Opened 2 years ago

Closed 2 years ago

#10295 closed defect (duplicate)

Unable to restore objects of NewerVersionQuery class

Reported by: helen.duyvesteyn@… Owned by: Zach Pearson
Priority: normal Milestone:
Component: Sessions Version:
Keywords: Cc: Eric Pettersen
Blocked By: Blocking:
Notify when closed: Platform: all
Project: ChimeraX

Description 

The following bug report has been submitted:
Platform:        macOS-13.6-arm64-arm-64bit
ChimeraX Version: 1.7.dev202310070039 (2023-10-07 00:39:11 UTC)
Description
Saving .cxs  via File->Save option with maps included ticked on the GUI.

Log:
UCSF ChimeraX version: 1.7.dev202310070039 (2023-10-07)  
© 2016-2023 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open /Users/hmed/Downloads/cryosparc_P1110_J16_class_04_00011_volume.mrc

Opened cryosparc_P1110_J16_class_04_00011_volume.mrc as #1, grid size
140,140,140, pixel 2.92, shown at level 0.411, step 1, values float32  

> volume #1 level 0.2967

> open /Users/hmed/Downloads/cryosparc_P1110_J16_class_03_00011_volume.mrc

Opened cryosparc_P1110_J16_class_03_00011_volume.mrc as #2, grid size
140,140,140, pixel 2.92, shown at level 0.395, step 1, values float32  

> volume #2 level 0.305

> volume #2 level 0.2703

> open /Users/hmed/Downloads/cryosparc_P1110_J16_class_02_00011_volume.mrc

Opened cryosparc_P1110_J16_class_02_00011_volume.mrc as #3, grid size
140,140,140, pixel 2.92, shown at level 0.435, step 1, values float32  

> volume #3 level 0.2677

> volume #3 level 0.2702

> open /Users/hmed/Downloads/cryosparc_P1110_J16_class_00_00011_volume.mrc
> /Users/hmed/Downloads/cryosparc_P1110_J16_class_01_00011_volume.mrc

Opened cryosparc_P1110_J16_class_00_00011_volume.mrc as #4.1, grid size
140,140,140, pixel 2.92, shown at level 0.44, step 1, values float32  
Opened cryosparc_P1110_J16_class_01_00011_volume.mrc as #4.2, grid size
140,140,140, pixel 2.92, shown at level 0.426, step 1, values float32  

> volume #4.1 level 0.2965

> volume #4.2 level 0.2834

> select add #2

2 models selected  

> ui mousemode right "rotate selected models"

> select subtract #2

Nothing selected  

> select add #2

2 models selected  

> view matrix models
> #2,0.7794,-0.60424,0.16564,135.11,0.6241,0.77203,-0.12028,-59.65,-0.055204,0.19712,0.97882,-24.187

> view matrix models
> #2,0.37971,-0.90934,-0.17006,349.26,0.79758,0.41493,-0.43783,41.478,0.4687,0.030615,0.88283,-80.328

> view matrix models
> #2,0.36019,-0.85804,-0.3661,382.95,0.68988,0.50916,-0.5146,60.531,0.62796,-0.067213,0.77534,-71.81

> ui mousemode right "translate selected models"

> view matrix models
> #2,0.36019,-0.85804,-0.3661,406.81,0.68988,0.50916,-0.5146,-33.553,0.62796,-0.067213,0.77534,-214.05

> view matrix models
> #2,0.36019,-0.85804,-0.3661,431.21,0.68988,0.50916,-0.5146,71.801,0.62796,-0.067213,0.77534,-113.86

> view matrix models
> #2,0.36019,-0.85804,-0.3661,430.69,0.68988,0.50916,-0.5146,73.177,0.62796,-0.067213,0.77534,-113.86

> view matrix models
> #2,0.36019,-0.85804,-0.3661,437.34,0.68988,0.50916,-0.5146,87.361,0.62796,-0.067213,0.77534,-95.091

> view matrix models
> #2,0.36019,-0.85804,-0.3661,376.61,0.68988,0.50916,-0.5146,56.355,0.62796,-0.067213,0.77534,-81.818

> view matrix models
> #2,0.36019,-0.85804,-0.3661,356.32,0.68988,0.50916,-0.5146,-57.113,0.62796,-0.067213,0.77534,-114.07

> ui mousemode right "rotate selected models"

