Opened 3 years ago
Closed 3 years ago
#7604 closed defect (duplicate)
Error in ToolShed error message
| Reported by: | Owned by: | Greg Couch | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Tool Shed | Version: | |
| Keywords: | Cc: | Tristan Croll, Eric Pettersen | |
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: Linux-3.10.0-1160.31.1.el7.x86_64-x86_64-with-redhat-7.9-Maipo
ChimeraX Version: 1.1 (2020-09-09 22:22:27 UTC)
Description
(Describe the actions that caused this problem to occur here)
Log:
UCSF ChimeraX version: 1.1 (2020-09-09)
© 2016-2020 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open
> /home/kmanne/Documents/TSLP/TSLP+46640/ALS_502_20220902/XDS_AMG7p8_1/Refine_10/TSLP_46640_AMG7p8_ALS502_20220902_refine_10.pdb
Chain information for TSLP_46640_AMG7p8_ALS502_20220902_refine_10.pdb #1
---
Chain | Description
A | No description available
B | No description available
> set bgColor white
> open
> /home/kmanne/Documents/TSLP/TSLP+46640/ALS_502_20220902/XDS_AMG7p8_1/pointless.mtz
> structure#1
'structure#1' has no suffix
> open
> /home/kmanne/Documents/TSLP/TSLP+46640/ALS_502_20220902/XDS_AMG7p8_1/pointless.mtz
> structureModel #1
Summary of feedback from opening
/home/kmanne/Documents/TSLP/TSLP+46640/ALS_502_20220902/XDS_AMG7p8_1/pointless.mtz
---
notes | Discarding unrecognised/unsupported data array
/HKL_base/HKL_base/M_ISYM Y
Discarding unrecognised/unsupported data array /HKL_base/HKL_base/BATCH B
Discarding unrecognised/unsupported data array /HKL_base/HKL_base/FRACTIONCALC
R
Discarding unrecognised/unsupported data array /HKL_base/HKL_base/XDET R
Discarding unrecognised/unsupported data array /HKL_base/HKL_base/YDET R
2 messages similar to the above omitted
Reflection data provided as intensities. Performing French & Wilson scaling to
convert to amplitudes...
Failed on HKL = ( -30, 0, 1)
N_bins: 60 Imean: -0.2748146101960023 I: -16.93000030517578 sigI:
29.34000015258789 eobs_sq: 30.802584136813227 sig_eobs_sq: -53.38144164107964
Traceback (most recent call last):
File "/home/kmanne/Documents/Software/chimerax-1.1/lib/python3.7/site-
packages/chimerax/cmd_line/tool.py", line 275, in execute
cmd.run(cmd_text)
File "/home/kmanne/Documents/Software/chimerax-1.1/lib/python3.7/site-
packages/chimerax/core/commands/cli.py", line 2805, in run
result = ci.function(session, **kw_args)
File "/home/kmanne/Documents/Software/chimerax-1.1/lib/python3.7/site-
packages/chimerax/open_command/cmd.py", line 100, in cmd_open
return Command(session, registry=registry).run(provider_cmd_text, log=log)
File "/home/kmanne/Documents/Software/chimerax-1.1/lib/python3.7/site-
packages/chimerax/core/commands/cli.py", line 2805, in run
result = ci.function(session, **kw_args)
File "/home/kmanne/Documents/Software/chimerax-1.1/lib/python3.7/site-
packages/chimerax/open_command/cmd.py", line 154, in provider_open
name or model_name_from_path(fi.file_name)), provider_kw)
File "/home/kmanne/Documents/Software/chimerax-1.1/lib/python3.7/site-
packages/chimerax/open_command/cmd.py", line 389, in collated_open
return func(*func_args, **func_kw)
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/__init__.py", line 228, in open
return open_structure_factors(session, data, **kw)
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/cmd.py", line 32, in open_structure_factors
xmapset = mmgr.add_xmapset_from_file(path, oversampling_rate=over_sampling)
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/maps/map_mgr.py", line 306, in add_xmapset_from_file
return XmapSet(self, mtzdata)
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/maps/xmapset.py", line 189, in __init__
fill_with_fcalc, exclude_missing_reflections)
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/maps/xmapset.py", line 245, in init_maps
fsigf_data = french_wilson_analytical(fsigf.data)
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/reflection_tools/french_wilson.py", line 110, in
french_wilson_analytical
e_xpct = _expected_E_FW_cen(eobs_sq, sig_eobs_sq)
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/reflection_tools/french_wilson.py", line 281, in
_expected_E_FW_cen
e_xpct = sqrt(sig_eobs_sq /pi)*pcd_ratio
ValueError: math domain error
ValueError: math domain error
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/reflection_tools/french_wilson.py", line 281, in
_expected_E_FW_cen
e_xpct = sqrt(sig_eobs_sq /pi)*pcd_ratio
See log for complete Python traceback.
