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Opened 5 months ago
Closed 5 months ago
#18052 closed defect (can't reproduce)
'name' not in Surface session-restore data
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Sessions | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-15.5-arm64-arm-64bit
ChimeraX Version: 1.9 (2024-12-11 19:11:19 UTC)
Description
Replace this text with list of actions that caused this problem to occur
Log:
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.9 (2024-12-11)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open
> /Users/rag/Desktop/rec/20241225_ferritag_Aquilos_grid2_Position_2_3_rec.mrc
Opened 20241225_ferritag_Aquilos_grid2_Position_2_3_rec.mrc as #1, grid size
1024,1024,234, pixel 9.56,9.56,9.56, shown at level 52, step 4, values int8
> volume #1 level 45.14
> open /Users/rag/Desktop/seg/2-3.obj
> /Users/rag/Desktop/seg/20241225_ferritag_Aquilos_grid2_Position_2_3_3.obj
> /Users/rag/Desktop/seg/20241225_ferritag_Aquilos_grid2_Position_2_3_rec.surf.obj
Opened OBJ file 2-3.obj containing 1 objects, 2975288 triangles
Opened OBJ file 20241225_ferritag_Aquilos_grid2_Position_2_3_3.obj containing
1 objects, 752410 triangles
Opened OBJ file 20241225_ferritag_Aquilos_grid2_Position_2_3_rec.surf.obj
containing 1 objects, 22420 triangles
> volume #1 level 46.52
> hide #!1 models
> show #!1 models
> volume #1 level 31.87
> hide #!1 models
> show #!1 models
> hide #!1 models
> view orient
> color #2 #0433ffff
> hide #4 models
> show #4 models
> hide #4 models
> color #4 #ff2600ff
> show #4 models
> hide #4 models
> color #4 #942192ff
> color #3 #942192ff
> color #3 #00f900ff
> color #3 #ff9300ff
> show #4 models
> hide #4 models
> ui mousemode right "tape measure"
[Repeated 1 time(s)]
> set bgColor white
> set bgColor #ffffff00
> ui mousemode right "tape measure"
[Repeated 3 time(s)]
> view orient
[Repeated 1 time(s)]
> set bgColor black
> set bgColor transparent
> open /Users/rag/Desktop/seg/emd_30083_bin8.mrc
Opened emd_30083_bin8.mrc as #5, grid size 36,36,36, pixel 6.96, shown at
level 0.0116, step 1, values float32
> show #4 models
> volume #5 level 0.007096
> ui mousemode right select
Drag select of 5 emd_30083_bin8.mrc
> ui mousemode right "translate selected models"
> view matrix models #5,1,0,0,1808.1,0,1,0,2921.6,0,0,1,566.84
> view matrix models #5,1,0,0,1547.5,0,1,0,2780.6,0,0,1,-465.42
> view matrix models #5,1,0,0,1988.8,0,1,0,3079,0,0,1,-580.48
> view matrix models #5,1,0,0,1980.5,0,1,0,3080.1,0,0,1,-600.83
> view matrix models #5,1,0,0,1987.5,0,1,0,3089.2,0,0,1,-598.92
> view matrix models #5,1,0,0,1846.9,0,1,0,2993.5,0,0,1,-618.03
> volume #5 level 0.005821
> view matrix models #5,1,0,0,1984.1,0,1,0,3086.9,0,0,1,-599.39
> open /Users/rag/Desktop/seg/emd_30083_bin8.mrc
Opened emd_30083_bin8.mrc as #6, grid size 36,36,36, pixel 6.96, shown at
level 0.0116, step 1, values float32
> open /Users/rag/Desktop/seg/emd_30083_bin8.mrc
Opened emd_30083_bin8.mrc as #7, grid size 36,36,36, pixel 6.96, shown at
