Opened 22 months ago
Closed 22 months ago
#14416 closed defect (duplicate)
Session restore: No module named 'lz4._version'
| Reported by: | Owned by: | Greg Couch | |
|---|---|---|---|
| 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: Windows-10-10.0.19044
ChimeraX Version: 1.3 (2021-12-08 23:08:33 UTC)
Description
(Describe the actions that caused this problem to occur here)
Log:
UCSF ChimeraX version: 1.3 (2021-12-08)
© 2016-2021 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open "E:/sui lab/tom/tomnew/1207/sun/TOMB.pdb"
Chain information for TOMB.pdb #1
---
Chain | Description
A | No description available
D | No description available
G | No description available
H | No description available
I | No description available
K | No description available
> open "E:/sui lab/tom/tomnew/1207/sun/7VD2B.pdb"
Chain information for 7VD2B.pdb #2
---
Chain | Description
A | No description available
D | No description available
G | No description available
H | No description available
I | No description available
> set bgColor white
> lighting simple
> lighting soft
> hide atoms
> show cartoons
> color #1 #ffff7f transparency 0
> color #1 yellow transparency 0
> color #1 #ffff7f transparency 0
> color #1 yellow transparency 0
> graphics silhouettes true
> color #2 #aaaaff transparency 0
[Repeated 1 time(s)]
> select #1/H:60
5 atoms, 4 bonds, 1 residue, 1 model selected
> select up
193 atoms, 192 bonds, 39 residues, 1 model selected
> select up
337 atoms, 336 bonds, 68 residues, 1 model selected
> color sel magenta
> color sel hot pink
> select clear
> select #2/H:68
8 atoms, 7 bonds, 1 residue, 1 model selected
> select up
256 atoms, 262 bonds, 32 residues, 1 model selected
> select up
631 atoms, 635 bonds, 60 residues, 1 model selected
> ui tool show "Color Actions"
> color sel medium purple
> select clear
> select #2/H:72
11 atoms, 11 bonds, 1 residue, 1 model selected
> select up
256 atoms, 262 bonds, 32 residues, 1 model selected
> select up
631 atoms, 635 bonds, 60 residues, 1 model selected
> ui tool show "Color Actions"
> color sel slate blue
> color sel medium slate blue
> color sel medium purple
> color sel medium slate blue
> color sel slate blue
> color sel medium slate blue
> select clear
> turn x 90
[Repeated 3 time(s)]
> save "E:/sui lab/tom/tomnew/1207/sun/b1.png" width 1336 height 776
> supersample 3
> turn x 90
[Repeated 2 time(s)]
> save "E:/sui lab/tom/tomnew/1207/sun/b2.png" width 1336 height 776
> supersample 3
> hide #1 models
> hide #2 models
> open "E:/sui lab/tom/tomnew/1207/sun/7VD2A.pdb"
Chain information for 7VD2A.pdb #3
---
Chain | Description
B | No description available
C | No description available
E | No description available
F | No description available
J | No description available
> open "E:/sui lab/tom/tomnew/1207/sun/TOMA.pdb"
Chain information for TOMA.pdb #4
---
Chain | Description
B | No description available
C | No description available
E | No description available
F | No description available
J | No description available
> hide #3-4 atoms
> show #3-4 cartoons
> color #4 #aaffff transparency 0
> color #4 #9bfdff transparency 0
> color #4 #a5ffeb transparency 0
> color #4 #a0faff transparency 0
> color #4 #aaffff transparency 0
> color #4 #9dfff7 transparency 0
> color #4 #a9fff1 transparency 0
> color #4 #b5fff9 transparency 0
> color #3 #aaaaff transparency 0
> hide #3 models
> select #4/C:60
5 atoms, 4 bonds, 1 residue, 1 model selected
> select up
183 atoms, 182 bonds, 37 residues, 1 model selected
> select up
317 atoms, 316 bonds, 63 residues, 1 model selected
> color sel cyan
> select clear
> hide #4 models
> show #3 models
> select #3/C:64
4 atoms, 3 bonds, 1 residue, 1 model selected
> select up
261 atoms, 267 bonds, 33 residues, 1 model selected
> select up
582 atoms, 587 bonds, 60 residues, 1 model selected
> ui tool show "Color Actions"
> color sel slate blue
> select clear
> show #4 models
> ui tool show Matchmaker
> matchmaker #3 to #4
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 TOMA.pdb, chain B (#4) with 7VD2A.pdb, chain B (#3), sequence
alignment score = 1447.4
RMSD between 277 pruned atom pairs is 0.649 angstroms; (across all 286 pairs:
0.780)
> turn x 90
[Repeated 3 time(s)]
> save "E:/sui lab/tom/tomnew/1207/sun/b3.png" width 1336 height 776