> view matrix models
> #2,0.43903,-0.82214,-0.36241,331.78,0.73727,0.56019,-0.37766,-105.36,0.51351,-0.10139,0.85207,-98.853

> view matrix models
> #2,0.31167,-0.87867,-0.36166,369.75,0.6508,0.47473,-0.59253,-26.028,0.69233,-0.050694,0.7198,-119.55

> view matrix models
> #2,0.12454,-0.94738,-0.29489,409.22,0.42653,0.31946,-0.84618,104.23,0.89586,-0.020398,0.44387,-111.93

> view matrix models
> #2,0.17838,-0.92951,-0.32279,400.02,0.50392,0.36806,-0.7814,64.937,0.84513,-0.02327,0.53406,-119.15

> view matrix models
> #2,0.67819,-0.69108,-0.24992,232.15,0.73105,0.66914,0.13348,-230.57,0.074987,-0.27323,0.95902,5.9507

> view matrix models
> #2,0.40934,-0.83601,-0.36541,341.42,0.72181,0.5417,-0.43076,-87.525,0.55806,-0.087434,0.82518,-105.52

> view matrix models
> #2,0.7951,-0.60144,-0.077936,154.36,0.55483,0.66948,0.49393,-267.39,-0.2449,-0.43597,0.866,124.92

> view matrix models
> #2,0.83008,-0.55279,0.07344,106.25,0.3542,0.62437,0.6962,-257.56,-0.43071,-0.55189,0.71408,218.37

> view matrix models
> #2,0.83154,-0.54667,0.098446,99.594,0.31817,0.61404,0.72231,-253.26,-0.45532,-0.5693,0.68453,233.09

> view matrix models
> #2,0.83154,-0.54668,0.098404,99.605,0.31823,0.61405,0.72227,-253.26,-0.45528,-0.56928,0.68458,233.06

> view matrix models
> #2,0.79259,-0.60392,-0.084153,156.66,0.56235,0.67061,0.48379,-267.12,-0.23574,-0.43077,0.87113,120.91

> view matrix models
> #2,0.82583,-0.56273,0.036613,116.68,0.40587,0.63819,0.65421,-262.6,-0.39151,-0.5254,0.75543,196.34

> ui mousemode right "translate selected models"

> view matrix models
> #2,0.82583,-0.56273,0.036613,115.13,0.40587,0.63819,0.65421,-190.63,-0.39151,-0.5254,0.75543,243

> ui mousemode right "move picked models"

> ui mousemode right "rotate selected models"

> view matrix models
> #2,0.94959,-0.30651,0.065787,31.22,0.21622,0.79232,0.5705,-165.2,-0.22699,-0.52752,0.81866,196.11

> ui mousemode right "translate selected models"

> view matrix models
> #2,0.94959,-0.30651,0.065787,51.107,0.21622,0.79232,0.5705,-135.25,-0.22699,-0.52752,0.81866,178.2

> view matrix models
> #2,0.94959,-0.30651,0.065787,50.98,0.21622,0.79232,0.5705,-130.03,-0.22699,-0.52752,0.81866,181.62

> ui tool show "Fit in Map"

> fitmap #2 inMap #3

Fit map cryosparc_P1110_J16_class_03_00011_volume.mrc in map
cryosparc_P1110_J16_class_02_00011_volume.mrc using 141990 points  
correlation = 0.9425, correlation about mean = 0.3671, overlap = 1.388e+04  
steps = 84, shift = 17.5, angle = 9.39 degrees  
  
Position of cryosparc_P1110_J16_class_03_00011_volume.mrc (#2) relative to
cryosparc_P1110_J16_class_02_00011_volume.mrc (#3) coordinates:  
Matrix rotation and translation  
0.94722139 -0.23824575 0.21450079 15.64189349  
0.08534058 0.83235346 0.54763555 -95.10650032  
-0.30901231 -0.50042649 0.80875504 204.62325669  
Axis -0.86231541 0.43073158 0.26623756  
Axis point 0.00000000 306.63418797 267.55628290  
Rotation angle (degrees) 37.42354573  
Shift along axis 0.02477765  
  

> fitmap #2 inMap #3

Fit map cryosparc_P1110_J16_class_03_00011_volume.mrc in map
cryosparc_P1110_J16_class_02_00011_volume.mrc using 141990 points  
correlation = 0.9425, correlation about mean = 0.3671, overlap = 1.388e+04  
steps = 40, shift = 0.0527, angle = 0.00882 degrees  
  
