1 transparency 0.9
> volume #1 transparency 0.95
> volume #1 transparency 0.99
> volume #1 transparency 0.9999999
> volume #1 transparency 0.0
> hide #3 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!2 models
> lighting soft
> lighting full
> lighting soft
> lighting full
> lighting soft
> show #!2 models
> volume #2 level 0.2
> volume #2 level 0.17
> undo
> show #!2 models
> volume #2 transparency 1
> open resting_pH7p5_Digitonin_composite_map.mrc
Opened resting_pH7p5_Digitonin_composite_map.mrc, grid size 384,384,384, pixel
0.826, shown at level 0.000366, step 2, values float32
> volume #4 step 1
> volume #4 level 0.1842
> volume #4 level 0.15
> hide #!2 models
> hide #!1 models
> show #3 models
> volume #4 transparency 1
> volume #4 level 0.2
> hide #!4 models
> show #!4 models
> volume #4 level 0.15
> volume #4 level 0.3
> volume #4 level 0.5
> volume #4 level 0.3
> save C:/Users/Administrator/Desktop/xxx.png width 7870 height 5230
> supersample 3
> color /B rayl blue
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random' or a keyword
> color /B rayal blue
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random' or a keyword
> color /B royal blue
> save C:/Users/Administrator/Desktop/xxx1.png width 787 height 523
> supersample 3
> save C:/Users/Administrator/Desktop/xxx1.png width 7870 height 5230
> supersample 3
> color /B teal
> save C:/Users/Administrator/Desktop/xxx1.png width 7870 height 5230
> supersample 3
> color /B royal blue
> color /B blue
> color /B slate blue
> save C:/Users/Administrator/Desktop/xxx1.png width 7870 height 5230
> supersample 3
> color /B blue violet
> save C:/Users/Administrator/Desktop/xxx1.png width 7870 height 5230
> supersample 3
> color /B slate blue
> close #4
> close
> close #
Expected a models specifier or a keyword
> close #
Expected a models specifier or a keyword
> cd Figure2_overall_architecture/Figure1/
[WinError 3] 系统找不到指定的路径。: 'Figure2_overall_architecture/Figure1/'
> open resting_pH7p5_Digitonin_composite_map.mrc
Opened resting_pH7p5_Digitonin_composite_map.mrc, grid size 384,384,384, pixel
0.826, shown at level 0.000366, step 2, values float32
> open resting_mask.mrc
Opened resting_mask.mrc, grid size 384,384,384, pixel 0.826, shown at level
0.136, step 2, values float32
> open resting_ref35-coot-0.pdb
Chain information for resting_ref35-coot-0.pdb #3
---
Chain | Description
A B C | No description available
> show nucleic
> hide protein|solvent|H
> surface hidePatches
> style (protein|nucleic|solvent) & @@draw_mode=0 stick
Changed 0 atom styles
> cartoon
> cartoon style modeHelix default arrows true arrowsHelix false arrowScale 2
> width 2 thickness 0.6 sides 12 divisions 20
> cartoon style ~(nucleic|strand) xsection round
> cartoon style (nucleic|strand) xsection rectangle
> cartoon style protein modeHelix tube radius 2 sides 24 thickness 0.6
> cartoon style nucleic xsection round width 1.6 thickness 1.6
> nucleotides stubs
> set bgColor white
> lighting soft
> graphics silhouettes true
> size stickRadius 0.4
Changed 6795 bond radii
> volume #2 step 1 level 0.16
> volume #1 step 1 level 0.12
> color #2 silver
> volume #2 transparency 1
> color /A wheat
> color /B slate blue
> color /C white
> color zone #1 near #3 distance 5
> view orient
> turn x -90
> turn y 240
> turn y -240
> turn y 240
> hide #3 models
> zoom 0.95
> zoom 0.95
> lighting shadows true
> lighting shadows true intensity 0.5
> lighting shadows false
> save C:/Users/Administrator/Desktop/xxx1.png width 6019 height 4000
> supersample 3
> volume #2 transparency 0.9
> save C:/Users/Administrator/Desktop/xxx1.png width 4000 height 5000
> supersample 3
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/1a.png
> width 7870 height 5230 supersample 3
