Opened 2 years ago

Last modified 2 years ago

#9615 assigned defect

ISOLDE: sim_manager is None

Reported by: cnp@… Owned by: Tristan Croll
Priority: normal Milestone:
Component: Third Party Version:
Keywords: Cc:
Blocked By: Blocking:
Notify when closed: Platform: all
Project: ChimeraX

Description 

The following bug report has been submitted:
Platform:        Linux-5.15.0-78-generic-x86_64-with-glibc2.35
ChimeraX Version: 1.6.1 (2023-05-09 17:57:07 UTC)
Description
(Describe the actions that caused this problem to occur here)

Log:
UCSF ChimeraX version: 1.6.1 (2023-05-09)  
© 2016-2023 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open "/u/au591166/Desktop/dDAT + 248/6 phenix refinement/sharpened_map.ccp4"

Opened sharpened_map.ccp4 as #1, grid size 256,256,256, pixel 0.89, shown at
level 2.44, step 1, values float32  

> open "/u/au591166/Desktop/dDAT + 248/6 phenix
> refinement/RealSpaceRefine_43/RSR36_Isolde_real_space_refined_043.pdb"

Chain information for RSR36_Isolde_real_space_refined_043.pdb #2  
---  
Chain | Description  
A | No description available  
H | No description available  
L | No description available  
  

> close #2

> open "/u/au591166/Desktop/dDAT + 248/6 phenix
> refinement/RealSpaceRefine_40/RSR36_Isolde_real_space_refined_040.pdb"

Chain information for RSR36_Isolde_real_space_refined_040.pdb #2  
---  
Chain | Description  
A | No description available  
H | No description available  
L | No description available  
  

> volume #1 level 5.073

> isolde start

> set selectionWidth 4

> isolde set simFidelityMode Highest/Slowest

ISOLDE: setting sim fidelity mode to Highest/Slowest  
nonbonded_cutoff_distance = 1.700000  
use_gbsa = True  
gbsa_cutoff = 2.000000  
ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
chains...  
ISOLDE: Corrected atom nomenclature of 35 residues in model #2 to IUPAC-IUB
standards.  
Chain information for RSR36_Isolde_real_space_refined_040.pdb  
---  
Chain | Description  
2.2/A | No description available  
2.2/H | No description available  
2.2/L | No description available  
  

> clipper associate #1 toModel #2

Opened sharpened_map.ccp4 as #2.1.1.1, grid size 256,256,256, pixel 0.89,
shown at step 1, values float32  
Loading residue template for TFA from internal database  

> isolde parameterise sel override false

Running ANTECHAMBER command: /usr/lib/ucsf-
chimerax/bin/amber20/bin/antechamber -ek qm_theory='AM1', -i
/tmp/tmpc7v8k8x8/ante.in.mol2 -fi mol2 -o /tmp/tmpc7v8k8x8/ante.out.mol2 -fo
mol2 -c bcc -nc 1 -j 5 -s 2 -dr n  
(248) ``  
(248) `Welcome to antechamber 20.0: molecular input file processor.`  
(248) ``  
(248) `Info: Finished reading file (/tmp/tmpc7v8k8x8/ante.in.mol2); atoms read
(48), bonds read (50).`  
(248) `Info: Determining atomic numbers from atomic symbols which are case
sensitive.`  
(248) `Running: /usr/lib/ucsf-chimerax/bin/amber20/bin/bondtype -j part -i
ANTECHAMBER_BOND_TYPE.AC0 -o ANTECHAMBER_BOND_TYPE.AC -f ac`  
(248) ``  
(248) ``  
(248) `Running: /usr/lib/ucsf-chimerax/bin/amber20/bin/atomtype -i
ANTECHAMBER_AC.AC0 -o ANTECHAMBER_AC.AC -p gaff`  
(248) `Info: Total number of electrons: 178; net charge: 1`  
(248) ``  
(248) `Running: /usr/lib/ucsf-chimerax/bin/amber20/bin/sqm -O -i sqm.in -o
sqm.out`  
(248) ``  
(248) `Running: /usr/lib/ucsf-chimerax/bin/amber20/bin/am1bcc -i
ANTECHAMBER_AM1BCC_PRE.AC -o ANTECHAMBER_AM1BCC.AC -f ac -p /usr/lib/ucsf-
chimerax/bin/amber20/dat/antechamber/BCCPARM.DAT -s 2 -j 1`  
(248) ``  
(248) `Running: /usr/lib/ucsf-chimerax/bin/amber20/bin/atomtype -f ac -p bcc
-o ANTECHAMBER_AM1BCC.AC -i ANTECHAMBER_AM1BCC_PRE.AC`  
(248) ``  
Charges for residue 248 determined  
OpenMM ffXML file 248 written to the current working directory.  
New template added to forcefield as USER_248. This ligand should now work in
all remaining simulations for this session. To use in future sessions, load
the ffXML file with ISOLDE's Load Residue MD Definition(s) button.  