Position of cryosparc_P1110_J16_class_03_00011_volume.mrc (#2) relative to
cryosparc_P1110_J16_class_02_00011_volume.mrc (#3) coordinates:  
Matrix rotation and translation  
0.94726407 -0.23815985 0.21440772 15.65413892  
0.08529404 0.83232091 0.54769227 -95.11904604  
-0.30889433 -0.50052150 0.80874131 204.66715910  
Axis -0.86243691 0.43055626 0.26612756  
Axis point 0.00000000 306.65839662 267.56766357  
Rotation angle (degrees) 37.42371569  
Shift along axis 0.01276322  
  

> volume #4.1 level 0.2389

> lighting soft

> set bgColor white

> set bgColor #ffffff00

> select subtract #2

Nothing selected  

> ui tool show "Side View"

> lighting full

> graphics silhouettes true

> lighting simple

> lighting full

> lighting soft

> volume #2 color #8cdcff

> lighting full

> open /Users/hmed/Downloads/cryosparc_P1110_J21_002_volume_map.mrc

Opened cryosparc_P1110_J21_002_volume_map.mrc as #5, grid size 140,140,140,
pixel 2.92, shown at level 0.848, step 1, values float32  

> volume #5 level 0.3685

> open /Users/hmed/Downloads/[NUMBER].pdb

[NUMBER].pdb title:  
Crystal structure of hepatitis A virus [more info...]  
  
Chain information for [NUMBER].pdb  
---  
Chain | Description  
6.1/A 6.2/A 6.3/A 6.4/A 6.5/A 6.6/A 6.7/A | No description available  
6.1/B 6.2/B 6.3/B 6.4/B 6.5/B 6.6/B 6.7/B | No description available  
6.1/C 6.2/C 6.3/C 6.4/C 6.5/C 6.6/C 6.7/C | No description available  
  

> open
> /Users/hmed/Documents/fmdv/SAT3/20231018_krios_SAT3Z__W4_W_93C_FAE_grid1/J68_FAE_ori.mrc

Opened J68_FAE_ori.mrc as #7, grid size 400,400,400, pixel 1.35, shown at
level 0.121, step 2, values float32  

> select add #5

3 models selected  

> view matrix models #5,1,0,0,-206.86,0,1,0,-201.73,0,0,1,-200.34

> undo

> select add #6.7

5767 atoms, 5907 bonds, 1 pseudobond, 736 residues, 5 models selected  

> select add #6.6

11534 atoms, 11814 bonds, 2 pseudobonds, 1472 residues, 7 models selected  

> select add #6

40369 atoms, 41349 bonds, 7 pseudobonds, 5152 residues, 18 models selected  

> view matrix models
> #5,1,0,0,-202,0,1,0,-197.8,0,0,1,-193.93,#6,1,0,0,-202,0,1,0,-197.8,0,0,1,-193.93

> view matrix models
> #5,1,0,0,-200.48,0,1,0,-199.05,0,0,1,-205.4,#6,1,0,0,-200.48,0,1,0,-199.05,0,0,1,-205.4

> select subtract #5

40369 atoms, 41349 bonds, 7 pseudobonds, 5152 residues, 15 models selected  

> select subtract #6

Nothing selected  

> fitmap #5 inMap #7

Fit map cryosparc_P1110_J21_002_volume_map.mrc in map J68_FAE_ori.mrc using
154628 points  
correlation = 0.3193, correlation about mean = 0.08491, overlap = 4055  
steps = 64, shift = 6.36, angle = 0.00637 degrees  
  
Position of cryosparc_P1110_J21_002_volume_map.mrc (#5) relative to
J68_FAE_ori.mrc (#7) coordinates:  
Matrix rotation and translation  
1.00000000 -0.00006288 0.00007540 -204.11024615  
0.00006288 1.00000000 -0.00005233 -204.11440467  
-0.00007539 0.00005234 1.00000000 -204.10456268  
Axis 0.47040009 0.67768752 0.56521092  
Axis point -85575.03465860 0.00000000 525363.21534397  
Rotation angle (degrees) 0.00637429  
Shift along axis -349.70138984  
  

