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Opened 9 months ago
Closed 9 months ago
#16767 closed defect (duplicate)
Can't save session because NewerVersionQuery not listed
| Reported by: | Owned by: | Greg Couch | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Sessions | Version: | |
| Keywords: | Cc: | Zach Pearson, Eric Pettersen | |
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-13.6.7-arm64-arm-64bit
ChimeraX Version: 1.7.dev202309270131 (2023-09-27 01:31:04 UTC)
Description
(Describe the actions that caused this problem to occur here)
Log:
UCSF ChimeraX version: 1.7.dev202309270131 (2023-09-27)
© 2016-2023 Regents of the University of California. All rights reserved.
> open /Users/jiaxuanc2/Desktop/VRC35/figure/angle_2VRC35_Fabs.cxs
restore_snapshot for "Volume" returned None
restore_snapshot for "VolumeSurface" returned None
Opened sharpened-overall-HT-0709.mrc gaussian as #3, grid size 420,420,420,
pixel 0.83, shown at level 1.4, step 1, values float32
Opened sharpened-overall-HT-0709.mrc gaussian 1 as #4.2, grid size
420,420,420, pixel 0.83, shown at level 1.4, step 1, values float32
Opened sharpened-overall-HT-0709.mrc gaussian 2 as #4.3, grid size
420,420,420, pixel 0.83, shown at level 1.16, step 1, values float32
Opened sharpened-overall-HT-0709.mrc gaussian 3 as #4.4, grid size
420,420,420, pixel 0.83, shown at level 1.4, step 1, values float32
Opened sharpened-overall-HT-0709.mrc gaussian 4 as #4.5, grid size
420,420,420, pixel 0.83, shown at level 1.4, step 1, values float32
Opened sharpened-overall-HT-0709.mrc gaussian 5 as #4.6, grid size
420,420,420, pixel 0.83, shown at level 1.4, step 1, values float32
Opened sharpened-overall-HT-0709.mrc gaussian 6 as #4.7, grid size
420,420,420, pixel 0.83, shown at level 1.4, step 1, values float32
Opened sharpened-overall-HT-0709.mrc gaussian 7 as #4.8, grid size
420,420,420, pixel 0.83, shown at level 1.17, step 1, values float32
restore_snapshot for "Redust" returned None
restore_snapshot for "ZoneColor" returned None
Log from Tue Jul 9 20:52:37 2024 Startup Messages
---
warning | Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR
bundle with that from NMRSTAR bundle
UCSF ChimeraX version: 1.7.dev202309270131 (2023-09-27)
© 2016-2023 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open "/Users/jiaxuanc2/Desktop/VRC35/VRC35-HA
> complex/pdb/H3VIC11-MEDI8852-VRC35-whole-0709.pdb"
Summary of feedback from opening /Users/jiaxuanc2/Desktop/VRC35/VRC35-HA
complex/pdb/H3VIC11-MEDI8852-VRC35-whole-0709.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 1 LEU A 66
LEU A 71 1 6
Start residue of secondary structure not found: HELIX 2 2 PRO A 74 CYS A 76 1
3
Start residue of secondary structure not found: HELIX 3 3 TYR A 105 SER A 115
1 11
Start residue of secondary structure not found: HELIX 4 4 ALA B 5 PHE B 9 1 5
Start residue of secondary structure not found: HELIX 5 5 LEU B 38 LEU B 55 1
18
279 messages similar to the above omitted
Chain information for H3VIC11-MEDI8852-VRC35-whole-0709.pdb
---
Chain | Description
1.1/A 1.2/C 1.3/E | No description available
1.1/B 1.2/D 1.3/F | No description available
1.1/G 1.2/I 1.3/K | No description available
1.1/H 1.2/J 1.3/L | No description available
1.1/a 1.1/c 1.2/e 1.2/g 1.3/i 1.3/k | No description available
1.1/b 1.1/d 1.2/f 1.2/h 1.3/j 1.3/l | No description available
> set bgColor white
> show cartoons
> hide atoms
> close #1
> open "/Users/jiaxuanc2/Desktop/VRC35/VRC35-HA
> complex/pdb/H3VIC11-MEDI8852-VRC35-whole-0709.pdb"
Chain information for H3VIC11-MEDI8852-VRC35-whole-0709.pdb #1
---
Chain | Description
A C E | No description available
B D F | No description available
G I K | No description available
H J L | No description available
a c e g i k | No description available
b d f h j l | No description available
> show cartoons
> hide atoms
> open "/Users/jiaxuanc2/Desktop/VRC35/VRC35-HA complex/map-0709/sharpened-
> overall-HT-0709.mrc"
Opened sharpened-overall-HT-0709.mrc as #2, grid size 420,420,420, pixel 0.83,
shown at level 0.762, step 2, values float32
> volume #2 step 1
> volume #2 level 1.266
> ui tool show "Hide Dust"
> surface dust #2 size 4.98
> volume #2 level 1.434
> color #1/A,C,E dark grey
> color #1/B,D,F dim grey
> color ::name="BMA"::name="MAN"::name="NAG" lime
> select ::name="BMA"::name="MAN"::name="NAG"
1125 atoms, 1185 bonds, 90 residues, 1 model selected
> show sel target ab
> select clear
> color #1/a,c,e,g,I,k purple
> color #1/b,d,f,h,j,l pink
> color #1/a,c,e,g,i,k purple
> color #1/b,d,f,h,j,l pink
> ui tool show "Color Actions"
> color #1/a,c,e,g,i,k medium purple
> color #1/b,d,f,h,j,l pink
> ui tool show "Color Actions"
> color #1/G,I,K royal blue
> color #1/H,J,L deep sky blue
> color #1/G,I,K royal blue
> color #1/H,J,L sky blue
> color #2 white
> lighting soft
> graphics silhouettes true
> lighting shadows true intensity 0.5
> lighting shadows false
> color #2 white transparency 0.1
> lighting soft
> volume #2 transparency 0.1
> volume #2 transparency 0.9
> show cartoons
> volume #2 level 2.273
> volume #2 level 3.448
> volume #2 level 4.454
> surface dust #2 size 4.98
> surface undust #2
> surface dust #2 size 4.98
> lighting soft
[Repeated 1 time(s)]
> lighting full
> lighting soft
> lighting simple
> lighting soft
> lighting shadows true intensity 0.5
> lighting shadows false
> lighting shadows true
> lighting shadows false
> lighting shadows true
> lighting shadows false
> graphics silhouettes false
> graphics silhouettes true