> supersample 3
> turn x 90
[Repeated 2 time(s)]
> save "E:/sui lab/tom/tomnew/1207/sun/b4.png" width 1336 height 776
> supersample 3
> show #2 models
> show #1 models
> hide #4 models
> hide #3 models
> hide #2 models
> hide #1 models
> show #3 models
> show #4 models
> show #2 models
> show #1 models
> hide #1 models
> hide #2 models
> show #2 models
> hide #2 models
> show #2 models
> hide #2 models
> show #2 models
> show #1 models
> hide #3 models
> hide #4 models
No map chosen to save
> show #3 models
> show #4 models
> save "E:/sui lab/tom/tomnew/1207/sun/f4.cxs"
Traceback (most recent call last):
File "D:\ChimeraX 1.3\bin\lib\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 "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\save_command\dialog.py",
line 127, in show_save_file_dialog
_dlg.display(session, **kw)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\save_command\dialog.py",
line 51, in display
run(session, cmd)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\commands\run.py",
line 36, in run
results = command.run(text, log=log, return_json=return_json)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\commands\cli.py",
line 2856, in run
result = ci.function(session, **kw_args)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\save_command\cmd.py",
line 75, in cmd_save
Command(session, registry=registry).run(provider_cmd_text, log=log)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\commands\cli.py",
line 2856, in run
result = ci.function(session, **kw_args)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\save_command\cmd.py",
line 89, in provider_save
saver_info.save(session, path, **provider_kw)
File "D:\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core_formats\\__init__.py", line 84, in save
return cxs_save(session, path, **kw)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\session.py", line
884, in save
output = open_func(path)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\session.py", line
879, in lz4_open
import lz4.frame
File "D:\ChimeraX 1.3\bin\lib\site-packages\lz4\\__init__.py", line 14, in
<module>
from ._version import ( # noqa: F401
ModuleNotFoundError: No module named 'lz4._version'
ModuleNotFoundError: No module named 'lz4._version'
File "D:\ChimeraX 1.3\bin\lib\site-packages\lz4\\__init__.py", line 14, in
from ._version import ( # noqa: F401
See log for complete Python traceback.
> save "E:/sui lab/tom/tomnew/1207/sun/2.cxs"
Traceback (most recent call last):
File "D:\ChimeraX 1.3\bin\lib\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 "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\save_command\dialog.py",
line 127, in show_save_file_dialog
_dlg.display(session, **kw)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\save_command\dialog.py",
line 51, in display
run(session, cmd)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\commands\run.py",
line 36, in run
results = command.run(text, log=log, return_json=return_json)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\commands\cli.py",
line 2856, in run
result = ci.function(session, **kw_args)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\save_command\cmd.py",
line 75, in cmd_save
Command(session, registry=registry).run(provider_cmd_text, log=log)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\commands\cli.py",
line 2856, in run
result = ci.function(session, **kw_args)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\save_command\cmd.py",
line 89, in provider_save
saver_info.save(session, path, **provider_kw)
File "D:\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core_formats\\__init__.py", line 84, in save
return cxs_save(session, path, **kw)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\session.py", line
884, in save
output = open_func(path)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\session.py", line
879, in lz4_open
import lz4.frame
File "D:\ChimeraX 1.3\bin\lib\site-packages\lz4\\__init__.py", line 14, in
<module>
from ._version import ( # noqa: F401
ModuleNotFoundError: No module named 'lz4._version'
ModuleNotFoundError: No module named 'lz4._version'
File "D:\ChimeraX 1.3\bin\lib\site-packages\lz4\\__init__.py", line 14, in
from ._version import ( # noqa: F401
See log for complete Python traceback.