level 0.0116, step 1, values float32
> open /Users/rag/Desktop/seg/emd_30083_bin8.mrc
Opened emd_30083_bin8.mrc as #8, grid size 36,36,36, pixel 6.96, shown at
level 0.0116, step 1, values float32
> open /Users/rag/Desktop/seg/emd_30083_bin8.mrc
Opened emd_30083_bin8.mrc as #9, grid size 36,36,36, pixel 6.96, shown at
level 0.0116, step 1, values float32
> open /Users/rag/Desktop/seg/emd_30083_bin8.mrc
Opened emd_30083_bin8.mrc as #10, grid size 36,36,36, pixel 6.96, shown at
level 0.0116, step 1, values float32
> ui mousemode right select
Drag select of 40 emd_30083_bin8.mrc
> ui mousemode right "translate selected models"
> view matrix models
> #6,1,0,0,-522.42,0,1,0,3465.1,0,0,1,26.508,#7,1,0,0,-522.42,0,1,0,3465.1,0,0,1,26.508,#8,1,0,0,-522.42,0,1,0,3465.1,0,0,1,26.508,#9,1,0,0,-522.42,0,1,0,3465.1,0,0,1,26.508,#10,1,0,0,-522.42,0,1,0,3465.1,0,0,1,26.508
> view matrix models
> #6,1,0,0,-523.2,0,1,0,3466.6,0,0,1,26.455,#7,1,0,0,-523.2,0,1,0,3466.6,0,0,1,26.455,#8,1,0,0,-523.2,0,1,0,3466.6,0,0,1,26.455,#9,1,0,0,-523.2,0,1,0,3466.6,0,0,1,26.455,#10,1,0,0,-523.2,0,1,0,3466.6,0,0,1,26.455
> ui mousemode right select
> select clear
[Repeated 1 time(s)]
> select #6
2 models selected
> ui mousemode right "translate selected models"
> view matrix models #6,1,0,0,-397.49,0,1,0,3674.2,0,0,1,39.115
> view matrix models #6,1,0,0,-397.78,0,1,0,3673.1,0,0,1,39.024
> ui mousemode right select
> select #7
2 models selected
> ui mousemode right "translate selected models"
> view matrix models #7,1,0,0,-312.19,0,1,0,3344.8,0,0,1,-14.301
> ui mousemode right select
> select clear
> ui mousemode right "translate selected models"
> ui mousemode right select
> select #7
2 models selected
> ui mousemode right "translate selected models"
> view matrix models #7,1,0,0,-435.22,0,1,0,3338.3,0,0,1,0.0015096
> hide #!7 models
> show #!7 models
> select subtract #5
2 models selected
> ui mousemode right "translate selected models"
> view matrix models #7,1,0,0,-326.7,0,1,0,3465.7,0,0,1,2.2527
> select subtract #7
Nothing selected
> select add #8
2 models selected
> select add #10
4 models selected
> select add #9
6 models selected
> select subtract #9
4 models selected
> select subtract #10
2 models selected
> view matrix models #8,1,0,0,-641.51,0,1,0,3676.1,0,0,1,66.555
> select subtract #8
Nothing selected
> hide #!6 models
> show #!6 models
> hide #!7 models
> show #!7 models
> hide #!8 models
> show #!8 models
> hide #!9 models
> select add #9
2 models selected
> view matrix models #9,1,0,0,-655.47,0,1,0,3438,0,0,1,39.18
> show #!9 models
> select subtract #9
Nothing selected
> select add #6
2 models selected
> view matrix models #6,1,0,0,1671.8,0,1,0,3272.7,0,0,1,-263.68
> view matrix models #6,1,0,0,1655.3,0,1,0,3254.3,0,0,1,-332.25
> view matrix models #6,1,0,0,1684.5,0,1,0,3290.3,0,0,1,-333.19
> select subtract #6
Nothing selected
> select add #7
2 models selected
> view matrix models #7,1,0,0,1610.9,0,1,0,3624.9,0,0,1,616.94
> view matrix models #7,1,0,0,1747.2,0,1,0,3426.2,0,0,1,273.52