> graphics silhouettes false
> graphics silhouettes true
Drag select of 1125 atoms, 5424 residues, 3 pseudobonds, 1185 bonds, 2
sharpened-overall-HT-0709.mrc
> ui tool show "Color Zone"
> color zone #2 near #1 distance 4.98
> volume #2 level 1.733
> volume #2 level 2.413
> volume #2 level 2.005
> select clear
> volume #2 transparency 0.9
> volume #2 transparency 0.7
> volume #2 transparency 0.4
> volume #2 transparency 0.5
> volume #2 transparency 0.7
> volume #2 level 2.686
> volume #2 level 3.774
> color zone #2 near #1 distance 4.98
> hide #!1 models
> lighting soft
[Repeated 1 time(s)]
> lighting shadows true intensity 0.5
> lighting shadows false
> lighting full
> lighting shadows false
> lighting shadows true
> lighting soft
> lighting shadows true intensity 0.5
> lighting shadows false
> lighting shadows true
> lighting shadows false
> graphics silhouettes false
> graphics silhouettes true
> show #!1 models
> volume #2 transparency 0.7
> volume #2 transparency 0.6
> volume #2 level 4.182
> lighting soft
[Repeated 1 time(s)]
> lighting shadows true intensity 0.5
> lighting shadows false
> volume #2 level 1.869
> color zone #2 near #1 distance 4.98
> volume #2 level 1.461
> volume #2 transparency 0.6
> volume #2 transparency 0.8
> volume #2 level 2.005
> volume #2 level 2.413
> volume #2 level 4.318
> ui tool show "Side View"
> lighting shadows true
> lighting shadows false
> lighting shadows true
> lighting shadows false
> lighting soft
[Repeated 1 time(s)]
> lighting shadows true intensity 0.5
> lighting shadows false
> lighting soft
> lighting shadows true intensity 0.5
> lighting shadows false
> lighting soft
> save /Users/jiaxuanc2/Desktop/VRC35/figure/overall-map-0709-1.png width 1198
> height 850 supersample 3 transparentBackground true
> save /Users/jiaxuanc2/Desktop/VRC35/figure/overall-map-0709-1.cxs
> includeMaps true
> lighting soft
> lighting shadows true intensity 0.5
> lighting shadows false
> lighting shadows true
> lighting shadows false
> lighting shadows true
> lighting soft
> save /Users/jiaxuanc2/Desktop/VRC35/figure/overall-map-0709-top.cxs
> includeMaps true
> save /Users/jiaxuanc2/Desktop/VRC35/figure/overall-map-0709-top.png width
> 1198 height 850 supersample 3 transparentBackground true
> save /Users/jiaxuanc2/Desktop/VRC35/figure/overall-map-0709-top-nomap.png
> width 1198 height 850 supersample 3 transparentBackground true
> save /Users/jiaxuanc2/Desktop/VRC35/figure/overall-map-0709-top-nomap.cxs
> save /Users/jiaxuanc2/Desktop/VRC35/figure/overall-map-0709-side-nomap.cxs
> save /Users/jiaxuanc2/Desktop/VRC35/figure/overall-map-0709-side-nomap.png
> width 1198 height 850 supersample 3 transparentBackground true
> color #1/A,C,E grey
> color #1/A,C,E light grey
> color ::name="BMA"::name="MAN"::name="NAG" lime
> lighting shadows true intensity 0.5
> lighting shadows false
> save /Users/jiaxuanc2/Desktop/VRC35/figure/overall-map-0709-side-nomap.png
> width 1198 height 850 supersample 3 transparentBackground true
> color zone #2 near #1 distance 4.98
> hide #!1 models
> volume #2 level 4.046
> show #!1 models
> volume #2 level 2.686
> ui tool show "Side View"
> hide #!1 models
> graphics silhouettes false
> lighting full
> lighting soft
[Repeated 1 time(s)]
> lighting shadows true intensity 0.5
> lighting shadows false
> show #!1 models
> volume #2 transparency 0.4
> graphics silhouettes true
> volume #2 transparency 9
> volume #2 transparency 1
> volume #2 transparency 0
> volume #2 transparency 0.1
> lighting soft
> lighting shadows true intensity 0.5
> lighting shadows false
> lighting soft
> volume #2 level 2.277
> color zone #2 near #1 distance 4.98
> lighting shadows true intensity 0.5
> lighting shadows false
> volume #2 transparency 0.4
> volume #2 transparency 0
> color zone #2 near #1 distance 8
> color single #2
> color zone #2 near #1 distance 8
> graphics silhouettes false
> lighting soft
> lighting shadows true intensity 0.5
> lighting shadows false
> lighting shadows true
> lighting shadows false
> ui tool show "Map Filter"
> volume gaussian #2 sDev 0.42
Opened sharpened-overall-HT-0709.mrc gaussian as #3, grid size 420,420,420,
pixel 0.83, shown at step 1, values float32
> volume gaussian #2 sDev 0.82 modelId #3
Opened sharpened-overall-HT-0709.mrc gaussian as #3, grid size 420,420,420,
pixel 0.83, shown at step 1, values float32
> color #3 white models
Drag select of 1125 atoms, 5424 residues, 3 pseudobonds, 1185 bonds, 3
sharpened-overall-HT-0709.mrc gaussian
> color zone #2 near #1 distance 8
> color zone #3 near #1 distance 4.98
> select clear
> hide #!1 models
> volume #3 level 1.403
> ui tool show "Hide Dust"
> surface dust #3 size 4.98
> volume splitbyzone #3
Opened sharpened-overall-HT-0709.mrc gaussian 0 as #4.1, grid size
420,420,420, pixel 0.83, shown at level 1.4, step 1, values float32
Opened sharpened-overall-HT-0709.mrc gaussian 1 as #4.2, grid size
420,420,420, pixel 0.83, shown at level 1.4, step 1, values float32
Opened sharpened-overall-HT-0709.mrc gaussian 2 as #4.3, grid size
420,420,420, pixel 0.83, shown at level 1.4, step 1, values float32
Opened sharpened-overall-HT-0709.mrc gaussian 3 as #4.4, grid size
420,420,420, pixel 0.83, shown at level 1.4, step 1, values float32
Opened sharpened-overall-HT-0709.mrc gaussian 4 as #4.5, grid size
420,420,420, pixel 0.83, shown at level 1.4, step 1, values float32
Opened sharpened-overall-HT-0709.mrc gaussian 5 as #4.6, grid size
420,420,420, pixel 0.83, shown at level 1.4, step 1, values float32