> save "E:/sui lab/tom/tomnew/1207/sun/4.cxs"
Traceback (most recent call last):
File "D:\ChimeraX 1.3\bin\lib\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 "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\save_command\dialog.py",
line 127, in show_save_file_dialog
_dlg.display(session, **kw)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\save_command\dialog.py",
line 51, in display
run(session, cmd)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\commands\run.py",
line 36, in run
results = command.run(text, log=log, return_json=return_json)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\commands\cli.py",
line 2856, in run
result = ci.function(session, **kw_args)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\save_command\cmd.py",
line 75, in cmd_save
Command(session, registry=registry).run(provider_cmd_text, log=log)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\commands\cli.py",
line 2856, in run
result = ci.function(session, **kw_args)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\save_command\cmd.py",
line 89, in provider_save
saver_info.save(session, path, **provider_kw)
File "D:\ChimeraX 1.3\bin\lib\site-
packages\chimerax\core_formats\\__init__.py", line 84, in save
return cxs_save(session, path, **kw)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\session.py", line
884, in save
output = open_func(path)
File "D:\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\session.py", line
879, in lz4_open
import lz4.frame
File "D:\ChimeraX 1.3\bin\lib\site-packages\lz4\\__init__.py", line 14, in
<module>
from ._version import ( # noqa: F401
ModuleNotFoundError: No module named 'lz4._version'
ModuleNotFoundError: No module named 'lz4._version'
File "D:\ChimeraX 1.3\bin\lib\site-packages\lz4\\__init__.py", line 14, in
from ._version import ( # noqa: F401
See log for complete Python traceback.
OpenGL version: 3.3.0 NVIDIA 517.00
OpenGL renderer: NVIDIA GeForce RTX 2060/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Manufacturer: LENOVO
Model: 82AX
OS: Microsoft Windows 10 家庭中文版 (Build 19044)
Memory: 17,040,195,584
MaxProcessMemory: 137,438,953,344
CPU: 16 Intel(R) Core(TM) i7-10875H CPU @ 2.30GHz
OSLanguage: zh-CN
Locale: ('zh_CN', 'cp936')
PyQt5 5.15.2, Qt 5.15.2
Installed Packages:
alabaster: 0.7.12
appdirs: 1.4.4
Babel: 2.9.1
backcall: 0.2.0
blockdiag: 2.0.1
certifi: 2021.10.8
cftime: 1.5.1.1
charset-normalizer: 2.0.9
ChimeraX-AddCharge: 1.2.2
ChimeraX-AddH: 2.1.11
ChimeraX-AlignmentAlgorithms: 2.0
ChimeraX-AlignmentHdrs: 3.2
ChimeraX-AlignmentMatrices: 2.0
ChimeraX-Alignments: 2.2.3
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.0.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.0
ChimeraX-Atomic: 1.31
ChimeraX-AtomicLibrary: 4.2
ChimeraX-AtomSearch: 2.0
ChimeraX-AtomSearchLibrary: 1.0
ChimeraX-AxesPlanes: 2.0
ChimeraX-BasicActions: 1.1
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.0
ChimeraX-BondRot: 2.0
ChimeraX-BugReporter: 1.0
ChimeraX-BuildStructure: 2.6.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.1
ChimeraX-ButtonPanel: 1.0
ChimeraX-CageBuilder: 1.0
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.2
ChimeraX-ChemGroup: 2.0
ChimeraX-Clashes: 2.2.2
ChimeraX-ColorActions: 1.0
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5
ChimeraX-CommandLine: 1.1.5
ChimeraX-ConnectStructure: 2.0
ChimeraX-Contacts: 1.0
ChimeraX-Core: 1.3
ChimeraX-CoreFormats: 1.1
ChimeraX-coulombic: 1.3.2
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0
ChimeraX-DataFormats: 1.2.2
ChimeraX-Dicom: 1.0
ChimeraX-DistMonitor: 1.1.5
ChimeraX-DistUI: 1.0
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ExperimentalCommands: 1.0
ChimeraX-FileHistory: 1.0
ChimeraX-FunctionKey: 1.0
ChimeraX-Geometry: 1.1