> view matrix models #7,1,0,0,1732.4,0,1,0,3401.4,0,0,1,279.41
> select add #8
4 models selected
> select subtract #7
2 models selected
> view matrix models #8,1,0,0,5051.3,0,1,0,2399.3,0,0,1,-471
> view matrix models #8,1,0,0,5115.3,0,1,0,2789.1,0,0,1,115.77
> view matrix models #8,1,0,0,5120.1,0,1,0,2800.4,0,0,1,160.25
> view matrix models #8,1,0,0,5127.5,0,1,0,2789.1,0,0,1,142.58
> view matrix models #8,1,0,0,5136.8,0,1,0,2763.6,0,0,1,148.97
> view matrix models #8,1,0,0,5137.3,0,1,0,2766.6,0,0,1,159.83
> view matrix models #8,1,0,0,5131.9,0,1,0,2778.2,0,0,1,159.92
> select subtract #8
Nothing selected
> select add #9
2 models selected
> view matrix models #9,1,0,0,6079.3,0,1,0,3446.4,0,0,1,-119.03
> view matrix models #9,1,0,0,6087.7,0,1,0,3410.7,0,0,1,114.62
> view matrix models #9,1,0,0,6100.1,0,1,0,3431.6,0,0,1,108.91
> view matrix models #9,1,0,0,6088.9,0,1,0,3419.5,0,0,1,108.59
> select subtract #9
Nothing selected
> select add #10
2 models selected
> view matrix models #10,1,0,0,6173.7,0,1,0,4750.3,0,0,1,-2812.5
> view matrix models #10,1,0,0,5799.5,0,1,0,4680.5,0,0,1,406.2
> view matrix models #10,1,0,0,6724.5,0,1,0,4707,0,0,1,593.23
> view matrix models #10,1,0,0,6836.4,0,1,0,4666.2,0,0,1,286.11
> view matrix models #10,1,0,0,6846.3,0,1,0,4783.5,0,0,1,278.41
> view matrix models #10,1,0,0,6826.7,0,1,0,4765.2,0,0,1,274.92
> select subtract #10
Nothing selected
> open /Users/rag/Desktop/seg/emd_30083_bin8.mrc
Opened emd_30083_bin8.mrc as #11, grid size 36,36,36, pixel 6.96, shown at
level 0.0116, step 1, values float32
> select add #11
2 models selected
> view matrix models #11,1,0,0,7527.1,0,1,0,4792.4,0,0,1,-1741.1
> color #11 #ff40ffff models
> color #11 #878787ff models
> view matrix models #11,1,0,0,6828.8,0,1,0,4895.7,0,0,1,170.15
> view matrix models #11,1,0,0,6923.1,0,1,0,4918.8,0,0,1,177.52
> view matrix models #11,1,0,0,6918.1,0,1,0,4934.3,0,0,1,187.95
> color #11 #ff40ffff models
> color #10 #ff40ffff models
> color #9 #ff40ffff models
> color #8 #ff40ffff models
> color #7 #ff40ffff models
> color #6 #ff40ffff models
> color #5 #ff40ffff models
> hide #4 models
> show #4 models
> color #4 #fffb00ff
> open /Users/rag/Desktop/seg/2-2.cxs
Error opening map "/Users/rag/Desktop/seg/2-2.cxs": File 2-2.cxs, format mrc
MRC header value nsymbt (875113504) is invalid
restore_snapshot for "Volume" returned None
restore_snapshot for "VolumeImage" returned None
Unable to restore session, resetting.
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 873, in restore
obj = sm.restore_snapshot(self, data)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 575, in restore_snapshot
m = Surface(data['name'], session)
~~~~^^^^^^^^
KeyError: 'name'
opened ChimeraX session
> open /Users/rag/Desktop/seg/2-2.cxs format session
Error opening map "/Users/rag/Desktop/seg/2-2.cxs": File 2-2.cxs, format mrc
MRC header value nsymbt (875113504) is invalid
restore_snapshot for "Volume" returned None
restore_snapshot for "VolumeImage" returned None
Unable to restore session, resetting.