Opened sharpened-overall-HT-0709.mrc gaussian 6 as #4.7, grid size
420,420,420, pixel 0.83, shown at level 1.4, step 1, values float32
Opened sharpened-overall-HT-0709.mrc gaussian 7 as #4.8, grid size
420,420,420, pixel 0.83, shown at level 1.4, step 1, values float32
> surface dust #3 size 4.98
> close #4.1
> surface dust #4.8 size 4.98
> surface dust #4.7 size 4.98
> surface dust #4.6 size 4.98
> surface dust #4.5 size 4.98
> surface dust #4.4 size 4.98
> surface dust #4.3 size 4.98
> surface dust #4.2 size 4.98
> lighting soft
> lighting shadows true intensity 0.5
> lighting shadows false
> volume #4.8 level 1.167
> volume #4.3 level 1.158
> save /Users/jiaxuanc2/Desktop/VRC35/figure/overall-map-0709-side-map.png
> width 1141 height 850 supersample 3 transparentBackground true
> lighting soft
> lighting shadows true intensity 0.5
> lighting shadows false
> lighting shadows true
> graphics silhouettes true
> save /Users/jiaxuanc2/Desktop/VRC35/figure/overall-map-0709-side-map.png
> width 1141 height 806 supersample 3 transparentBackground true
> lighting shadows false
> lighting shadows true
> lighting shadows false
> save /Users/jiaxuanc2/Desktop/VRC35/figure/overall-map-0709-side-map.png
> width 1141 height 806 supersample 3 transparentBackground true
> save /Users/jiaxuanc2/Desktop/VRC35/figure/overall-map-0709-side-map.cxs
> includeMaps true
> save /Users/jiaxuanc2/Desktop/VRC35/figure/overall-map-0709-top-map.cxs
> includeMaps true
> save /Users/jiaxuanc2/Desktop/VRC35/figure/overall-map-0709-top-map.png
> width 1141 height 806 supersample 3 transparentBackground true
> show #!1 models
> hide #!4 models
> hide #!4.2 models
> show #!4.2 models
> hide #!4 models
> hide #!4.2 models
> hide #!4.8 models
> hide #!4.7 models
> show #!4.8 models
> show #!4.7 models
> show #!4.2 models
> hide #!4 models
> open "/Users/jiaxuanc2/Desktop/VRC35/VRC35-HA
> complex/pdb/VRC35_Fab+glycans.pdb"
Chain information for VRC35_Fab+glycans.pdb #5
---
Chain | Description
A | No description available
a c | No description available
b d | No description available
> hide #!1 models
> show #!5 cartoons
> hide #!5 atoms
> show #5 target ab
> show #!5 cartoons
> hide #!5 atoms
> select ::name="BMA"::name="MAN"::name="NAG"
1308 atoms, 1380 bonds, 105 residues, 2 models selected
> show (#!5 & sel) target ab
> color (#!5 & sel) lime
> color (#!5 & sel) byhetero
> select clear
> show #!5 atoms
> show #!5 cartoons
[Repeated 1 time(s)]
> hide #!5 atoms
> select ::name="BMA"::name="MAN"::name="NAG"
1308 atoms, 1380 bonds, 105 residues, 2 models selected
> show (#!5 & sel) target ab
> select clear
> color ::name="BMA"::name="MAN"::name="NAG" lime
> color #1/a,c medium purple
> color #1/b,d pink
> color #5 byhetero
> color #5/a,c medium purple
> color #5/b,d pink
> lighting soft
> select clear
[Repeated 2 time(s)]
> open "/Users/jiaxuanc2/Desktop/VRC35/VRC35-HA
> complex/pdb/VRC35_Fab+glycans.pdb"
Chain information for VRC35_Fab+glycans.pdb #6
---
Chain | Description
A | No description available
a c | No description available
b d | No description available
> hide #!5-6 atoms
> show #!5-6 cartoons
> hide #!5 models
> select ::name="BMA"::name="MAN"::name="NAG"
1491 atoms, 1570 bonds, 120 residues, 3 models selected
> show (#!6 & sel) target ab
> select clear
> close #6
> show #!5 models
> select ::name="BMA"::name="MAN"::name="NAG"
1308 atoms, 1380 bonds, 105 residues, 2 models selected
> show (#!5 & sel) target ab
> select clear
> cartoon suppressBackboneDisplay false
> ~select
Nothing selected
> ~select
Nothing selected
> show #!5 atoms
> ui tool show Log
[Repeated 2 time(s)]
> show #!5 atoms
> style #!5 stick
Changed 6949 atom styles
> style #!5 ball
Changed 6949 atom styles
> style #!5 stick
Changed 6949 atom styles
> ui tool show "Map Coordinates"
> ui tool show Log
> ui tool show "Volume Viewer"
> select #5/a,c
3364 atoms, 3452 bonds, 444 residues, 1 model selected
> hide sel atoms
> select #5/b,d
3378 atoms, 3452 bonds, 438 residues, 1 model selected
> hide sel atoms
> select clear
[Repeated 4 time(s)]
> ui tool show Distances
No distances to delete!
> select #5/A:126@CB
1 atom, 1 residue, 1 model selected
> select add #5/A:126@CG
2 atoms, 1 residue, 1 model selected
> select add #5/A:126@CA
3 atoms, 1 residue, 1 model selected
Drag select of 11 atoms, 11 bonds
> select clear
Drag select of 60 atoms, 2 pseudobonds, 64 bonds
> color (#!5 & sel) lime
> color (#!5 & sel) byhetero
> select clear
> ~distance
> delete distance #5/A 126-165
Missing or invalid "atoms" argument: invalid atoms specifier
> open "/Users/jiaxuanc2/Desktop/VRC35/VRC35-HA
> complex/pdb/VRC35_Fab1+glycans.pdb" "/Users/jiaxuanc2/Desktop/VRC35/VRC35-HA
> complex/pdb/VRC35_Fab2+glycans.pdb"
Chain information for VRC35_Fab1+glycans.pdb #6
---
Chain | Description
a | No description available
b | No description available
Chain information for VRC35_Fab2+glycans.pdb #7
---
Chain | Description
A | No description available
c | No description available
d | No description available
> ui tool show "Model Panel"
> hide #!5 models
> hide #6 models
> show #6 models
> hide #!7 models
> show #!7 models
> hide #6 models
> show #6 models
> hide #!7 models
> open "/Users/jiaxuanc2/Desktop/VRC35/VRC35-HA
> complex/pdb/VRC35_Fab2+1glycan.pdb"
Chain information for VRC35_Fab2+1glycan.pdb #8
---
Chain | Description
c | No description available
d | No description available
> open "/Users/jiaxuanc2/Desktop/VRC35/VRC35-HA complex/pdb/N126.pdb"
> hide #6 models
> show #6 models