> lighting soft
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/1a2.png
> width 7870 height 5230 supersample 3
> lighting soft
> lighting shadows true
> lighting shadows true intensity 0.5
> lighting shadows false
> hide #!2 models
> hide #!1 models
> show #3 models
> open resting_pH7p5_Digitonin_composite_map.mrc
Opened resting_pH7p5_Digitonin_composite_map.mrc, grid size 384,384,384, pixel
0.826, shown at level 0.000366, step 2, values float32
> volume #4 step 1 level 0.3
> color #4 silver
> volume #4 transparency 0.9
> show :148 :155 :162 :190
> color byhetero
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/2a.png
> width 7870 height 5230 supersample 3
> volume #4 transparency 1
> volume #4 transparency 1
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/2a.png
> width 7870 height 5230 supersample 3
> color /A wheat
> color /B slate blue
> color /C white
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/2a.png
> width 7870 height 5230 supersample 3
> open open_pH4p5_GDN_composite_map_P111_J326_resample.mrc
Opened open_pH4p5_GDN_composite_map_P111_J326_resample.mrc, grid size
384,384,384, pixel 0.827, shown at level 2.74e-05, step 2, values float32
> open open_mask.mrc
Opened open_mask.mrc, grid size 384,384,384, pixel 0.827, shown at level
0.213, step 2, values float32
> open open_ref_36_coot0.pdb
Chain information for open_ref_36_coot0.pdb #7
---
Chain | Description
A B C | No description available
> volume #6 step 1 level 0.16
> volume #5 step 1 level 0.12
> color #6 silver
> volume #6 transparency 0.9
> show #!2 models
> hide #3 models
> hide #!2 models
> hide #!4 models
> hide #7 models
> hide #!6 models
> show #!6 models
> hide #!5 models
> show #!5 models
> volume #6 level 0.2
> show #7 models
> hide #!5 models
> cartoon style protein modeHelix tube radius 2 sides 24 thickness 0.6
> show nucleic
> hide protein|solvent|H
> surface hidePatches
> style (protein|nucleic|solvent) & @@draw_mode=0 stick
Changed 0 atom styles
> cartoon
> cartoon style modeHelix default arrows true arrowsHelix false arrowScale 2
> width 2 thickness 0.6 sides 12 divisions 20
> cartoon style ~(nucleic|strand) xsection round
> cartoon style (nucleic|strand) xsection rectangle
> cartoon style protein modeHelix tube radius 2 sides 24 thickness 0.6
> cartoon style nucleic xsection round width 1.6 thickness 1.6
> nucleotides stubs
> color #7/A wheat
> color #7/A wheat
> color #7/B medium violet red
> color #7/C white
> show :148 :155 :162 :190
> hide #!6 models
> show #3 models
> hide #3 models
> show #3 models
> hide #3 models
> show #3 models
> hide #3 models
> cartoon style modeHelix default arrows true arrowsHelix false arrowScale 2
> width 2 thickness 0.6
> size stickRadius 0.4
Changed 13611 bond radii
> show #3 models
> hide #3 models
> show nucleic
> hide protein|solvent|H
> surface hidePatches
> style (protein|nucleic|solvent) & @@draw_mode=0 stick
Changed 0 atom styles
> cartoon
> cartoon style ~(nucleic|strand) xsection round
> cartoon style (nucleic|strand) xsection rectangle
> cartoon style protein modeHelix tube radius 2 sides 24 thickness 0.6
> cartoon style nucleic xsection round width 1.6 thickness 1.6
> nucleotides stubs
> show :148 :155 :162 :190
> show #3 models
> hide #3 models
> show #3 models
> hide #3 models
> color zone #5 near #3 distance 5
> show #!6 models
> hide #7 models
> show #!5 models
> color zone #5 near #7 distance 5
> color zone #5 near #7 distance 6
> color zone #5 near #7 distance 7
> color zone #5 near #7 distance 6
> color zone #5 near #7 distance 5
> color zone #5 near #7 distance 7
> volume #5 level 0.15
> volume #5 level 0.13
> volume #5 level 0.12
> volume #5 level 0.14
> volume #5 level 0.13
> volume #5 level 0.12