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/session.py", line 873, in restore
obj = sm.restore_snapshot(self, data)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 575, in restore_snapshot
m = Surface(data['name'], session)
~~~~^^^^^^^^
KeyError: 'name'
opened ChimeraX session
OpenGL version: 4.1 Metal - 89.4
OpenGL renderer: Apple M4 Pro
OpenGL vendor: Apple
Python: 3.11.4
Locale: en_US.UTF-8
Qt version: PyQt6 6.7.1, Qt 6.7.1
Qt runtime version: 6.7.3
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: Mac16,7
Model Number: MX2U3CH/A
Chip: Apple M4 Pro
Total Number of Cores: 14 (10 performance and 4 efficiency)
Memory: 48 GB
System Firmware Version: 11881.121.1
OS Loader Version: 11881.121.1
Software:
System Software Overview:
System Version: macOS 15.5 (24F74)
Kernel Version: Darwin 24.5.0
Time since boot: 1天6小时19分钟
Graphics/Displays:
Apple M4 Pro:
Chipset Model: Apple M4 Pro
Type: GPU
Bus: Built-In
Total Number of Cores: 20
Vendor: Apple (0x106b)
Metal Support: Metal 3
Displays:
LG HDR 4K:
Resolution: 3840 x 2160 (2160p/4K UHD 1 - Ultra High Definition)
UI Looks like: 1920 x 1080 @ 60.00Hz
Main Display: Yes
Mirror: Off
Online: Yes
Rotation: Supported
Color LCD:
Display Type: Built-in Liquid Retina XDR Display
Resolution: 3456 x 2234 Retina
Mirror: Off
Online: Yes
Automatically Adjust Brightness: No
Connection Type: Internal
Installed Packages:
alabaster: 1.0.0
anyio: 4.7.0
appdirs: 1.4.4
appnope: 0.1.4
asttokens: 3.0.0
auditwheel: 6.1.0
babel: 2.16.0
beautifulsoup4: 4.12.3
blockdiag: 3.0.0
blosc2: 3.0.0
build: 1.2.1
certifi: 2023.11.17
cftime: 1.6.4.post1
charset-normalizer: 3.4.0
ChimeraX-AddCharge: 1.5.18
ChimeraX-AddH: 2.2.6
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.5
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.16.1
ChimeraX-AlphaFold: 1.0.1
ChimeraX-AltlocExplorer: 1.1.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.58.8
ChimeraX-AtomicLibrary: 14.1.11
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.2
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 3.0.0
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.13.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.4.0
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.4
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.4
ChimeraX-ChemGroup: 2.0.1
ChimeraX-Clashes: 2.3
ChimeraX-ColorActions: 1.0.5
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.6
ChimeraX-CommandLine: 1.2.5
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.9
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.4
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.3
ChimeraX-Dicom: 1.2.6
ChimeraX-DistMonitor: 1.4.2
ChimeraX-DockPrep: 1.1.3
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: 1.4.1
ChimeraX-Hbonds: 2.5
ChimeraX-Help: 1.3
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.3
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-KVFinder: 1.2.1
ChimeraX-Label: 1.1.14
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.2
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.1
ChimeraX-Map: 1.3
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: 2.1.6
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.7.2
ChimeraX-MedicalToolbar: 1.1
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.14.2
ChimeraX-MMTF: 2.2
ChimeraX-ModelArchive: 1.0
ChimeraX-Modeller: 1.5.18
ChimeraX-ModelPanel: 1.5
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-MutationScores: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nifti: 1.2
ChimeraX-NMRSTAR: 1.0.2
ChimeraX-NRRD: 1.2
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.14
ChimeraX-OrthoPick: 1.0.1
ChimeraX-PDB: 2.7.6
ChimeraX-PDBBio: 1.0.1
ChimeraX-PDBLibrary: 1.0.4
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1.2
ChimeraX-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.6.2
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.3.1
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: 2.0.2