> color #6/a medium purple
> color #6/b pink
> select ::name="ASN"::name="BMA"::name="MAN"::name="NAG"
4437 atoms, 4231 bonds, 3 pseudobonds, 483 residues, 8 models selected
> color (#6,8-9 & sel) lime
> color (#6,8-9 & sel) byhetero
> select clear
> color #6/a medium purple
> color #6/b pink
> color #8/a medium purple
> color #8/b pink
> color #8/c medium purple
> color #8/d pink
> color #6/a dim gray
> color #6/b dark gray
> color #6/b gray
> color #6/b light gray
> select #6/A:449@C5
1 atom, 1 residue, 1 model selected
> select add #6/A:411@C1
2 atoms, 1 bond, 2 residues, 1 model selected
> select subtract #6/A:449@C5
1 atom, 3 bonds, 1 residue, 1 model selected
> select add #6/A:449@C1
2 atoms, 5 bonds, 2 residues, 1 model selected
> select add #6/A:449@C2
3 atoms, 5 bonds, 2 residues, 1 model selected
> select add #6/A:449@C4
4 atoms, 5 bonds, 2 residues, 1 model selected
> select clear
> color #6/A dark gray
> color #6/A dim gray
> color #6,8-9 byhetero
> select #6/a,b
3371 atoms, 3452 bonds, 441 residues, 1 model selected
> ui tool show Axes/Planes/Centroids
value: None default: None
> define axis sel name axis-VRC35-1 radius 2
Axis 'VRC35_Fab1+glycans.pdb #6/axis-VRC35-1' centered at [181.41346209
208.04402705 266.90235306] with direction [ 0.1812867 -0.53747664
-0.82356177], radius 2, and length 81.1275
value: array([144, 144, 144, 255], dtype=uint8) default: None
> define axis sel color #909090 name axis-VRC35-1 radius 1
Axis 'VRC35_Fab1+glycans.pdb #6/axis-VRC35-1' centered at [181.41346209
208.04402705 266.90235306] with direction [ 0.1812867 -0.53747664
-0.82356177], radius 1, and length 81.1275
> close #6.1
> color #6.2 #0017ff
> select clear
> select #8/c,d
3371 atoms, 3452 bonds, 441 residues, 1 model selected
value: array([144, 144, 144, 255], dtype=uint8) default: None
> define axis sel color #909090 name axis-VRC35-2 radius 1
Axis 'VRC35_Fab2+1glycan.pdb #8/axis-VRC35-2' centered at [181.70311839
237.34849734 235.53286948] with direction [-0.17299787 -0.83214923
-0.52687702], radius 1, and length 81.0914
> color #8.1 #000cff
> select clear
> select #6.2
1 model selected
> select #8.1
1 model selected
> select #6.2
1 model selected
axis-VRC35-1 #6.2 to axis-VRC35-2 #8.1: distance: 29.28Å; angle: 31.8°
> select #8.1
1 model selected
> select #6.2
1 model selected
> select #8.1
1 model selected
> select clear
> save /Users/jiaxuanc2/Desktop/VRC35/figure/angle_2VRC35_Fabs.png width 1141
> height 850 supersample 3 transparentBackground true
> save /Users/jiaxuanc2/Desktop/VRC35/figure/angle_2VRC35_Fabs.cxs
> lighting soft
> lighting shadows true intensity 0.5
> lighting shadows false
> save /Users/jiaxuanc2/Desktop/VRC35/figure/angle_2VRC35_Fabs.cxs
> save /Users/jiaxuanc2/Desktop/VRC35/figure/angle_2VRC35_Fabs.png width 1141
> height 850 supersample 3 transparentBackground true
> save /Users/jiaxuanc2/Desktop/VRC35/figure/angle_2VRC35_Fabs.cxs
——— End of log from Tue Jul 9 20:52:37 2024 ———
opened ChimeraX session
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!3 models
> hide #!3 models
> show #!1 models
> hide #!1 models
> open "/Users/jiaxuanc2/Desktop/VRC35/VRC35-HA
> complex/deposition/J1196-VRC35_local/cryosparc_P338_J1196_003_volume_map-
> zflip-resampled.mrc"
Opened cryosparc_P338_J1196_003_volume_map-zflip-resampled.mrc as #2, grid
size 420,420,420, pixel 0.83, shown at level 0.00611, step 2, values float32
> volume #4.2 level 4.17
> volume #4.2 level 5.737
> volume #4.2 level 2.418
> volume #2 level 0.0329
> volume #2 step 1
> volume #2 level 0.04536
[Repeated 1 time(s)]
> open "/Users/jiaxuanc2/Desktop/VRC35/VRC35-HA complex/deposition/J1145-HA-
> VRC35-overall/H3VIC11-MEDI8852-VRC35-trimer-0121.pdb"
Chain information for H3VIC11-MEDI8852-VRC35-trimer-0121.pdb #10
---
Chain | Description
A C E | No description available
B D F | No description available
G I K | No description available
H J L | No description available
a c e g i k | No description available
b d f h j l | No description available
> hide #!6 models
> hide #!8 models
> hide #9 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!10 cartoons
> hide #!10 atoms
[Repeated 1 time(s)]
> show #!10 atoms
> show #!10 cartoons
[Repeated 3 time(s)]
> hide #!10 atoms
> select ::name="ASN"::name="BMA"::name="MAN"::name="NAG"
7722 atoms, 7354 bonds, 3 pseudobonds, 843 residues, 9 models selected
> select ::name="ASN"::name="BMA"::name="MAN"::name="NAG"
7722 atoms, 7354 bonds, 3 pseudobonds, 843 residues, 9 models selected
> show sel & #!10 atoms
> select clear
> hide #!10 atoms
> show #!10 atoms
> hide #!10 atoms
> select ::name="ASN"::name="BMA"::name="MAN"::name="NAG"
7722 atoms, 7354 bonds, 3 pseudobonds, 843 residues, 9 models selected
> select ::name="ASN"::name="BMA"::name="MAN"::name="NAG"
7722 atoms, 7354 bonds, 3 pseudobonds, 843 residues, 9 models selected
> select ::name="BMA"::name="MAN"::name="NAG"
2738 atoms, 2896 bonds, 220 residues, 7 models selected
> show (#!10 & sel) target ab
> select clear
> show #!2 models
> set bgColor white
> hide #!2 models
> open /Users/jiaxuanc2/Desktop/VRC35-glycan-density.py
Failed opening file /Users/jiaxuanc2/Desktop/VRC35-glycan-density.py:
ChimeraX cannot open a regular Chimera session. An exporter from Chimera
to ChimeraX is being worked on but only handles molecules and molecular
surfaces
(not volumes) at this time. If that is sufficient, use the latest Chimera
daily build and its File->Export Scene menu item, and change the resulting
dialog's "File Type" to ChimeraX.