> volume #6 level 0.23
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!5 models
> show #!5 models
> hide #!6 models
> show #!6 models
> hide #!6 models
> show #!6 models
> hide #!2 models
> volume #6 level 0.3
> volume #6 level 0.22
> volume #6 level 0.2
> volume #6 level 0.22
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/1b.png
> width 7870 height 5230 supersample 3
> open open_pH4p5_GDN_composite_map_P111_J326_resample.mrc
Opened open_pH4p5_GDN_composite_map_P111_J326_resample.mrc, grid size
384,384,384, pixel 0.827, shown at level 2.74e-05, step 2, values float32
> volume #8 step 1 level 0.3
> color #8 silver
> volume #8 transparency 0.9
> hide #!6 models
> show #7 models
> hide #!5 models
> volume #8 level 0.5
> volume #8 level 0.2
> volume #8 level 0.3
> volume #8 level 0.26
> volume #8 level 0.3
> volume #8 level 0.26
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/2b.png
> width 7870 height 5230 supersample 3
> volume #8 transparency 1
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/2b.png
> width 7870 height 5230 supersample 3
> open inactivated_P109_J359_highres_deepem_resample.mrc
Opened inactivated_P109_J359_highres_deepem_resample.mrc, grid size
384,384,384, pixel 0.827, shown at level 0.00103, step 2, values float32
> open inactivated_mask.mrc
Opened inactivated_mask.mrc, grid size 384,384,384, pixel 0.827, shown at
level 0.124, step 2, values float32
> open inactivated_ref11b_coot1.pdb
Chain information for inactivated_ref11b_coot1.pdb #11
---
Chain | Description
A B C | No description available
> show :148 :155 :162 :190
> show nucleic
> hide protein|solvent|H
> surface hidePatches
> style (protein|nucleic|solvent) & @@draw_mode=0 stick
Changed 0 atom styles
> cartoon
> cartoon style ~(nucleic|strand) xsection round
> cartoon style (nucleic|strand) xsection rectangle
> cartoon style protein modeHelix tube radius 2 sides 24 thickness 0.6
> cartoon style nucleic xsection round width 1.6 thickness 1.6
> nucleotides stubs
> volume #10 step 1 level 0.22
> volume #9 step 1 level 0.15
> color #10 silver
> volume #10 transparency 0.9
> color #11/A wheat
> color #11/B dark orange
> color #11/C white
> color zone #9 near #11 distance 5
> hide #7 models
> hide #!8 models
> hide #11 models
> volume #10 level 0.15
> volume #9 level 0.12
> volume #9 level 0.13
> volume #9 level 0.12
> volume #9 level 0.13
> volume #9 level 0.15
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/1c.png
> width 7870 height 5230 supersample 3
> show #11 models
> hide #!10 models
> hide #!9 models
> show :148 :155 :162 :190
> show nucleic
> hide protein|solvent|H
> surface hidePatches
> style (protein|nucleic|solvent) & @@draw_mode=0 stick
Changed 0 atom styles
> cartoon
> cartoon style ~(nucleic|strand) xsection round
> cartoon style (nucleic|strand) xsection rectangle
> cartoon style protein modeHelix tube radius 2 sides 24 thickness 0.6
> cartoon style nucleic xsection round width 1.6 thickness 1.6
> nucleotides stubs
> show :148 :155 :162 :190
> cartoon style modeHelix default arrows true arrowsHelix false arrowScale 2
> width 2 thickness 0.6
> size stickRadius 0.4
Changed 20700 bond radii
> show nucleic
> hide protein|solvent|H
> surface hidePatches
> style (protein|nucleic|solvent) & @@draw_mode=0 stick
Changed 0 atom styles
> cartoon
> cartoon style ~(nucleic|strand) xsection round
> cartoon style (nucleic|strand) xsection rectangle
> cartoon style protein modeHelix tube radius 2 sides 24 thickness 0.6
> cartoon style nucleic xsection round width 1.6 thickness 1.6
> nucleotides stubs
> open inactivated_P109_J359_highres_deepem_resample.mrc
Opened inactivated_P109_J359_highres_deepem_resample.mrc, grid size
384,384,384, pixel 0.827, shown at level 0.00103, step 2, values float32