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.1
ChimeraX-Hbonds: 2.1.2
ChimeraX-Help: 1.2
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
ChimeraX-Label: 1.1
ChimeraX-ListInfo: 1.1.1
ChimeraX-Log: 1.1.4
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.8.1
ChimeraX-Map: 1.1
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0
ChimeraX-MapFilter: 2.0
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1
ChimeraX-Markers: 1.0
ChimeraX-Mask: 1.0
ChimeraX-MatchMaker: 2.0.4
ChimeraX-MDcrds: 2.6
ChimeraX-MedicalToolbar: 1.0.1
ChimeraX-Meeting: 1.0
ChimeraX-MLP: 1.1
ChimeraX-mmCIF: 2.4
ChimeraX-MMTF: 2.1
ChimeraX-Modeller: 1.2.6
ChimeraX-ModelPanel: 1.2.1
ChimeraX-ModelSeries: 1.0
ChimeraX-Mol2: 2.0
ChimeraX-Morph: 1.0
ChimeraX-MouseModes: 1.1
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nucleotides: 2.0.2
ChimeraX-OpenCommand: 1.7
ChimeraX-PDB: 2.6.5
ChimeraX-PDBBio: 1.0
ChimeraX-PDBLibrary: 1.0.2
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.0.1
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-ResidueFit: 1.0
ChimeraX-RestServer: 1.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 2.0.1
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.4.6
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0
ChimeraX-Shortcuts: 1.1
ChimeraX-ShowAttr: 1.0
ChimeraX-ShowSequences: 1.0
ChimeraX-SideView: 1.0
ChimeraX-Smiles: 2.1
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.6.1
ChimeraX-STL: 1.0
ChimeraX-Storm: 1.0
ChimeraX-Struts: 1.0
ChimeraX-Surface: 1.0
ChimeraX-SwapAA: 2.0
ChimeraX-SwapRes: 2.1
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1
ChimeraX-ToolshedUtils: 1.2
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.13.7
ChimeraX-uniprot: 2.2
ChimeraX-UnitCell: 1.0
ChimeraX-ViewDockX: 1.0.1
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0
ChimeraX-WebServices: 1.0
ChimeraX-Zone: 1.0
colorama: 0.4.4
comtypes: 1.1.10
cxservices: 1.1
cycler: 0.11.0
Cython: 0.29.24
decorator: 5.1.0
docutils: 0.17.1
filelock: 3.0.12
funcparserlib: 0.3.6
grako: 3.16.5
h5py: 3.6.0
html2text: 2020.1.16
idna: 3.3
ihm: 0.21
imagecodecs: 2021.4.28
imagesize: 1.3.0
ipykernel: 5.5.5
ipython: 7.23.1
ipython-genutils: 0.2.0
jedi: 0.18.0
Jinja2: 3.0.1
jupyter-client: 6.1.12
jupyter-core: 4.9.1
kiwisolver: 1.3.2
lxml: 4.6.3
lz4: 3.1.3
MarkupSafe: 2.0.1
matplotlib: 3.4.3
matplotlib-inline: 0.1.3
msgpack: 1.0.2
netCDF4: 1.5.7
networkx: 2.6.3
numexpr: 2.8.0
numpy: 1.21.2
openvr: 1.16.801
packaging: 21.3
ParmEd: 3.2.0
parso: 0.8.3
pickleshare: 0.7.5
Pillow: 8.3.2
pip: 21.2.4
pkginfo: 1.7.1
prompt-toolkit: 3.0.23
psutil: 5.8.0
pycollada: 0.7.1
pydicom: 2.1.2
Pygments: 2.10.0
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 3.0.6
PyQt5-commercial: 5.15.2
PyQt5-sip: 12.8.1
PyQtWebEngine-commercial: 5.15.2
python-dateutil: 2.8.2
pytz: 2021.3
pywin32: 228
pyzmq: 22.3.0
qtconsole: 5.1.1
QtPy: 1.11.3
RandomWords: 0.3.0
requests: 2.26.0
scipy: 1.7.1
setuptools: 57.5.0
sfftk-rw: 0.7.1
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
Sphinx: 4.2.0
sphinx-autodoc-typehints: 1.12.0
sphinxcontrib-applehelp: 1.0.2
sphinxcontrib-blockdiag: 2.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 2.0.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.5
suds-jurko: 0.6
tables: 3.6.1
tifffile: 2021.4.8
tinyarray: 1.2.3
tornado: 6.1
traitlets: 5.1.1
urllib3: 1.26.7
wcwidth: 0.2.5
webcolors: 1.11.1
wheel: 0.37.0
wheel-filename: 1.3.0
WMI: 1.5.1
Change History (2)
comment:1 by , 22 months ago
| Component: | Unassigned → Sessions |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Session restore: No module named 'lz4._version' |
comment:2 by , 22 months ago
| Resolution: | → duplicate |
|---|---|
| Status: | assigned → closed |
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Duplicate of #10408