> show #!2 models
> show #!6 models
> hide #!6 models
> show #!7 models
> hide #!7 models
> hide #!10 models
> show #9 models
> hide #9 models
> show #!8 models
> hide #!8 models
> show #!7 models
> hide #!7 models
> show #!6 models
> hide #!6 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!10 models
> hide #!2 models
> show #!2 models
> color 10/a,c,e,g,i,k medium purple
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'byidentity', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms',
'fromcartoons', 'fromribbons', or 'random' or a keyword
> color 10/b,d,f,h,j,l pink
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'byidentity', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms',
'fromcartoons', 'fromribbons', or 'random' or a keyword
> color #10/b,d,f,h,j,l pink
> color #10/A,C,E dark grey
> color #10/B,D,F grey
> color #10/a,c,e,g,i,k medium purple
> color #10/b,d,f,h,j,l pink
> hide #!10 models
> show #!10 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> select ::name="ASN"::name="BMA"::name="MAN"::name="NAG"
7722 atoms, 7354 bonds, 3 pseudobonds, 843 residues, 9 models selected
> select ::name="BMA"::name="MAN"::name="NAG"
2738 atoms, 2896 bonds, 220 residues, 7 models selected
> color (#!10 & sel) lime
> color (#!10 & sel) byhetero
> select clear
> show #!2 models
Drag select of 2 cryosparc_P338_J1196_003_volume_map-zflip-resampled.mrc , 540
atoms, 2012 residues, 573 bonds
> ui tool show "Color Zone"
> color zone #2 near #10 distance 4.98
> color single #2
> select ::name="BMA"::name="MAN"::name="NAG"
2738 atoms, 2896 bonds, 220 residues, 7 models selected
> color (#!10 & sel) lime
> select clear
Drag select of 2 cryosparc_P338_J1196_003_volume_map-zflip-resampled.mrc , 815
atoms, 2461 residues, 868 bonds
> color zone #2 near #10 distance 4.98
> volume splitbyzone #2
Opened cryosparc_P338_J1196_003_volume_map-zflip-resampled.mrc 0 as #11.1,
grid size 420,420,420, pixel 0.83, shown at level 0.0454, step 1, values
float32
Opened cryosparc_P338_J1196_003_volume_map-zflip-resampled.mrc 1 as #11.2,
grid size 420,420,420, pixel 0.83, shown at level 0.0454, step 1, values
float32
Opened cryosparc_P338_J1196_003_volume_map-zflip-resampled.mrc 2 as #11.3,
grid size 420,420,420, pixel 0.83, shown at level 0.0454, step 1, values
float32
Opened cryosparc_P338_J1196_003_volume_map-zflip-resampled.mrc 3 as #11.4,
grid size 420,420,420, pixel 0.83, shown at level 0.0454, step 1, values
float32
Opened cryosparc_P338_J1196_003_volume_map-zflip-resampled.mrc 4 as #11.5,
grid size 420,420,420, pixel 0.83, shown at level 0.0454, step 1, values
float32
Opened cryosparc_P338_J1196_003_volume_map-zflip-resampled.mrc 5 as #11.6,
grid size 420,420,420, pixel 0.83, shown at level 0.0454, step 1, values
float32
Opened cryosparc_P338_J1196_003_volume_map-zflip-resampled.mrc 6 as #11.7,
grid size 420,420,420, pixel 0.83, shown at level 0.0454, step 1, values
float32
Opened cryosparc_P338_J1196_003_volume_map-zflip-resampled.mrc 7 as #11.8,
grid size 420,420,420, pixel 0.83, shown at level 0.0454, step 1, values
float32
> select clear
> ui tool show "Side View"
> ui tool show "Hide Dust"
> close #11.6
> close #11.5
> close #11.4
> volume #11.3 level 0.04603
> close #11.1
> close #2
> ui tool show "Hide Dust"
> surface dust #11.8 size 4.98
> surface dust #11.7 size 4.98
> surface dust #11.3 size 4.98
> surface dust #11.2 size 4.98
> volume #11.8 level 0.0533
> transparency #11.2 #11.3 #11.7 #11.8 40
> select ::name="ASN"::name="BMA"::name="MAN"::name="NAG"
7722 atoms, 7354 bonds, 3 pseudobonds, 843 residues, 9 models selected
> select ::name="BMA"::name="MAN"::name="NAG"
2738 atoms, 2896 bonds, 220 residues, 7 models selected
> color (#!10 & sel) byhetero
> select clear
> ui tool show "Side View"
> lighting simple
> lighting soft
> graphics silhouettes false
> graphics silhouettes true
> lighting full
> lighting flat
> lighting shadows true intensity 0.5
> lighting soft
> lighting shadows true intensity 0.5
> lighting shadows false
> lighting shadows true
> lighting shadows false
> lighting soft
> graphics silhouettes false
> graphics silhouettes true
> lighting simple
> lighting soft
> lighting full
> lighting flat
[Repeated 1 time(s)]
> lighting soft
> select #10/e
1682 atoms, 1726 bonds, 222 residues, 1 model selected
> delete atoms sel
> delete bonds sel
> select #10/f
1689 atoms, 1726 bonds, 219 residues, 1 model selected
> delete atoms sel
> delete bonds sel
> lighting flat
> lighting soft
> lighting full
> lighting simple
> lighting soft
[Repeated 1 time(s)]
> graphics silhouettes false
> graphics silhouettes true
> save "/Users/jiaxuanc2/Desktop/VRC35/VRC35-HA complex/figure/VRC35-local-
> density-map.cxs" includeMaps true
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 262, in discovery
self.processed[key] = self.process(obj, parents)
^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 299, in process
return copy_state(data, convert=convert)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 219, in copy_state
return _copy(data)
^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in _copy
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in <listcomp>
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in _copy
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in <listcomp>
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 217, in _copy
return convert(data)
^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 298, in convert
return add_obj(obj, parents)
^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 270, in _add_obj
uid = _UniqueName.from_obj(self.session, obj)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 143, in from_obj
raise RuntimeError(
RuntimeError: Unable to restore objects of NewerVersionQuery class in
ChimeraX-Core bundle because the class name is not listed in the name to class
table for session restore
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 901, in save
session.save(output, version=version, include_maps=include_maps)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 625, in save
mgr.discovery(self._state_containers)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 266, in discovery
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))
ValueError: error processing: 'tasks' -> <chimerax.core.tasks.Tasks object at
0x1029be690>: Unable to restore objects of NewerVersionQuery class in
ChimeraX-Core bundle because the class name is not listed in the name to class
table for session restore
ValueError: error processing: 'tasks' -> : Unable to restore objects of
NewerVersionQuery class in ChimeraX-Core bundle because the class name is not
listed in the name to class table for session restore
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 266, in discovery
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 262, in discovery
self.processed[key] = self.process(obj, parents)
^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 299, in process
return copy_state(data, convert=convert)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 219, in copy_state
return _copy(data)
^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in _copy
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in <listcomp>
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in _copy
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in <listcomp>
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 217, in _copy
return convert(data)
^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 298, in convert
return add_obj(obj, parents)
^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 270, in _add_obj
uid = _UniqueName.from_obj(self.session, obj)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 143, in from_obj
raise RuntimeError(
RuntimeError: Unable to restore objects of NewerVersionQuery class in
ChimeraX-Core bundle because the class name is not listed in the name to class
table for session restore
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/dialog.py", line 116, in <lambda>
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",
^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/dialog.py", line 127, in show_save_file_dialog
_dlg.display(session, **kw)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/dialog.py", line 51, in display
run(session, cmd)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/run.py", line 38, in run
results = command.run(text, log=log, return_json=return_json)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/cli.py", line 2897, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/cmd.py", line 75, in cmd_save
Command(session, registry=registry).run(provider_cmd_text, log=log)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/cli.py", line 2897, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/cmd.py", line 90, in provider_save
saver_info.save(session, path, **provider_kw)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core_formats/__init__.py", line 84, in save
return cxs_save(session, path, **kw)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 901, in save
session.save(output, version=version, include_maps=include_maps)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 625, in save
mgr.discovery(self._state_containers)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 266, in discovery
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))
ValueError: error processing: 'tasks' -> <chimerax.core.tasks.Tasks object at
0x1029be690>: Unable to restore objects of NewerVersionQuery class in
ChimeraX-Core bundle because the class name is not listed in the name to class
table for session restore
ValueError: error processing: 'tasks' -> : Unable to restore objects of
NewerVersionQuery class in ChimeraX-Core bundle because the class name is not
listed in the name to class table for session restore
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 266, in discovery
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))
See log for complete Python traceback.