> volume #12 step 1 level 0.3
> color #12 silver
> volume #12 transparency 1
> volume #12 level 0.26
> volume #12 level 0.3
> volume #12 level 0.2
> volume #12 level 0.26
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/2c.png
> width 7870 height 5230 supersample 3
> show :148 :155 :162 :190
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/2c.png
> width 7870 height 5230 supersample 3
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/1.cxs
opened ChimeraX session
> turn z 20
> turn z -20
> turn y 20
> color #11/A dark orange
> color #11/B medium violet red
> color #11/C slate blue
> color #A dark orange
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random' or a keyword
> color #B medium violet red
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random' or a keyword
> color #C slate blue
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random' or a keyword
> color /A dark orange
> color /B medium violet red
> color /C slate blue
> volume #12 transparency 0.9
> volume #12 transparency 0.9
> volume #8 transparency 0.9
> volume #4 transparency 0.9
> volume #2 transparency 0.9
> volume #6 transparency 0.9
> volume #10 transparency 0.9
> color zone #9 near #11 distance 5
> color zone #5 near #7 distance 7
> color zone #1 near #3 distance 5
> hide #11 models
> hide #!12 models
> show #!1 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
QFileSystemWatcher::removePaths: list is empty
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/1a.png
> width 7870 height 5230 supersample 3
> volume #2 transparency 0.8
> volume #6 transparency 0.8
> volume #10 transparency 0.8
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/1a2.png
> width 7870 height 5230 supersample 3
> volume #2 transparency 0.5
> volume #6 transparency 0.5
> volume #10 transparency 0.5
> volume #2 transparency 0.7
> volume #6 transparency 0.7
> volume #10 transparency 0.7
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/1a3.png
> width 787 height 523 supersample 3
> volume #2 transparency 0.75
> volume #6 transparency 0.75
> volume #10 transparency 0.75
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/1a3.png
> width 787 height 523 supersample 3
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/1a3.png
> width 7870 height 5230 supersample 3
> color #2 grey
> color #6 grey
> color #10 grey
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/1a4.png
> width 7870 height 5230 supersample 3
> color #2 wheat
> color #6 wheat
> color #10 wheat
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/1a5.png
> width 7870 height 5230 supersample 3
> volume #2 transparency 0.6
> volume #6 transparency 0.6
> volume #10 transparency 0.6
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/1a6.png
> width 7870 height 5230 supersample 3
> color /A orange
> color /B medium violet red
> color /C slate blue
> color zone #9 near #11 distance 5
> color zone #5 near #7 distance 7
> color zone #1 near #3 distance 5
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/1a7.png
> width 2000 height 1329 supersample 3
> color #2 grey
> color #6 grey
> color #10 grey
> volume #2 transparency 1
> volume #6 transparency 1
> volume #10 transparency 1
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/1a7.png
> width 7870 height 5230 supersample 3
> volume #2 transparency 0.9
> volume #6 transparency 0.9
> volume #10 transparency 0.9
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/1a8.png
> width 7870 height 5230 supersample 3
> volume #2 transparency 0.95
> volume #6 transparency 0.95
> volume #10 transparency 0.95
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/1a9.png
> width 7870 height 5230 supersample 3
> color /A wheat
> color /B medium violet red