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-Segmentations: 3.5.6
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.14
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.2.0
ChimeraX-ShowSequences: 1.0.3
ChimeraX-SideView: 1.0.1
ChimeraX-SimilarStructures: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.18.1
ChimeraX-STL: 1.0.1
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.2.1
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0.1
ChimeraX-SwapAA: 2.0.1
ChimeraX-SwapRes: 2.5
ChimeraX-TapeMeasure: 1.0
ChimeraX-TaskManager: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.2.3
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.41
ChimeraX-Umap: 1.0
ChimeraX-uniprot: 2.3.1
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.4.4
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0.1
ChimeraX-vrml: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0.2
ChimeraX-WebServices: 1.1.4
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.2.2
contourpy: 1.3.1
cxservices: 1.2.3
cycler: 0.12.1
Cython: 3.0.10
debugpy: 1.8.9
decorator: 5.1.1
docutils: 0.21.2
executing: 2.1.0
filelock: 3.15.4
fonttools: 4.55.3
funcparserlib: 2.0.0a0
glfw: 2.8.0
grako: 3.16.5
h11: 0.14.0
h5py: 3.12.1
html2text: 2024.2.26
httpcore: 1.0.7
httpx: 0.28.1
idna: 3.10
ihm: 1.3
imagecodecs: 2024.6.1
imagesize: 1.4.1
ipykernel: 6.29.5
ipython: 8.26.0
ipywidgets: 8.1.5
jedi: 0.19.1
Jinja2: 3.1.4
jupyter_client: 8.6.2
jupyter_core: 5.7.2
jupyterlab_widgets: 3.0.13
kiwisolver: 1.4.7
line_profiler: 4.1.3
lxml: 5.2.2
lz4: 4.3.3
MarkupSafe: 3.0.2
matplotlib: 3.9.2
matplotlib-inline: 0.1.7
msgpack: 1.0.8
ndindex: 1.9.2
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numexpr: 2.10.2
numpy: 1.26.4
openvr: 1.26.701
packaging: 23.2
ParmEd: 4.2.2
parso: 0.8.4
pep517: 0.13.1
pexpect: 4.9.0
pillow: 10.4.0
pip: 24.2
pkginfo: 1.11.1
platformdirs: 4.3.6
prompt_toolkit: 3.0.48
psutil: 6.0.0
ptyprocess: 0.7.0
pure_eval: 0.2.3
py-cpuinfo: 9.0.0
pycollada: 0.8
pydicom: 2.4.4
pyelftools: 0.31
Pygments: 2.18.0
pynmrstar: 3.3.4
pynrrd: 1.0.0
PyOpenGL: 3.1.7
PyOpenGL-accelerate: 3.1.7
pyopenxr: 1.0.3401
pyparsing: 3.2.0
pyproject_hooks: 1.2.0
PyQt6-commercial: 6.7.1
PyQt6-Qt6: 6.7.3
PyQt6-WebEngine-commercial: 6.7.0
PyQt6-WebEngine-Qt6: 6.7.3
PyQt6-WebEngineSubwheel-Qt6: 6.7.3
PyQt6_sip: 13.8.0
python-dateutil: 2.9.0.post0
pytz: 2024.2
pyzmq: 26.2.0
qtconsole: 5.5.2
QtPy: 2.4.2
qtshim: 1.0
RandomWords: 0.4.0
requests: 2.32.3
scipy: 1.14.0
setuptools: 72.1.0
sfftk-rw: 0.8.1
six: 1.16.0
sniffio: 1.3.1
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
soupsieve: 2.6
Sphinx: 8.0.2
sphinx-autodoc-typehints: 2.2.3
sphinxcontrib-applehelp: 2.0.0
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 2.0.0
sphinxcontrib-htmlhelp: 2.1.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 2.0.0
sphinxcontrib-serializinghtml: 2.0.0
stack-data: 0.6.3
superqt: 0.6.3
tables: 3.10.1
tcia_utils: 1.5.1
tifffile: 2024.7.24
tinyarray: 1.2.4
tornado: 6.4.2
traitlets: 5.14.3
typing_extensions: 4.12.2
tzdata: 2024.2
urllib3: 2.2.3
wcwidth: 0.2.13
webcolors: 24.6.0
wheel: 0.43.0
wheel-filename: 1.4.1
widgetsnbextension: 4.0.13
Change History (2)
comment:1 by , 5 months ago
| Component: | Unassigned → Sessions |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → 'name' not in Surface session-restore data |
comment:2 by , 5 months ago
| Resolution: | → can't reproduce |
|---|---|
| Status: | assigned → closed |
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User has a session 2-2.cxs that refers to an MRC file that has bad metadata and fails to open.
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/models.py", line 575, in restore_snapshot
m = Surface(dataname, session)
KeyError: 'name'
But that should not cause the session restore to fail, and in my test with a bad MRC file linked from a session the session still restores without the volume. So this session file has some other problem.