> save "/Users/jiaxuanc2/Desktop/VRC35/VRC35-HA complex/figure/VRC35-local-
> density-map.png" width 944 height 828 supersample 3 transparentBackground
> true
> save "/Users/jiaxuanc2/Desktop/VRC35/VRC35-HA complex/figure/1.cxs"
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 262, in discovery
self.processed[key] = self.process(obj, parents)
^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 299, in process
return copy_state(data, convert=convert)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 219, in copy_state
return _copy(data)
^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in _copy
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in <listcomp>
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in _copy
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in <listcomp>
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 217, in _copy
return convert(data)
^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 298, in convert
return add_obj(obj, parents)
^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 270, in _add_obj
uid = _UniqueName.from_obj(self.session, obj)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 143, in from_obj
raise RuntimeError(
RuntimeError: Unable to restore objects of NewerVersionQuery class in
ChimeraX-Core bundle because the class name is not listed in the name to class
table for session restore
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 901, in save
session.save(output, version=version, include_maps=include_maps)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 625, in save
mgr.discovery(self._state_containers)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 266, in discovery
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))
ValueError: error processing: 'tasks' -> <chimerax.core.tasks.Tasks object at
0x1029be690>: Unable to restore objects of NewerVersionQuery class in
ChimeraX-Core bundle because the class name is not listed in the name to class
table for session restore
ValueError: error processing: 'tasks' -> : Unable to restore objects of
NewerVersionQuery class in ChimeraX-Core bundle because the class name is not
listed in the name to class table for session restore
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 266, in discovery
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 262, in discovery
self.processed[key] = self.process(obj, parents)
^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 299, in process
return copy_state(data, convert=convert)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 219, in copy_state
return _copy(data)
^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in _copy
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in <listcomp>
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in _copy
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in <listcomp>
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 217, in _copy
return convert(data)
^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 298, in convert
return add_obj(obj, parents)
^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 270, in _add_obj
uid = _UniqueName.from_obj(self.session, obj)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 143, in from_obj
raise RuntimeError(
RuntimeError: Unable to restore objects of NewerVersionQuery class in
ChimeraX-Core bundle because the class name is not listed in the name to class
table for session restore
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/dialog.py", line 116, in <lambda>
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",
^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/dialog.py", line 127, in show_save_file_dialog
_dlg.display(session, **kw)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/dialog.py", line 51, in display
run(session, cmd)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/run.py", line 38, in run
results = command.run(text, log=log, return_json=return_json)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/cli.py", line 2897, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/cmd.py", line 75, in cmd_save
Command(session, registry=registry).run(provider_cmd_text, log=log)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/cli.py", line 2897, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/cmd.py", line 90, in provider_save
saver_info.save(session, path, **provider_kw)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core_formats/__init__.py", line 84, in save
return cxs_save(session, path, **kw)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 901, in save
session.save(output, version=version, include_maps=include_maps)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 625, in save
mgr.discovery(self._state_containers)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 266, in discovery
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))
ValueError: error processing: 'tasks' -> <chimerax.core.tasks.Tasks object at
0x1029be690>: Unable to restore objects of NewerVersionQuery class in
ChimeraX-Core bundle because the class name is not listed in the name to class
table for session restore
ValueError: error processing: 'tasks' -> : Unable to restore objects of
NewerVersionQuery class in ChimeraX-Core bundle because the class name is not
listed in the name to class table for session restore
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 266, in discovery
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))
See log for complete Python traceback.
> ui tool show "Map Filter"
> volume gaussian #11.3 sDev 0.42
Opened cryosparc_P338_J1196_003_volume_map-zflip-resampled.mrc 2 gaussian as
#2, grid size 420,420,420, pixel 0.83, shown at step 1, values float32
> volume #2 color #33d529
> transparency #2 40
> volume #2 level 0.0446
> ui tool show "Hide Dust"
> surface dust #2 size 4.98
> volume #2 level 0.0446
> transparency #2 60
> graphics silhouettes false
> graphics silhouettes true
> transparency #2 70
> ui tool show "Side View"
> volume #11.7 level 0.05323
> save "/Users/jiaxuanc2/Desktop/VRC35/VRC35-HA complex/figure/VRC35-local-
> density-map-zoomin.png" width 1142 height 828 supersample 3
> transparentBackground true
> volume #11.7 level 0.03053
> volume #11.7 level 0.03146
> save "/Users/jiaxuanc2/Desktop/VRC35/VRC35-HA complex/figure/VRC35-local-
> density-map-2.png" width 1142 height 828 supersample 3 transparentBackground
> true
> save "/Users/jiaxuanc2/Desktop/VRC35/VRC35-HA complex/figure/1.cxs"
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 262, in discovery
self.processed[key] = self.process(obj, parents)
^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 299, in process
return copy_state(data, convert=convert)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 219, in copy_state
return _copy(data)
^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in _copy
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in <listcomp>
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in _copy
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in <listcomp>
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 217, in _copy
return convert(data)
^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 298, in convert
return add_obj(obj, parents)
^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 270, in _add_obj
uid = _UniqueName.from_obj(self.session, obj)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 143, in from_obj
raise RuntimeError(
RuntimeError: Unable to restore objects of NewerVersionQuery class in
ChimeraX-Core bundle because the class name is not listed in the name to class
table for session restore
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 901, in save
session.save(output, version=version, include_maps=include_maps)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 625, in save
mgr.discovery(self._state_containers)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 266, in discovery
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))
ValueError: error processing: 'tasks' -> <chimerax.core.tasks.Tasks object at
0x1029be690>: Unable to restore objects of NewerVersionQuery class in
ChimeraX-Core bundle because the class name is not listed in the name to class
table for session restore
ValueError: error processing: 'tasks' -> : Unable to restore objects of
NewerVersionQuery class in ChimeraX-Core bundle because the class name is not
listed in the name to class table for session restore
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 266, in discovery
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 262, in discovery
self.processed[key] = self.process(obj, parents)
^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 299, in process
return copy_state(data, convert=convert)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 219, in copy_state
return _copy(data)
^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in _copy
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in <listcomp>
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in _copy
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in <listcomp>
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 217, in _copy
return convert(data)
^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 298, in convert
return add_obj(obj, parents)
^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 270, in _add_obj
uid = _UniqueName.from_obj(self.session, obj)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 143, in from_obj
raise RuntimeError(
RuntimeError: Unable to restore objects of NewerVersionQuery class in
ChimeraX-Core bundle because the class name is not listed in the name to class
table for session restore
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/dialog.py", line 116, in <lambda>
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",
^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/dialog.py", line 127, in show_save_file_dialog
_dlg.display(session, **kw)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/dialog.py", line 51, in display
run(session, cmd)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/run.py", line 38, in run
results = command.run(text, log=log, return_json=return_json)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/cli.py", line 2897, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/cmd.py", line 75, in cmd_save
Command(session, registry=registry).run(provider_cmd_text, log=log)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/cli.py", line 2897, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/cmd.py", line 90, in provider_save
saver_info.save(session, path, **provider_kw)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core_formats/__init__.py", line 84, in save
return cxs_save(session, path, **kw)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 901, in save
session.save(output, version=version, include_maps=include_maps)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 625, in save
mgr.discovery(self._state_containers)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 266, in discovery
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))
ValueError: error processing: 'tasks' -> <chimerax.core.tasks.Tasks object at
0x1029be690>: Unable to restore objects of NewerVersionQuery class in
ChimeraX-Core bundle because the class name is not listed in the name to class
table for session restore
ValueError: error processing: 'tasks' -> : Unable to restore objects of
NewerVersionQuery class in ChimeraX-Core bundle because the class name is not
listed in the name to class table for session restore
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 266, in discovery
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))
See log for complete Python traceback.