> color /C slate blue
> volume #12 transparency 0.9
> volume #8 transparency 0.9
> volume #4 transparency 0.9
> volume #2 transparency 0.95
> volume #6 transparency 0.95
> volume #10 transparency 0.95
> color zone #9 near #11 distance 5
> color zone #5 near #7 distance 7
> color zone #1 near #3 distance 5
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/1a10.png
> width 7870 height 5230 supersample 3
> turn y 120
> turn y 120
> turn y 120
> turn y 120
> color /A wheat
> color /B medium violet red
> color /C royal blue
> volume #12 transparency 0.9
> volume #8 transparency 0.9
> volume #4 transparency 0.9
> volume #2 transparency 0.95
> volume #6 transparency 0.95
> volume #10 transparency 0.95
> color zone #9 near #11 distance 5
> color zone #5 near #7 distance 7
> color zone #1 near #3 distance 5
> color #2 grey
> color #6 grey
> color #10 grey
> color /A wheat
> color /B crimson
> color /C royal blue
> volume #12 transparency 0.9
> volume #8 transparency 0.9
> volume #4 transparency 0.9
> volume #2 transparency 0.95
> volume #6 transparency 0.95
> volume #10 transparency 0.95
> color zone #9 near #11 distance 5
> color zone #5 near #7 distance 7
> color zone #1 near #3 distance 5
> lighting soft
> lighting simple
> lighting soft
> lighting full
> lighting soft
> lighting full
> lighting soft
> lighting full
> lighting soft
> color /A yellow
> color /B crimson
> color /C royal blue
> volume #12 transparency 0.9
> volume #8 transparency 0.9
> volume #4 transparency 0.9
> volume #2 transparency 0.95
> volume #6 transparency 0.95
> volume #10 transparency 0.95
> color /A orange
> color /B crimson
> color /C royal blue
> volume #12 transparency 0.9
> volume #8 transparency 0.9
> volume #4 transparency 0.9
> volume #2 transparency 0.95
> volume #6 transparency 0.95
> volume #10 transparency 0.95
> color zone #9 near #11 distance 5
> color zone #5 near #7 distance 7
> color zone #1 near #3 distance 5
> color #2 grey
> color #6 grey
> color #10 grey
> lighting full
> lighting soft
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/1a11.png
> width 7870 height 5230 supersample 3
> lighting soft
> lighting shadows true
> lighting shadows true intensity 0.5
> lighting shadows false
> graphics silhouettes true
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/1a12.png
> width 7870 height 5230 supersample 3
> graphics silhouettes true
> color /A wheat
> color /B crimson
> color /C royal blue
> volume #12 transparency 0.9
> volume #8 transparency 0.9
> volume #4 transparency 0.9
> volume #2 transparency 0.95
> volume #6 transparency 0.95
> volume #10 transparency 0.95
> color zone #9 near #11 distance 5
> color zone #5 near #7 distance 7
> color zone #1 near #3 distance 5
> turn y 120
> turn y 120
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/1a13.png
> width 7870 height 5230 supersample 3
> color /A wheat
> color /B medium violet red
> color /C royal blue
> volume #12 transparency 0.9
> volume #8 transparency 0.9
> volume #4 transparency 0.9
> volume #2 transparency 0.95
> volume #6 transparency 0.95
> volume #10 transparency 0.95
> color zone #9 near #11 distance 5
> color zone #5 near #7 distance 7
> color zone #1 near #3 distance 5
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/1a.png
> width 4240 height 5230 supersample 3
> hide #!2 models
> hide #!1 models
> show #!4 models
> hide #!4 models
> show #!5 models
> show #!6 models
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/1.png
> width 4240 height 5230 supersample 3
> hide #!5 models
> hide #!6 models
> show #!6 models
> hide #!6 models
> show #7 models
> hide #7 models
> show #!8 models
> hide #!8 models
> show #!9 models
> show #!10 models
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/1c.png