> ui mousemode right select

Drag select of 728 atoms, 763 residues, 727 bonds  

> clipper isolate /A,L,H maskRadius 4.0 focus false

> isolde sim start /A,L,H

ISOLDE: started sim  

> ui tool show "Ramachandran Plot"

> isolde pepflip /A:76

> view #2.2/A:549

> isolde pepflip /A:76

> isolde pepflip /A:75

[Repeated 1 time(s)]

> isolde sim pause

> set selectionWidth 4

No simulation is currently running!  

> isolde set simFidelityMode Highest/Slowest

ISOLDE: setting sim fidelity mode to Highest/Slowest  
nonbonded_cutoff_distance = 1.700000  
use_gbsa = True  
gbsa_cutoff = 2.000000  
Traceback (most recent call last):  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 638, in <lambda>  
gw.mousePressEvent = lambda e, s=self: s._dispatch_mouse_event(e,
"mouse_down")  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 538, in
_dispatch_mouse_event  
f(MouseEvent(event, modifiers=modifiers))  
File "/u/au591166/.local/share/ChimeraX/1.6/site-
packages/chimerax/isolde/tugging.py", line 124, in mouse_down  
pa = self._pick_atoms(pick)  
File "/u/au591166/.local/share/ChimeraX/1.6/site-
packages/chimerax/isolde/tugging.py", line 154, in _pick_atoms  
if self.atoms.index(a) != -1:  
File "/u/au591166/.local/share/ChimeraX/1.6/site-
packages/chimerax/isolde/tugging.py", line 55, in atoms  
return self.session.isolde.sim_manager.sim_construct.mobile_atoms  
AttributeError: 'NoneType' object has no attribute 'sim_construct'  
  
AttributeError: 'NoneType' object has no attribute 'sim_construct'  
  
File "/u/au591166/.local/share/ChimeraX/1.6/site-
packages/chimerax/isolde/tugging.py", line 55, in atoms  
return self.session.isolde.sim_manager.sim_construct.mobile_atoms  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 638, in <lambda>  
gw.mousePressEvent = lambda e, s=self: s._dispatch_mouse_event(e,
"mouse_down")  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 538, in
_dispatch_mouse_event  
f(MouseEvent(event, modifiers=modifiers))  
File "/u/au591166/.local/share/ChimeraX/1.6/site-
packages/chimerax/isolde/tugging.py", line 124, in mouse_down  
pa = self._pick_atoms(pick)  
File "/u/au591166/.local/share/ChimeraX/1.6/site-
packages/chimerax/isolde/tugging.py", line 154, in _pick_atoms  
if self.atoms.index(a) != -1:  
File "/u/au591166/.local/share/ChimeraX/1.6/site-
packages/chimerax/isolde/tugging.py", line 55, in atoms  
return self.session.isolde.sim_manager.sim_construct.mobile_atoms  
AttributeError: 'NoneType' object has no attribute 'sim_construct'  
  