> open
> /home/kmanne/Documents/TSLP/TSLP+46640/ALS_502_20220902/XDS_AMG7p8_1/pointless.mtz
> structureModel #1
Invalid "structureModel" argument: Must specify 1 model, got 0
> open
> /home/kmanne/Documents/TSLP/TSLP+46640/ALS_502_20220902/XDS_AMG7p8_1/Refine_10/TSLP_46640_AMG7p8_ALS502_20220902_refine_10.pdb
Chain information for TSLP_46640_AMG7p8_ALS502_20220902_refine_10.pdb #1
---
Chain | Description
A | No description available
B | No description available
> open
> /home/kmanne/Documents/TSLP/TSLP+46640/ALS_502_20220902/XDS_AMG7p8_1/pointless.mtz
> structureModel #1
Summary of feedback from opening
/home/kmanne/Documents/TSLP/TSLP+46640/ALS_502_20220902/XDS_AMG7p8_1/pointless.mtz
---
notes | Discarding unrecognised/unsupported data array
/HKL_base/HKL_base/M_ISYM Y
Discarding unrecognised/unsupported data array /HKL_base/HKL_base/BATCH B
Discarding unrecognised/unsupported data array /HKL_base/HKL_base/FRACTIONCALC
R
Discarding unrecognised/unsupported data array /HKL_base/HKL_base/XDET R
Discarding unrecognised/unsupported data array /HKL_base/HKL_base/YDET R
2 messages similar to the above omitted
Reflection data provided as intensities. Performing French & Wilson scaling to
convert to amplitudes...
Failed on HKL = ( -30, 0, 1)
N_bins: 60 Imean: -0.2748146101960023 I: -16.93000030517578 sigI:
29.34000015258789 eobs_sq: 30.802584136813227 sig_eobs_sq: -53.38144164107964
Traceback (most recent call last):
File "/home/kmanne/Documents/Software/chimerax-1.1/lib/python3.7/site-
packages/chimerax/cmd_line/tool.py", line 275, in execute
cmd.run(cmd_text)
File "/home/kmanne/Documents/Software/chimerax-1.1/lib/python3.7/site-
packages/chimerax/core/commands/cli.py", line 2805, in run
result = ci.function(session, **kw_args)
File "/home/kmanne/Documents/Software/chimerax-1.1/lib/python3.7/site-
packages/chimerax/open_command/cmd.py", line 100, in cmd_open
return Command(session, registry=registry).run(provider_cmd_text, log=log)
File "/home/kmanne/Documents/Software/chimerax-1.1/lib/python3.7/site-
packages/chimerax/core/commands/cli.py", line 2805, in run
result = ci.function(session, **kw_args)
File "/home/kmanne/Documents/Software/chimerax-1.1/lib/python3.7/site-
packages/chimerax/open_command/cmd.py", line 154, in provider_open
name or model_name_from_path(fi.file_name)), provider_kw)
File "/home/kmanne/Documents/Software/chimerax-1.1/lib/python3.7/site-
packages/chimerax/open_command/cmd.py", line 389, in collated_open
return func(*func_args, **func_kw)
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/__init__.py", line 228, in open
return open_structure_factors(session, data, **kw)
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/cmd.py", line 32, in open_structure_factors
xmapset = mmgr.add_xmapset_from_file(path, oversampling_rate=over_sampling)
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/maps/map_mgr.py", line 306, in add_xmapset_from_file
return XmapSet(self, mtzdata)
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/maps/xmapset.py", line 189, in __init__