> width 4240 height 5230 supersample 3
> hide #!10 models
> hide #!9 models
> show #11 models
> show #!12 models
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/2c.png
> width 4240 height 5230 supersample 3
> hide #11 models
> hide #!12 models
> show #!8 models
> show #7 models
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/2b.png
> width 4240 height 5230 supersample 3
> hide #7 models
> hide #!8 models
> show #3 models
> show #!4 models
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/2a.png
> width 4240 height 5230 supersample 3
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver2/ver2a.cxs
opened ChimeraX session
> turn y 20
> hide #3 models
> hide #!4 models
> show #7 models
> show #!8 models
> hide #!8 models
> show #!8 models
> color /A medium violet red
> color /B royal blue
> color /C yellow
> volume #12 transparency 0.9
> volume #8 transparency 0.9
> volume #4 transparency 0.9
> volume #2 transparency 0.95
> volume #6 transparency 0.95
> volume #10 transparency 0.95
> color zone #9 near #11 distance 5
> color zone #5 near #7 distance 7
> color zone #1 near #3 distance 5
> color #2 grey
> color #6 grey
> color #10 grey
> color #4 grey
> color #8 grey
> color #12 grey
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver3/xxx.png
> width 5400 height 5230 supersample 3
> color /A crimson
> color /B royal blue
> color /C yellow
> volume #12 transparency 0.9
> volume #8 transparency 0.9
> volume #4 transparency 0.9
> volume #2 transparency 0.95
> volume #6 transparency 0.95
> volume #10 transparency 0.95
> color zone #9 near #11 distance 5
> color zone #5 near #7 distance 7
> color zone #1 near #3 distance 5
> color #2 grey
> color #6 grey
> color #10 grey
> color #4 grey
> color #8 grey
> color #12 grey
> color /A crimson
> color /B royal blue
> color /C yellow
> volume #12 transparency 0.8
> volume #8 transparency 0.8
> volume #4 transparency 0.8
> volume #2 transparency 0.95
> volume #6 transparency 0.95
> volume #10 transparency 0.95
> color zone #9 near #11 distance 5
> color zone #5 near #7 distance 7
> color zone #1 near #3 distance 5
> color #2 grey
> color #6 grey
> color #10 grey
> color #4 grey
> color #8 grey
> color #12 grey
> hide #7 models
> hide #!8 models
> show #!1 models
> show #!2 models
> hide #!2 models
> show #!2 models
QFileSystemWatcher::removePaths: list is empty
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver6/1a.png
> width 4200 height 5230 supersample 3
> hide #!1 models
> hide #!2 models
> show #3 models
> show #!4 models
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver6/1b.png
> width 4200 height 5230 supersample 3
> hide #3 models
> hide #!4 models
> show #!5 models
> show #!6 models
QFileSystemWatcher::removePaths: list is empty
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver6/1b.png
> width 4200 height 5230 supersample 3
> hide #!5 models
> hide #!6 models
> show #7 models
> show #!8 models
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver6/2b.png
> width 4200 height 5230 supersample 3
> hide #!8 models
> hide #7 models
> show #!9 models
> show #!10 models
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver6/1c.png
> width 4200 height 5230 supersample 3
> hide #!10 models
> show #!10 models
> hide #!9 models
> hide #!10 models
> show #11 models
> show #!12 models
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver6/2c.png
> width 4200 height 5230 supersample 3
> save
> C:/Users/Administrator/Desktop/Figure2_overall_architecture/Figure1/Images/ver6/ver6.cxs
restore_snapshot for "ZoneColor" returned None
restore_snapshot for "ZoneColor" returned None
restore_snapshot for "ZoneColor" returned None
Unable to restore session, resetting.