AttributeError: 'NoneType' object has no attribute 'sim_construct'  
  
File "/u/au591166/.local/share/ChimeraX/1.6/site-
packages/chimerax/isolde/tugging.py", line 55, in atoms  
return self.session.isolde.sim_manager.sim_construct.mobile_atoms  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 638, in <lambda>  
gw.mousePressEvent = lambda e, s=self: s._dispatch_mouse_event(e,
"mouse_down")  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 538, in
_dispatch_mouse_event  
f(MouseEvent(event, modifiers=modifiers))  
File "/u/au591166/.local/share/ChimeraX/1.6/site-
packages/chimerax/isolde/tugging.py", line 124, in mouse_down  
pa = self._pick_atoms(pick)  
File "/u/au591166/.local/share/ChimeraX/1.6/site-
packages/chimerax/isolde/tugging.py", line 154, in _pick_atoms  
if self.atoms.index(a) != -1:  
File "/u/au591166/.local/share/ChimeraX/1.6/site-
packages/chimerax/isolde/tugging.py", line 55, in atoms  
return self.session.isolde.sim_manager.sim_construct.mobile_atoms  
AttributeError: 'NoneType' object has no attribute 'sim_construct'  
  
AttributeError: 'NoneType' object has no attribute 'sim_construct'  
  
File "/u/au591166/.local/share/ChimeraX/1.6/site-
packages/chimerax/isolde/tugging.py", line 55, in atoms  
return self.session.isolde.sim_manager.sim_construct.mobile_atoms  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 638, in <lambda>  
gw.mousePressEvent = lambda e, s=self: s._dispatch_mouse_event(e,
"mouse_down")  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/mouse_modes/mousemodes.py", line 538, in
_dispatch_mouse_event  
f(MouseEvent(event, modifiers=modifiers))  
File "/u/au591166/.local/share/ChimeraX/1.6/site-
packages/chimerax/isolde/tugging.py", line 124, in mouse_down  
pa = self._pick_atoms(pick)  
File "/u/au591166/.local/share/ChimeraX/1.6/site-
packages/chimerax/isolde/tugging.py", line 154, in _pick_atoms  
if self.atoms.index(a) != -1:  
File "/u/au591166/.local/share/ChimeraX/1.6/site-
packages/chimerax/isolde/tugging.py", line 55, in atoms  
return self.session.isolde.sim_manager.sim_construct.mobile_atoms  
AttributeError: 'NoneType' object has no attribute 'sim_construct'  
  
AttributeError: 'NoneType' object has no attribute 'sim_construct'  
  
File "/u/au591166/.local/share/ChimeraX/1.6/site-
packages/chimerax/isolde/tugging.py", line 55, in atoms  
return self.session.isolde.sim_manager.sim_construct.mobile_atoms  
  
See log for complete Python traceback.  
  




OpenGL version: 3.3.0 NVIDIA 530.30.02
OpenGL renderer: NVIDIA GeForce RTX 3080 Ti/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation

Python: 3.9.11
Locale: en_US.UTF-8
Qt version: PyQt6 6.4.2, Qt 6.4.2
Qt runtime version: 6.4.3
Qt platform: xcb

XDG_SESSION_TYPE=x11
DESKTOP_SESSION=xubuntu
XDG_SESSION_DESKTOP=xubuntu
XDG_CURRENT_DESKTOP=XFCE
DISPLAY=:1.0
Manufacturer: LENOVO
Model: 30E000GMMT
OS: Ubuntu 22.04 Jammy Jellyfish
Architecture: 64bit ELF
Virtual Machine: none
CPU: 24 AMD Ryzen Threadripper PRO 5945WX 12-Cores
Cache Size: 512 KB
Memory:
	               total        used        free      shared  buff/cache   available
	Mem:            62Gi       5.2Gi        47Gi        44Mi        10Gi        56Gi
	Swap:          975Mi       1.0Mi       974Mi