fill_with_fcalc, exclude_missing_reflections)
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/maps/xmapset.py", line 245, in init_maps
fsigf_data = french_wilson_analytical(fsigf.data)
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/reflection_tools/french_wilson.py", line 110, in
french_wilson_analytical
e_xpct = _expected_E_FW_cen(eobs_sq, sig_eobs_sq)
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/reflection_tools/french_wilson.py", line 281, in
_expected_E_FW_cen
e_xpct = sqrt(sig_eobs_sq /pi)*pcd_ratio
ValueError: math domain error
ValueError: math domain error
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/reflection_tools/french_wilson.py", line 281, in
_expected_E_FW_cen
e_xpct = sqrt(sig_eobs_sq /pi)*pcd_ratio
See log for complete Python traceback.
> open
> /home/kmanne/Documents/TSLP/TSLP+46640/ALS_502_20220902/XDS_AMG7p8_1/Refine_10/TSLP_46640_AMG7p8_ALS502_20220902_refine_10.pdb
> format pdb
Chain information for TSLP_46640_AMG7p8_ALS502_20220902_refine_10.pdb #1
---
Chain | Description
A | No description available
B | No description available
> open
> /home/kmanne/Documents/TSLP/TSLP+46640/ALS_502_20220902/XDS_AMG7p8_1/aimless_all.mtz
> structureModel #1
Summary of feedback from opening
/home/kmanne/Documents/TSLP/TSLP+46640/ALS_502_20220902/XDS_AMG7p8_1/aimless_all.mtz
---
warnings | WARNING: found multiple possible R-free arrays:
(XDSdataset) N(+),
(XDSdataset) N(-)
Automatically choosing "(XDSdataset) N(+)". If this is incorrect, please
either provide a file with a single flag array, or load the file again using
the free_flag_label argument.
WARNING: multiple experimental reflection datasets found:
(XDSdataset) IMEAN, SIGIMEAN,
(XDSdataset) I(+), SIGI(+), I(-), SIGI(-)
Automatically choosing "(XDSdataset) IMEAN, SIGIMEAN".
notes | Reflection data provided as intensities. Performing French & Wilson
scaling to convert to amplitudes...
Failed on HKL = ( -30, 0, 1)
N_bins: 60 Imean: -1.1910064648093588 I: -10.102652549743652 sigI:
11.225279808044434 eobs_sq: 4.241224900219478 sig_eobs_sq: -4.712518420225886
Traceback (most recent call last):
File "/home/kmanne/Documents/Software/chimerax-1.1/lib/python3.7/site-
packages/chimerax/cmd_line/tool.py", line 275, in execute
cmd.run(cmd_text)
File "/home/kmanne/Documents/Software/chimerax-1.1/lib/python3.7/site-
packages/chimerax/core/commands/cli.py", line 2805, in run
result = ci.function(session, **kw_args)
File "/home/kmanne/Documents/Software/chimerax-1.1/lib/python3.7/site-
packages/chimerax/open_command/cmd.py", line 100, in cmd_open
return Command(session, registry=registry).run(provider_cmd_text, log=log)
File "/home/kmanne/Documents/Software/chimerax-1.1/lib/python3.7/site-
packages/chimerax/core/commands/cli.py", line 2805, in run
result = ci.function(session, **kw_args)
File "/home/kmanne/Documents/Software/chimerax-1.1/lib/python3.7/site-
packages/chimerax/open_command/cmd.py", line 154, in provider_open
name or model_name_from_path(fi.file_name)), provider_kw)