Traceback (most recent call last):
File "/programs/x86_64-linux/chimerax/1.1.1/ChimeraX/lib/python3.7/site-
packages/chimerax/core/session.py", line 683, in restore
obj = sm.restore_snapshot(self, data)
File "/programs/x86_64-linux/chimerax/1.1.1/ChimeraX/lib/python3.7/site-
packages/chimerax/surface/updaters.py", line 26, in restore_snapshot
return SurfaceUpdaters(data['updaters'])
File "/programs/x86_64-linux/chimerax/1.1.1/ChimeraX/lib/python3.7/site-
packages/chimerax/surface/updaters.py", line 10, in __init__
self._updaters = WeakSet(updaters)
File
"/programs/x86_64-linux/chimerax/1.1.1/ChimeraX/lib/python3.7/_weakrefset.py",
line 50, in __init__
self.update(data)
File
"/programs/x86_64-linux/chimerax/1.1.1/ChimeraX/lib/python3.7/_weakrefset.py",
line 120, in update
self.add(element)
File
"/programs/x86_64-linux/chimerax/1.1.1/ChimeraX/lib/python3.7/_weakrefset.py",
line 84, in add
self.data.add(ref(item, self._remove))
TypeError: cannot create weak reference to 'NoneType' object
opened ChimeraX session
OpenGL version: 3.3.0 NVIDIA 460.27.04
OpenGL renderer: Quadro M2000/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Manufacturer: Supermicro
Model: SYS-7048GR-TR
OS: CentOS Linux 7 Core
Architecture: 64bit ELF
CPU: 56 Intel(R) Xeon(R) CPU E5-2680 v4 @ 2.40GHz
Cache Size: 35840 KB
Memory:
total used free shared buff/cache available
Mem: 251G 8.0G 229G 1.2G 14G 240G
Swap: 8.0G 0B 8.0G
Graphics:
01:00.0 VGA compatible controller [0300]: NVIDIA Corporation GM206GL [Quadro M2000] [10de:1430] (rev a1)
Subsystem: NVIDIA Corporation Device [10de:1190]
Kernel driver in use: nvidia
PyQt version: 5.12.3
Compiled Qt version: 5.12.4
Runtime Qt version: 5.12.9
Installed Packages:
alabaster: 0.7.12
appdirs: 1.4.4
Babel: 2.8.0
backcall: 0.2.0
blockdiag: 2.0.1
certifi: 2020.6.20
chardet: 3.0.4
ChimeraX-AddH: 2.1.1
ChimeraX-AlignmentAlgorithms: 2.0
ChimeraX-AlignmentHdrs: 3.2
ChimeraX-AlignmentMatrices: 2.0
ChimeraX-Alignments: 2.1
ChimeraX-Arrays: 1.0
ChimeraX-Atomic: 1.6.1
ChimeraX-AtomSearch: 2.0
ChimeraX-AxesPlanes: 2.0
ChimeraX-BasicActions: 1.1
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 1.0.1
ChimeraX-BondRot: 2.0
ChimeraX-BugReporter: 1.0
ChimeraX-BuildStructure: 2.0
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.0
ChimeraX-ButtonPanel: 1.0
ChimeraX-CageBuilder: 1.0
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.1
ChimeraX-ChemGroup: 2.0
ChimeraX-Clashes: 2.0
ChimeraX-Clipper: 0.15.0
ChimeraX-ColorActions: 1.0
ChimeraX-ColorGlobe: 1.0
ChimeraX-CommandLine: 1.1.3
ChimeraX-ConnectStructure: 2.0
ChimeraX-Contacts: 1.0
ChimeraX-Core: 1.1
ChimeraX-CoreFormats: 1.0
ChimeraX-coulombic: 1.0.1
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-DataFormats: 1.0
ChimeraX-Dicom: 1.0
ChimeraX-DistMonitor: 1.1
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: 2.0
ChimeraX-Help: 1.0
ChimeraX-HKCage: 1.0
ChimeraX-IHM: 1.0
ChimeraX-ImageFormats: 1.0
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0
ChimeraX-ISOLDE: 1.1.0
ChimeraX-Label: 1.0
ChimeraX-LinuxSupport: 1.0
ChimeraX-ListInfo: 1.0
ChimeraX-Log: 1.1.1
ChimeraX-LookingGlass: 1.1
ChimeraX-Map: 1.0.1