Graphics:
	61:00.0 VGA compatible controller [0300]: NVIDIA Corporation GA102 [GeForce RTX 3080 Ti] [10de:2208] (rev a1)	
	Subsystem: ASUSTeK Computer Inc. GA102 [GeForce RTX 3080 Ti] [1043:884c]	
	Kernel driver in use: nvidia

Installed Packages:
    alabaster: 0.7.13
    appdirs: 1.4.4
    asttokens: 2.2.1
    Babel: 2.12.1
    backcall: 0.2.0
    beautifulsoup4: 4.11.2
    blockdiag: 3.0.0
    build: 0.10.0
    certifi: 2023.5.7
    cftime: 1.6.2
    charset-normalizer: 3.1.0
    ChimeraX-AddCharge: 1.5.9.1
    ChimeraX-AddH: 2.2.5
    ChimeraX-AlignmentAlgorithms: 2.0.1
    ChimeraX-AlignmentHdrs: 3.3.1
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.9.3
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.0.3
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.43.10
    ChimeraX-AtomicLibrary: 10.0.6
    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: 2.0.1
    ChimeraX-BugReporter: 1.0.1
    ChimeraX-BuildStructure: 2.8
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.2.2
    ChimeraX-ButtonPanel: 1.0.1
    ChimeraX-CageBuilder: 1.0.1
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.3.2
    ChimeraX-ChangeChains: 1.0.2
    ChimeraX-CheckWaters: 1.3.1
    ChimeraX-ChemGroup: 2.0.1
    ChimeraX-Clashes: 2.2.4
    ChimeraX-Clipper: 0.21.0
    ChimeraX-ColorActions: 1.0.3
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.3
    ChimeraX-CommandLine: 1.2.5
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.6.1
    ChimeraX-CoreFormats: 1.1
    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: 1.1.1
    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: 1.2.1
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.1
    ChimeraX-ISOLDE: 1.6.0
    ChimeraX-ItemsInspection: 1.0.1
    ChimeraX-Label: 1.1.7
    ChimeraX-LinuxSupport: 1.0.1
    ChimeraX-ListInfo: 1.1.1
    ChimeraX-Log: 1.1.5
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.8.2
    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: 2.0.12
    ChimeraX-MDcrds: 2.6
    ChimeraX-MedicalToolbar: 1.0.2
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.12
    ChimeraX-MMTF: 2.2
    ChimeraX-Modeller: 1.5.9
    ChimeraX-ModelPanel: 1.3.7
    ChimeraX-ModelSeries: 1.0.1
    ChimeraX-Mol2: 2.0
    ChimeraX-Mole: 1.0
    ChimeraX-Morph: 1.0.2
    ChimeraX-MouseModes: 1.2
    ChimeraX-Movie: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nifti: 1.0
    ChimeraX-NRRD: 1.0
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.10.1
    ChimeraX-PDB: 2.7.2
    ChimeraX-PDBBio: 1.0
    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: 1.1.1
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.1
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.1
    ChimeraX-RNALayout: 1.0
    ChimeraX-RotamerLibMgr: 3.0
    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: 2.8.3
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0.1
    ChimeraX-Shortcuts: 1.1.1
    ChimeraX-ShowSequences: 1.0.1
    ChimeraX-SideView: 1.0.1
    ChimeraX-Smiles: 2.1
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.10.3
    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: 2.2.1
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.1.2