File "/home/kmanne/Documents/Software/chimerax-1.1/lib/python3.7/site-
packages/chimerax/open_command/cmd.py", line 389, in collated_open
return func(*func_args, **func_kw)
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/__init__.py", line 228, in open
return open_structure_factors(session, data, **kw)
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/cmd.py", line 32, in open_structure_factors
xmapset = mmgr.add_xmapset_from_file(path, oversampling_rate=over_sampling)
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/maps/map_mgr.py", line 306, in add_xmapset_from_file
return XmapSet(self, mtzdata)
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/maps/xmapset.py", line 189, in __init__
fill_with_fcalc, exclude_missing_reflections)
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/maps/xmapset.py", line 245, in init_maps
fsigf_data = french_wilson_analytical(fsigf.data)
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/reflection_tools/french_wilson.py", line 110, in
french_wilson_analytical
e_xpct = _expected_E_FW_cen(eobs_sq, sig_eobs_sq)
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/reflection_tools/french_wilson.py", line 281, in
_expected_E_FW_cen
e_xpct = sqrt(sig_eobs_sq /pi)*pcd_ratio
ValueError: math domain error
ValueError: math domain error
File "/home/kmanne/.local/share/ChimeraX/1.1/site-
packages/chimerax/clipper/reflection_tools/french_wilson.py", line 281, in
_expected_E_FW_cen
e_xpct = sqrt(sig_eobs_sq /pi)*pcd_ratio
See log for complete Python traceback.
> open
> /home/kmanne/Documents/TSLP/TSLP+46640/ALS_502_20220902/XDS_AMG7p8_1/Refine_10/TSLP_46640_AMG7p8_ALS502_20220902_refine_10.pdb
> format pdb
Chain information for TSLP_46640_AMG7p8_ALS502_20220902_refine_10.pdb #1
---
Chain | Description
A | No description available
B | No description available
> start isolde
Unknown command: start isolde
> toolshed show
Downloading bundle ChimeraX_ISOLDE-1.1.0-cp37-cp37m-linux_x86_64.whl
Traceback (most recent call last):
File "/home/kmanne/Documents/Software/chimerax-1.1/lib/python3.7/site-
packages/chimerax/help_viewer/tool.py", line 389, in download_finished
session=self.session)
File "/home/kmanne/Documents/Software/chimerax-1.1/lib/python3.7/site-
packages/chimerax/core/toolshed/__init__.py", line 903, in install_bundle
_install_bundle(self, bundle, logger, per_user=per_user, reinstall=reinstall,
session=session, no_deps=no_deps)
File "/home/kmanne/Documents/Software/chimerax-1.1/lib/python3.7/site-
packages/chimerax/toolshed_utils/__init__.py", line 213, in _install_bundle
raise ToolshedInstalledError("bundle %r already installed" % bundle.name)
AttributeError: 'str' object has no attribute 'name'
AttributeError: 'str' object has no attribute 'name'
File "/home/kmanne/Documents/Software/chimerax-1.1/lib/python3.7/site-
packages/chimerax/toolshed_utils/__init__.py", line 213, in _install_bundle
raise ToolshedInstalledError("bundle %r already installed" % bundle.name)
See log for complete Python traceback.