> open /Users/jiaxuanc2/Desktop/VRC35-glycan-density.py
Failed opening file /Users/jiaxuanc2/Desktop/VRC35-glycan-density.py:
ChimeraX cannot open a regular Chimera session. An exporter from Chimera
to ChimeraX is being worked on but only handles molecules and molecular
surfaces
(not volumes) at this time. If that is sufficient, use the latest Chimera
daily build and its File->Export Scene menu item, and change the resulting
dialog's "File Type" to ChimeraX.
> save "/Users/jiaxuanc2/Desktop/VRC35/VRC35-HA complex/figure/local-
> density.cxs" includeMaps true
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 262, in discovery
self.processed[key] = self.process(obj, parents)
^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 299, in process
return copy_state(data, convert=convert)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 219, in copy_state
return _copy(data)
^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in _copy
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in <listcomp>
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in _copy
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in <listcomp>
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 217, in _copy
return convert(data)
^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 298, in convert
return add_obj(obj, parents)
^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 270, in _add_obj
uid = _UniqueName.from_obj(self.session, obj)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 143, in from_obj
raise RuntimeError(
RuntimeError: Unable to restore objects of NewerVersionQuery class in
ChimeraX-Core bundle because the class name is not listed in the name to class
table for session restore
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 901, in save
session.save(output, version=version, include_maps=include_maps)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 625, in save
mgr.discovery(self._state_containers)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 266, in discovery
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))
ValueError: error processing: 'tasks' -> <chimerax.core.tasks.Tasks object at
0x1029be690>: Unable to restore objects of NewerVersionQuery class in
ChimeraX-Core bundle because the class name is not listed in the name to class
table for session restore
ValueError: error processing: 'tasks' -> : Unable to restore objects of
NewerVersionQuery class in ChimeraX-Core bundle because the class name is not
listed in the name to class table for session restore
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 266, in discovery
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))
See log for complete Python traceback.
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 262, in discovery
self.processed[key] = self.process(obj, parents)
^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 299, in process
return copy_state(data, convert=convert)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 219, in copy_state
return _copy(data)
^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in _copy
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in <listcomp>
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in _copy
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 204, in <listcomp>
items = [(_copy(k), _copy(v)) for k, v in data.items()]
^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/state.py", line 217, in _copy
return convert(data)
^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 298, in convert
return add_obj(obj, parents)
^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 270, in _add_obj
uid = _UniqueName.from_obj(self.session, obj)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 143, in from_obj
raise RuntimeError(
RuntimeError: Unable to restore objects of NewerVersionQuery class in
ChimeraX-Core bundle because the class name is not listed in the name to class
table for session restore
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/dialog.py", line 116, in <lambda>
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",
^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/dialog.py", line 127, in show_save_file_dialog
_dlg.display(session, **kw)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/dialog.py", line 51, in display
run(session, cmd)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/run.py", line 38, in run
results = command.run(text, log=log, return_json=return_json)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/cli.py", line 2897, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/cmd.py", line 75, in cmd_save
Command(session, registry=registry).run(provider_cmd_text, log=log)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/cli.py", line 2897, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/save_command/cmd.py", line 90, in provider_save
saver_info.save(session, path, **provider_kw)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core_formats/__init__.py", line 84, in save
return cxs_save(session, path, **kw)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 901, in save
session.save(output, version=version, include_maps=include_maps)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 625, in save
mgr.discovery(self._state_containers)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 266, in discovery
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))
ValueError: error processing: 'tasks' -> <chimerax.core.tasks.Tasks object at
0x1029be690>: Unable to restore objects of NewerVersionQuery class in
ChimeraX-Core bundle because the class name is not listed in the name to class
table for session restore
ValueError: error processing: 'tasks' -> : Unable to restore objects of
NewerVersionQuery class in ChimeraX-Core bundle because the class name is not
listed in the name to class table for session restore
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 266, in discovery
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))
See log for complete Python traceback.