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: 1.1
ChimeraX-MDcrds: 2.0
ChimeraX-MedicalToolbar: 1.0.1
ChimeraX-Meeting: 1.0
ChimeraX-MLP: 1.0
ChimeraX-mmCIF: 2.2
ChimeraX-MMTF: 2.0
ChimeraX-Modeller: 1.0
ChimeraX-ModelPanel: 1.0
ChimeraX-ModelSeries: 1.0
ChimeraX-Mol2: 2.0
ChimeraX-Morph: 1.0
ChimeraX-MouseModes: 1.0
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nucleotides: 2.0
ChimeraX-OpenCommand: 1.2.1
ChimeraX-PDB: 2.1
ChimeraX-PDBBio: 1.0
ChimeraX-PickBlobs: 1.0
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.0
ChimeraX-PubChem: 2.0
ChimeraX-Read-Pbonds: 1.0
ChimeraX-Registration: 1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-ResidueFit: 1.0
ChimeraX-RestServer: 1.0
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 2.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.2
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0
ChimeraX-SeqView: 2.2
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
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.0.4
ChimeraX-STL: 1.0
ChimeraX-Storm: 1.0
ChimeraX-Struts: 1.0
ChimeraX-Surface: 1.0
ChimeraX-SwapAA: 2.0
ChimeraX-SwapRes: 2.0
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.0
ChimeraX-ToolshedUtils: 1.0
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.2.3
ChimeraX-uniprot: 2.0
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: 0.29.20
decorator: 4.4.2
distlib: 0.3.1
distro: 1.5.0
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: 0.16
imagecodecs: 2020.5.30
imagecodecs-lite: 2020.1.31
imagesize: 1.2.0
ipykernel: 5.3.0
ipython: 7.15.0
ipython-genutils: 0.2.0
jedi: 0.17.2
Jinja2: 2.11.2
jupyter-client: 6.1.3
jupyter-core: 4.6.3
kiwisolver: 1.2.0
line-profiler: 2.1.2
lxml: 4.5.1
MarkupSafe: 1.1.1
matplotlib: 3.2.1
msgpack: 1.0.0
netifaces: 0.10.9
networkx: 2.4
numexpr: 2.7.1
numpy: 1.18.5
numpydoc: 1.0.0
openvr: 1.12.501
packaging: 20.4
parso: 0.7.1
pexpect: 4.8.0
pickleshare: 0.7.5
Pillow: 7.1.2
pip: 20.2.2
pkginfo: 1.5.0.1
prompt-toolkit: 3.0.7
psutil: 5.7.0
ptyprocess: 0.6.0
pycollada: 0.7.1
pydicom: 2.0.0
Pygments: 2.6.1
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 2.4.7
PyQt5-commercial: 5.12.3
PyQt5-sip: 4.19.19
PyQtWebEngine-commercial: 5.12.1
python-dateutil: 2.8.1
pytz: 2020.1
pyzmq: 19.0.2
qtconsole: 4.7.4
QtPy: 1.9.0
RandomWords: 0.3.0
requests: 2.24.0
scipy: 1.4.1
setuptools: 49.4.0
sfftk-rw: 0.6.6.dev0
six: 1.15.0
snowballstemmer: 2.0.0
sortedcontainers: 2.2.2
Sphinx: 3.1.1
sphinxcontrib-applehelp: 1.0.2
sphinxcontrib-blockdiag: 2.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 1.0.3
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.4
suds-jurko: 0.6
tables: 3.6.1
tifffile: 2020.6.3
tinyarray: 1.2.2
tornado: 6.0.4
traitlets: 5.0.4
urllib3: 1.25.10
wcwidth: 0.2.5
webcolors: 1.11.1
wheel: 0.34.2
Change History (2)
comment:1 by , 4 years ago
| Component: | Unassigned → Sessions |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → restore_snapshot for "ZoneColor" returned None |
comment:2 by , 4 years ago
| Resolution: | → duplicate |
|---|---|
| Status: | assigned → closed |
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Fixed in ChimeraX 1.2 in October 2020.