OpenGL version: 3.3.0 NVIDIA 390.143
OpenGL renderer: Quadro 5000/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Manufacturer: Hewlett-Packard
Model: HP Z600 Workstation
OS: Red Hat Enterprise Linux Workstation 7.9 Maipo
Architecture: 64bit ELF
CPU: 8 Intel(R) Xeon(R) CPU E5640 @ 2.67GHz
Cache Size: 12288 KB
Memory:
total used free shared buff/cache available
Mem: 15G 8.0G 985M 294M 6.5G 6.8G
Swap: 7.9G 558M 7.3G
Graphics:
0f:00.0 VGA compatible controller [0300]: NVIDIA Corporation GF100GL [Quadro 5000] [10de:06d9] (rev a3)
Subsystem: Hewlett-Packard Company Device [103c:0770]
Kernel driver in use: nvidia
PyQt version: 5.12.3
Compiled Qt version: 5.12.4
Runtime Qt version: 5.12.9
Installed Packages:
alabaster: 0.7.12
appdirs: 1.4.4
Babel: 2.8.0
backcall: 0.2.0
blockdiag: 2.0.1
certifi: 2020.6.20
chardet: 3.0.4
ChimeraX-AddH: 2.1.3
ChimeraX-AlignmentAlgorithms: 2.0
ChimeraX-AlignmentHdrs: 3.2
ChimeraX-AlignmentMatrices: 2.0
ChimeraX-Alignments: 2.1
ChimeraX-Arrays: 1.0
ChimeraX-Atomic: 1.6.1
ChimeraX-AtomSearch: 2.0
ChimeraX-AxesPlanes: 2.0
ChimeraX-BasicActions: 1.1
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 1.0.1
ChimeraX-BondRot: 2.0
ChimeraX-BugReporter: 1.0
ChimeraX-BuildStructure: 2.0
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.0
ChimeraX-ButtonPanel: 1.0
ChimeraX-CageBuilder: 1.0
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.1
ChimeraX-ChemGroup: 2.0
ChimeraX-Clashes: 2.0
ChimeraX-Clipper: 0.15.0
ChimeraX-ColorActions: 1.0
ChimeraX-ColorGlobe: 1.0
ChimeraX-CommandLine: 1.1.3
ChimeraX-ConnectStructure: 2.0
ChimeraX-Contacts: 1.0
ChimeraX-Core: 1.1
ChimeraX-CoreFormats: 1.0
ChimeraX-coulombic: 1.0.1
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-DataFormats: 1.0
ChimeraX-Dicom: 1.0
ChimeraX-DistMonitor: 1.1
ChimeraX-DistUI: 1.0
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ExperimentalCommands: 1.0
ChimeraX-FileHistory: 1.0
ChimeraX-FunctionKey: 1.0
ChimeraX-Geometry: 1.1
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.0
ChimeraX-Hbonds: 2.0
ChimeraX-Help: 1.0
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.0
ChimeraX-ImageFormats: 1.0
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0
ChimeraX-ISOLDE: 1.1.0
ChimeraX-Label: 1.0
ChimeraX-LinuxSupport: 1.0
ChimeraX-ListInfo: 1.0
ChimeraX-Log: 1.1.1
ChimeraX-LookingGlass: 1.1
ChimeraX-Map: 1.0.1
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0
ChimeraX-MapFilter: 2.0
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.0
ChimeraX-Markers: 1.0
ChimeraX-Mask: 1.0
ChimeraX-MatchMaker: 1.1
ChimeraX-MDcrds: 2.0
ChimeraX-MedicalToolbar: 1.0.1
ChimeraX-Meeting: 1.0
ChimeraX-MLP: 1.0
ChimeraX-mmCIF: 2.2
ChimeraX-MMTF: 2.0
ChimeraX-Modeller: 1.0
ChimeraX-ModelPanel: 1.0
ChimeraX-ModelSeries: 1.0
ChimeraX-Mol2: 2.0
ChimeraX-Morph: 1.0
ChimeraX-MouseModes: 1.0
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nucleotides: 2.0
ChimeraX-OpenCommand: 1.2.1
ChimeraX-PDB: 2.1
ChimeraX-PDBBio: 1.0
ChimeraX-Phenix: 0.3
ChimeraX-PickBlobs: 1.0