> select add #6

40369 atoms, 41349 bonds, 7 pseudobonds, 5152 residues, 15 models selected  

> fitmap sel inMap #5

Fit molecules [NUMBER].pdb (#6.1), [NUMBER].pdb (#6.2), [NUMBER].pdb (#6.3),
[NUMBER].pdb (#6.4), [NUMBER].pdb (#6.5), [NUMBER].pdb (#6.6), [NUMBER].pdb
(#6.7) to map cryosparc_P1110_J21_002_volume_map.mrc (#5) using 40369 atoms  
average map value = 0.2899, steps = 56  
shifted from previous position = 2.78  
rotated from previous position = 4.24 degrees  
atoms outside contour = 24268, contour level = 0.36854  
  
Position of [NUMBER].pdb (#6.1) relative to
cryosparc_P1110_J21_002_volume_map.mrc (#5) coordinates:  
Matrix rotation and translation  
0.99946888 0.00097835 -0.03257311 210.89523817  
0.00118922 0.99778844 0.06645916 184.39349531  
0.03256609 -0.06646260 0.99725733 216.78011661  
Axis -0.89796928 -0.44005584 0.00142457  
Axis point 0.00000000 3303.60269574 -875.40945675  
Rotation angle (degrees) 4.24448033  
Shift along axis -270.21206105  
  
Position of [NUMBER].pdb (#6.2) relative to
cryosparc_P1110_J21_002_volume_map.mrc (#5) coordinates:  
Matrix rotation and translation  
0.99946888 0.00097835 -0.03257311 210.89523817  
0.00118922 0.99778844 0.06645916 184.39349531  
0.03256609 -0.06646260 0.99725733 216.78011661  
Axis -0.89796928 -0.44005584 0.00142457  
Axis point 0.00000000 3303.60269574 -875.40945675  
Rotation angle (degrees) 4.24448033  
Shift along axis -270.21206105  
  
Position of [NUMBER].pdb (#6.3) relative to
cryosparc_P1110_J21_002_volume_map.mrc (#5) coordinates:  
Matrix rotation and translation  
0.99946888 0.00097835 -0.03257311 210.89523817  
0.00118922 0.99778844 0.06645916 184.39349531  
0.03256609 -0.06646260 0.99725733 216.78011661  
Axis -0.89796928 -0.44005584 0.00142457  
Axis point 0.00000000 3303.60269574 -875.40945675  
Rotation angle (degrees) 4.24448033  
Shift along axis -270.21206105  
  
Position of [NUMBER].pdb (#6.4) relative to
cryosparc_P1110_J21_002_volume_map.mrc (#5) coordinates:  
Matrix rotation and translation  
0.99946888 0.00097835 -0.03257311 210.89523817  
0.00118922 0.99778844 0.06645916 184.39349531  
0.03256609 -0.06646260 0.99725733 216.78011661  
Axis -0.89796928 -0.44005584 0.00142457  
Axis point 0.00000000 3303.60269574 -875.40945675  
Rotation angle (degrees) 4.24448033  
Shift along axis -270.21206105  
  
Position of [NUMBER].pdb (#6.5) relative to
cryosparc_P1110_J21_002_volume_map.mrc (#5) coordinates:  
Matrix rotation and translation  
0.99946888 0.00097835 -0.03257311 210.89523817  
0.00118922 0.99778844 0.06645916 184.39349531  
0.03256609 -0.06646260 0.99725733 216.78011661  
Axis -0.89796928 -0.44005584 0.00142457  
Axis point 0.00000000 3303.60269574 -875.40945675  
Rotation angle (degrees) 4.24448033  
Shift along axis -270.21206105  
  
Position of [NUMBER].pdb (#6.6) relative to
cryosparc_P1110_J21_002_volume_map.mrc (#5) coordinates:  
Matrix rotation and translation  
0.99946888 0.00097835 -0.03257311 210.89523817  
0.00118922 0.99778844 0.06645916 184.39349531  
0.03256609 -0.06646260 0.99725733 216.78011661  
Axis -0.89796928 -0.44005584 0.00142457  
Axis point 0.00000000 3303.60269574 -875.40945675  
Rotation angle (degrees) 4.24448033  
Shift along axis -270.21206105  
  
Position of [NUMBER].pdb (#6.7) relative to
cryosparc_P1110_J21_002_volume_map.mrc (#5) coordinates:  
Matrix rotation and translation  
0.99946888 0.00097835 -0.03257311 210.89523817  
0.00118922 0.99778844 0.06645916 184.39349531  
0.03256609 -0.06646260 0.99725733 216.78011661  
Axis -0.89796928 -0.44005584 0.00142457  
Axis point 0.00000000 3303.60269574 -875.40945675  
Rotation angle (degrees) 4.24448033  
Shift along axis -270.21206105  
  