OpenGL version: 4.1 Metal - 83.1
OpenGL renderer: Apple M2 Max
OpenGL vendor: Apple
Python: 3.11.2
Locale: UTF-8
Qt version: PyQt6 6.3.1, Qt 6.3.1
Qt runtime version: 6.3.2
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: Mac14,5
Model Number: MPHG3LL/A
Chip: Apple M2 Max
Total Number of Cores: 12 (8 performance and 4 efficiency)
Memory: 32 GB
System Firmware Version: 10151.121.1
OS Loader Version: 8422.141.2.700.1
Software:
System Software Overview:
System Version: macOS 13.6.7 (22G720)
Kernel Version: Darwin 22.6.0
Time since boot: 3 days, 2 hours, 25 minutes
Graphics/Displays:
Apple M2 Max:
Chipset Model: Apple M2 Max
Type: GPU
Bus: Built-In
Total Number of Cores: 30
Vendor: Apple (0x106b)
Metal Support: Metal 3
Displays:
Color LCD:
Display Type: Built-in Liquid Retina XDR Display
Resolution: 3024 x 1964 Retina
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
DELL P3222QE:
Resolution: 3840 x 2160 (2160p/4K UHD 1 - Ultra High Definition)
UI Looks like: 1920 x 1080 @ 60.00Hz
Mirror: Off
Online: Yes
Rotation: Supported
DELL P3222QE:
Resolution: 3840 x 2160 (2160p/4K UHD 1 - Ultra High Definition)
UI Looks like: 1920 x 1080 @ 60.00Hz
Mirror: Off
Online: Yes
Rotation: Supported
Installed Packages:
alabaster: 0.7.13
appdirs: 1.4.4
appnope: 0.1.3
asttokens: 2.4.0
Babel: 2.12.1
backcall: 0.2.0
beautifulsoup4: 4.11.2
blockdiag: 3.0.0
blosc2: 2.0.0
build: 0.10.0
certifi: 2022.12.7
cftime: 1.6.2
charset-normalizer: 3.2.0
ChimeraX-AddCharge: 1.5.11
ChimeraX-AddH: 2.2.5
ChimeraX-AlignmentAlgorithms: 2.0.1
ChimeraX-AlignmentHdrs: 3.4.1
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.11.1
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.1.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.48
ChimeraX-AtomicLibrary: 10.1
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: 2.0.4
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.10.5
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: 1.0.3
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: 1.5.4
ChimeraX-CommandLine: 1.2.5
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.7.dev202309270131
ChimeraX-CoreFormats: 1.2
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: 1.1.2
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ESMFold: 1.0
ChimeraX-FileHistory: 1.0.1
ChimeraX-FunctionKey: 1.0.1
ChimeraX-Geometry: 1.3
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.1.1
ChimeraX-Hbonds: 2.4
ChimeraX-Help: 1.2.2
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-Label: 1.1.8
ChimeraX-ListInfo: 1.2.1
ChimeraX-Log: 1.1.6
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.1
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: 2.1.2
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.6
ChimeraX-MedicalToolbar: 1.0.2
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.12.1
ChimeraX-MMTF: 2.2
ChimeraX-Modeller: 1.5.12
ChimeraX-ModelPanel: 1.4
ChimeraX-ModelSeries: 1.0.1
ChimeraX-Mol2: 2.0.3
ChimeraX-Mole: 1.0
ChimeraX-Morph: 1.0.2
ChimeraX-MouseModes: 1.2
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nifti: 1.1
ChimeraX-NRRD: 1.1
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.11
ChimeraX-PDB: 2.7.2
ChimeraX-PDBBio: 1.0.1
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: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.1
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.2
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 4.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.1
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.10
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.1.1
ChimeraX-ShowSequences: 1.0.2
ChimeraX-SideView: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.12.2
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: 2.2.2
ChimeraX-TapeMeasure: 1.0
ChimeraX-TaskManager: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1.2
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.32.2
ChimeraX-uniprot: 2.3
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.3.1
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: 1.1.2
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.1.4
contourpy: 1.1.1
cxservices: 1.2.2
cycler: 0.11.0
Cython: 0.29.33
debugpy: 1.8.0
decorator: 5.1.1
docutils: 0.19
executing: 1.2.0
filelock: 3.9.0
fonttools: 4.42.1
funcparserlib: 1.0.1
glfw: 2.6.2
grako: 3.16.5
h5py: 3.9.0
html2text: 2020.1.16
idna: 3.4
ihm: 0.38
imagecodecs: 2023.7.10
imagesize: 1.4.1
ipykernel: 6.23.2
ipython: 8.14.0
ipython-genutils: 0.2.0
ipywidgets: 8.1.1
jedi: 0.18.2
Jinja2: 3.1.2
jupyter-client: 8.2.0
jupyter-core: 5.3.1
jupyterlab-widgets: 3.0.9
kiwisolver: 1.4.5
line-profiler: 4.0.2
lxml: 4.9.2
lz4: 4.3.2
MarkupSafe: 2.1.3
matplotlib: 3.7.2
matplotlib-inline: 0.1.6
msgpack: 1.0.4
nest-asyncio: 1.5.8
netCDF4: 1.6.2
networkx: 3.1
nibabel: 5.0.1
nptyping: 2.5.0
numexpr: 2.8.7
numpy: 1.25.1
openvr: 1.23.701
packaging: 21.3
ParmEd: 3.4.3
parso: 0.8.3
pep517: 0.13.0
pexpect: 4.8.0
pickleshare: 0.7.5
Pillow: 10.0.0
pip: 23.0
pkginfo: 1.9.6
platformdirs: 3.10.0
prompt-toolkit: 3.0.39
psutil: 5.9.5
ptyprocess: 0.7.0
pure-eval: 0.2.2
py-cpuinfo: 9.0.0
pycollada: 0.7.2
pydicom: 2.3.0
Pygments: 2.16.1
pynrrd: 1.0.0
PyOpenGL: 3.1.7
PyOpenGL-accelerate: 3.1.7
pyopenxr: 1.0.2801
pyparsing: 3.0.9
pyproject-hooks: 1.0.0
PyQt6-commercial: 6.3.1
PyQt6-Qt6: 6.3.2
PyQt6-sip: 13.4.0
PyQt6-WebEngine-commercial: 6.3.1
PyQt6-WebEngine-Qt6: 6.3.2
python-dateutil: 2.8.2
pytz: 2023.3.post1
pyzmq: 25.1.1
qtconsole: 5.4.3
QtPy: 2.4.0
RandomWords: 0.4.0
requests: 2.31.0
scipy: 1.11.1
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: 2.5
sphinx: 6.1.3
sphinx-autodoc-typehints: 1.22
sphinxcontrib-applehelp: 1.0.7
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 1.0.5
sphinxcontrib-htmlhelp: 2.0.4
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.6
sphinxcontrib-serializinghtml: 1.1.9
stack-data: 0.6.2
superqt: 0.5.0
tables: 3.8.0
tcia-utils: 1.5.1
tifffile: 2023.7.18
tinyarray: 1.2.4
tomli: 2.0.1
tornado: 6.3.3
traitlets: 5.9.0
typing-extensions: 4.8.0
tzdata: 2023.3
urllib3: 2.0.5
wcwidth: 0.2.6
webcolors: 1.12
wheel: 0.38.4
wheel-filename: 1.4.1
widgetsnbextension: 4.0.9
Change History (2)
comment:1 by , 9 months ago
| Cc: | added |
|---|---|
| Component: | Unassigned → Sessions |
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Can't save session because NewerVersionQuery not listed |
comment:2 by , 9 months ago
| Resolution: | → duplicate |
|---|---|
| Status: | assigned → closed |
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Hi Jiaxuan,
--Eric