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.0
ChimeraX-PubChem: 2.0
ChimeraX-Read-Pbonds: 1.0
ChimeraX-Registration: 1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-ResidueFit: 1.0
ChimeraX-RestServer: 1.0
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 2.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.2
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0
ChimeraX-SeqView: 2.2
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0
ChimeraX-Shortcuts: 1.0
ChimeraX-ShowAttr: 1.0
ChimeraX-ShowSequences: 1.0
ChimeraX-SideView: 1.0
ChimeraX-Smiles: 2.0
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.0.4
ChimeraX-STL: 1.0
ChimeraX-Storm: 1.0
ChimeraX-Struts: 1.0
ChimeraX-Surface: 1.0
ChimeraX-SwapAA: 2.0
ChimeraX-SwapRes: 2.0
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.0
ChimeraX-ToolshedUtils: 1.0
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.2.3
ChimeraX-uniprot: 2.0
ChimeraX-ViewDockX: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0
ChimeraX-WebServices: 1.0
ChimeraX-Zone: 1.0
colorama: 0.4.3
comtypes: 1.1.7
cxservices: 1.0
cycler: 0.10.0
Cython: 0.29.20
decorator: 4.4.2
distlib: 0.3.1
distro: 1.5.0
docutils: 0.16
filelock: 3.0.12
funcparserlib: 0.3.6
grako: 3.16.5
h5py: 2.10.0
html2text: 2020.1.16
idna: 2.10
ihm: 0.16
imagecodecs: 2020.5.30
imagecodecs-lite: 2020.1.31
imagesize: 1.2.0
ipykernel: 5.3.0
ipython: 7.15.0
ipython-genutils: 0.2.0
jedi: 0.17.2
Jinja2: 2.11.2
jupyter-client: 6.1.3
jupyter-core: 4.6.3
kiwisolver: 1.2.0
line-profiler: 2.1.2
lxml: 4.5.1
MarkupSafe: 1.1.1
matplotlib: 3.2.1
MolecularDynamicsViewer: 1.1
msgpack: 1.0.0
netifaces: 0.10.9
networkx: 2.4
numexpr: 2.7.1
numpy: 1.18.5
numpydoc: 1.0.0
openvr: 1.12.501
packaging: 20.4
parso: 0.7.1
pexpect: 4.8.0
pickleshare: 0.7.5
Pillow: 7.1.2
pip: 20.2.2
pkginfo: 1.5.0.1
prompt-toolkit: 3.0.7
psutil: 5.7.0
ptyprocess: 0.6.0
pycollada: 0.7.1
pydicom: 2.0.0
Pygments: 2.6.1
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 2.4.7
PyQt5-commercial: 5.12.3
PyQt5-sip: 4.19.19
PyQtWebEngine-commercial: 5.12.1
python-dateutil: 2.8.1
pytz: 2020.1
pyzmq: 19.0.2
qtconsole: 4.7.4
QtPy: 1.9.0
RandomWords: 0.3.0
requests: 2.24.0
scipy: 1.4.1
Send2Trash: 1.8.0
SEQCROW: 0.25.2
setuptools: 49.4.0
sfftk-rw: 0.6.6.dev0
six: 1.15.0
snowballstemmer: 2.0.0
sortedcontainers: 2.2.2
Sphinx: 3.1.1
sphinxcontrib-applehelp: 1.0.2
sphinxcontrib-blockdiag: 2.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 1.0.3
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.4
suds-jurko: 0.6
tables: 3.6.1
tifffile: 2020.6.3
tinyarray: 1.2.2
tornado: 6.0.4
traitlets: 5.0.4
urllib3: 1.25.10
wcwidth: 0.2.5
webcolors: 1.11.1
wheel: 0.34.2
Change History (2)
comment:1 by , 3 years ago
| Cc: | added |
|---|---|
| Component: | Unassigned → Tool Shed |
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Error in ToolShed error message |
comment:2 by , 3 years ago
| Cc: | added |
|---|---|
| Resolution: | → duplicate |
| Status: | assigned → closed |
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Hi Kartik,
--Eric