> hide #!7 models

> transparency #5.1 50

> lighting full

> lighting soft

> lighting simple

> view matrix models #6,1,0,0,-212.88,0,1,0,-189.26,0,0,1,-215.93

> view matrix models #6,1,0,0,-210.03,0,1,0,-190.38,0,0,1,-213.48

> fitmap sel inMap #5

Fit molecules [NUMBER].pdb (#6.1), [NUMBER].pdb (#6.2), [NUMBER].pdb (#6.3),
[NUMBER].pdb (#6.4), [NUMBER].pdb (#6.5), [NUMBER].pdb (#6.6), [NUMBER].pdb
(#6.7) to map cryosparc_P1110_J21_002_volume_map.mrc (#5) using 40369 atoms  
average map value = 0.45, steps = 76  
shifted from previous position = 5.82  
rotated from previous position = 5.27 degrees  
atoms outside contour = 14972, contour level = 0.36854  
  
Position of [NUMBER].pdb (#6.1) relative to
cryosparc_P1110_J21_002_volume_map.mrc (#5) coordinates:  
Matrix rotation and translation  
0.99572856 -0.02879525 -0.08772383 238.42789334  
0.04019860 0.99054899 0.13113643 155.83311524  
0.08311865 -0.13410266 0.98747545 230.63649581  
Axis -0.82129143 -0.52899995 0.21363390  
Axis point 0.00000000 2095.24515124 -113.61522234  
Rotation angle (degrees) 9.29262758  
Shift along axis -228.98271987  
  
Position of [NUMBER].pdb (#6.2) relative to
cryosparc_P1110_J21_002_volume_map.mrc (#5) coordinates:  
Matrix rotation and translation  
0.99572856 -0.02879525 -0.08772383 238.42789334  
0.04019860 0.99054899 0.13113643 155.83311524  
0.08311865 -0.13410266 0.98747545 230.63649581  
Axis -0.82129143 -0.52899995 0.21363390  
Axis point 0.00000000 2095.24515124 -113.61522234  
Rotation angle (degrees) 9.29262758  
Shift along axis -228.98271987  
  
Position of [NUMBER].pdb (#6.3) relative to
cryosparc_P1110_J21_002_volume_map.mrc (#5) coordinates:  
Matrix rotation and translation  
0.99572856 -0.02879525 -0.08772383 238.42789334  
0.04019860 0.99054899 0.13113643 155.83311524  
0.08311865 -0.13410266 0.98747545 230.63649581  
Axis -0.82129143 -0.52899995 0.21363390  
Axis point 0.00000000 2095.24515124 -113.61522234  
Rotation angle (degrees) 9.29262758  
Shift along axis -228.98271987  
  
Position of [NUMBER].pdb (#6.4) relative to
cryosparc_P1110_J21_002_volume_map.mrc (#5) coordinates:  
Matrix rotation and translation  
0.99572856 -0.02879525 -0.08772383 238.42789334  
0.04019860 0.99054899 0.13113643 155.83311524  
0.08311865 -0.13410266 0.98747545 230.63649581  
Axis -0.82129143 -0.52899995 0.21363390  
Axis point 0.00000000 2095.24515124 -113.61522234  
Rotation angle (degrees) 9.29262758  
Shift along axis -228.98271987  
  
Position of [NUMBER].pdb (#6.5) relative to
cryosparc_P1110_J21_002_volume_map.mrc (#5) coordinates:  
Matrix rotation and translation  
0.99572856 -0.02879525 -0.08772383 238.42789334  
0.04019860 0.99054899 0.13113643 155.83311524  
0.08311865 -0.13410266 0.98747545 230.63649581  
Axis -0.82129143 -0.52899995 0.21363390  
Axis point 0.00000000 2095.24515124 -113.61522234  
Rotation angle (degrees) 9.29262758  
Shift along axis -228.98271987  
  
Position of [NUMBER].pdb (#6.6) relative to
cryosparc_P1110_J21_002_volume_map.mrc (#5) coordinates:  
Matrix rotation and translation  
0.99572856 -0.02879525 -0.08772383 238.42789334  
0.04019860 0.99054899 0.13113643 155.83311524  
0.08311865 -0.13410266 0.98747545 230.63649581  
Axis -0.82129143 -0.52899995 0.21363390  
Axis point 0.00000000 2095.24515124 -113.61522234  
Rotation angle (degrees) 9.29262758  
Shift along axis -228.98271987  
  