    ChimeraX-ToolshedUtils: 1.2.1
    ChimeraX-Topography: 1.0
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.28.4
    ChimeraX-uniprot: 2.2.2
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.2
    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: 1.1.1
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.6
    comm: 0.1.3
    contourpy: 1.0.7
    cxservices: 1.2.2
    cycler: 0.11.0
    Cython: 0.29.33
    debugpy: 1.6.7
    decorator: 5.1.1
    distro: 1.7.0
    docutils: 0.19
    executing: 1.2.0
    filelock: 3.9.0
    fonttools: 4.39.3
    funcparserlib: 1.0.1
    grako: 3.16.5
    h5py: 3.8.0
    html2text: 2020.1.16
    idna: 3.4
    ihm: 0.35
    imagecodecs: 2022.9.26
    imagesize: 1.4.1
    importlib-metadata: 6.6.0
    ipykernel: 6.21.1
    ipython: 8.10.0
    ipython-genutils: 0.2.0
    ipywidgets: 8.0.6
    jedi: 0.18.2
    Jinja2: 3.1.2
    jupyter-client: 8.0.2
    jupyter-core: 5.3.0
    jupyterlab-widgets: 3.0.7
    kiwisolver: 1.4.4
    line-profiler: 4.0.2
    lxml: 4.9.2
    lz4: 4.3.2
    MarkupSafe: 2.1.2
    matplotlib: 3.6.3
    matplotlib-inline: 0.1.6
    msgpack: 1.0.4
    nest-asyncio: 1.5.6
    netCDF4: 1.6.2
    networkx: 2.8.8
    nibabel: 5.0.1
    nptyping: 2.5.0
    numexpr: 2.8.4
    numpy: 1.23.5
    openvr: 1.23.701
    packaging: 23.1
    ParmEd: 3.4.3
    parso: 0.8.3
    pep517: 0.13.0
    pexpect: 4.8.0
    pickleshare: 0.7.5
    Pillow: 9.3.0
    pip: 23.0
    pkginfo: 1.9.6
    platformdirs: 3.5.0
    prompt-toolkit: 3.0.38
    psutil: 5.9.4
    ptyprocess: 0.7.0
    pure-eval: 0.2.2
    pycollada: 0.7.2
    pydicom: 2.3.0
    Pygments: 2.14.0
    pynrrd: 1.0.0
    PyOpenGL: 3.1.5
    PyOpenGL-accelerate: 3.1.5
    pyparsing: 3.0.9
    pyproject-hooks: 1.0.0
    PyQt6-commercial: 6.4.2
    PyQt6-Qt6: 6.4.3
    PyQt6-sip: 13.4.1
    PyQt6-WebEngine-commercial: 6.4.0
    PyQt6-WebEngine-Qt6: 6.4.3
    python-dateutil: 2.8.2
    pytz: 2023.3
    pyzmq: 25.0.2
    qtconsole: 5.4.0
    QtPy: 2.3.1
    RandomWords: 0.4.0
    requests: 2.28.2
    scipy: 1.9.3
    setuptools: 67.4.0
    sfftk-rw: 0.7.3
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    soupsieve: 2.4.1
    sphinx: 6.1.3
    sphinx-autodoc-typehints: 1.22
    sphinxcontrib-applehelp: 1.0.4
    sphinxcontrib-blockdiag: 3.0.0
    sphinxcontrib-devhelp: 1.0.2
    sphinxcontrib-htmlhelp: 2.0.1
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 1.0.3
    sphinxcontrib-serializinghtml: 1.1.5
    stack-data: 0.6.2
    tables: 3.7.0
    tcia-utils: 1.2.0
    tifffile: 2022.10.10
    tinyarray: 1.2.4
    tomli: 2.0.1
    tornado: 6.3.1
    traitlets: 5.9.0
    typing-extensions: 4.5.0
    tzdata: 2023.3
    urllib3: 1.26.15
    wcwidth: 0.2.6
    webcolors: 1.12
    wheel: 0.38.4
    wheel-filename: 1.4.1
    widgetsnbextension: 4.0.7
    zipp: 3.15.0

Change History (1)

comment:1 by Eric Pettersen, 2 years ago

Component: Unassigned → Third Party
Owner: set to Tristan Croll
Platform: → all
Project: → ChimeraX
Status: new → assigned
Summary: ChimeraX bug report submission → ISOLDE: sim_manager is None

Reported by Clara

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