Position of [NUMBER].pdb (#6.7) relative to
cryosparc_P1110_J21_002_volume_map.mrc (#5) coordinates:  
Matrix rotation and translation  
0.99572856 -0.02879525 -0.08772383 238.42789334  
0.04019860 0.99054899 0.13113643 155.83311524  
0.08311865 -0.13410266 0.98747545 230.63649581  
Axis -0.82129143 -0.52899995 0.21363390  
Axis point 0.00000000 2095.24515124 -113.61522234  
Rotation angle (degrees) 9.29262758  
Shift along axis -228.98271987  
  

> color sel bychain

> select subtract #6.1

34602 atoms, 35442 bonds, 6 pseudobonds, 4416 residues, 13 models selected  

> select add #6

40369 atoms, 41349 bonds, 7 pseudobonds, 5152 residues, 15 models selected  

> select subtract #6

Nothing selected  

> hide #!5 models

> select add #5

2 models selected  

> show #!5 models

> hide #!5 models

> show #!5 models

> hide #!5 models

> show #!5 models

> close #1-3

> close #4#4.1-2

> hide #!6 models

> show #!6 models

> select add #5

4 models selected  

> select subtract #5

Nothing selected  

> open /Users/hmed/Downloads/5wth.pdb

5wth.pdb title:  
Cryo-em structure for hepatitis A virus complexed with fab [more info...]  
  
Chain information for 5wth.pdb #1  
---  
Chain | Description  
A | polyprotein  
B | VP2  
C | VP3  
D | fab light chain  
E | fab heavy chain  
  

> mmaker #1 to #6.6

Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker [NUMBER].pdb, chain A (#6.6) with 5wth.pdb, chain A (#1), sequence
alignment score = 1274.2  
RMSD between 246 pruned atom pairs is 0.968 angstroms; (across all 260 pairs:
1.145)  
  

> show cartoons

> hide atoms

> hide #!6.1 models

> hide #!6.2 models

> hide #!6.3 models

> hide #!6.4 models

> hide #!6.5 models

> hide #!6.7 models

> save /Users/hmed/Downloads/hepAinitialmodelling.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
0x102e12510>: 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
0x102e12510>: 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 Pro
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: Mac14,9
      Model Number: MPHF3B/A
      Chip: Apple M2 Pro
      Total Number of Cores: 12 (8 performance and 4 efficiency)
      Memory: 16 GB
      System Firmware Version: 8422.141.2
      OS Loader Version: 8422.141.2

Software:

    System Software Overview:

      System Version: macOS 13.6 (22G120)
      Kernel Version: Darwin 22.6.0
      Time since boot: 8 hours, 32 minutes

Graphics/Displays:

    Apple M2 Pro:

      Chipset Model: Apple M2 Pro
      Type: GPU
      Bus: Built-In
      Total Number of Cores: 19
      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 U2717D:
          Resolution: 2560 x 1440 (QHD/WQHD - Wide Quad High Definition)
          UI Looks like: 2560 x 1440 @ 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: 2.13.0
    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: 3.3.0
    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: 2.12
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.1.1
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.48.1
    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: 1.1
    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.dev202310070039
    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: 2.11
    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: 0.12.1
    Cython: 0.29.33
    debugpy: 1.8.0
    decorator: 5.1.1
    docutils: 0.19
    executing: 2.0.0
    filelock: 3.9.0
    fonttools: 4.43.1
    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: 5.3.2
    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: 3.11.0
    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: 0.6.3
    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: 2.0.6
    wcwidth: 0.2.8
    webcolors: 1.12
    wheel: 0.38.4
    wheel-filename: 1.4.1
    widgetsnbextension: 4.0.9

Change History (2)

comment:1 by Eric Pettersen, 2 years ago

Cc: Eric Pettersen added
Component: Unassigned → Sessions
Owner: set to Zach Pearson
Platform: → all
Project: → ChimeraX
Status: new → assigned
Summary: ChimeraX bug report submission → Unable to restore objects of NewerVersionQuery class

comment:2 by Eric Pettersen, 2 years ago

Resolution: → duplicate
Status: assigned → closed

Hi Helen,

Thanks for reporting this problem. It has been fixed in the 1.7 release candidate, so if you get that then you will be able to restore these sessions.

--Eric

Eric Pettersen
UCSF Computer Graphics Lab

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