Opened 2 years ago
Closed 2 years ago
#9272 closed defect (fixed)
Bundles not installing
Reported by: | Owned by: | Zach Pearson | |
---|---|---|---|
Priority: | normal | Milestone: | |
Component: | Tool Shed | Version: | |
Keywords: | Cc: | pett | |
Blocked By: | Blocking: | ||
Notify when closed: | Platform: | all | |
Project: | ChimeraX |
Description
The following bug report has been submitted: Platform: Windows-10-10.0.19045 ChimeraX Version: 1.7.dev202306280018 (2023-06-28 00:18:36 UTC) Description Can't install NIH 3D presets. Went to the Toolshed and downloaded, then installed. It says "Successfully Installed..." But when I look in the site-packages folder, it isn't there. It isn't listed when I type "toolshed list", and it isn't in my list of Presets. Am I doing something wrong? This worked in the past. Log: Startup Messages --- note | available bundle cache has not been initialized yet UCSF ChimeraX version: 1.7.dev202306280018 (2023-06-28) © 2016-2023 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > help help:user/preferences.html#startup [Repeated 1 time(s)] > toolshed show Downloading bundle ChimeraX_NIHPresets-1.1.11-py3-none-any.whl Errors may have occurred when running pip: pip standard error: \--- [notice] A new release of pip is available: 23.0 -> 23.1.2 [notice] To update, run: C:\Program Files\ChimeraX-Daily\bin\ChimeraX.exe -m pip install --upgrade pip \--- pip standard output: \--- Looking in indexes: https://pypi.org/simple, https://cxtoolshed.rbvi.ucsf.edu/pypi/ Processing c:\users\brownekm\downloads\chimerax_nihpresets-1.1.11-py3-none- any.whl Requirement already satisfied: ChimeraX-Core~=1.3 in c:\program files\chimerax-daily\bin\lib\site-packages (from ChimeraX-NIHPresets==1.1.11) (1.7.dev202306280018) Requirement already satisfied: ChimeraX-PresetMgr~=1.0 in c:\program files\chimerax-daily\bin\lib\site-packages (from ChimeraX-NIHPresets==1.1.11) (1.1) Requirement already satisfied: ChimeraX-Struts>=1.0.1,~=1.0 in c:\program files\chimerax-daily\bin\lib\site-packages (from ChimeraX-NIHPresets==1.1.11) (1.0.1) Requirement already satisfied: ChimeraX-Geometry~=1.0 in c:\program files\chimerax-daily\bin\lib\site-packages (from ChimeraX- Struts>=1.0.1,~=1.0->ChimeraX-NIHPresets==1.1.11) (1.3) Requirement already satisfied: ChimeraX-Arrays~=1.0 in c:\program files\chimerax-daily\bin\lib\site-packages (from ChimeraX- Geometry~=1.0->ChimeraX-Struts>=1.0.1,~=1.0->ChimeraX-NIHPresets==1.1.11) (1.1) Installing collected packages: ChimeraX-NIHPresets Successfully installed ChimeraX-NIHPresets-1.1.11 \--- Successfully installed ChimeraX-NIHPresets-1.1.11 No change in list of installed bundles > Incomplete command: toolshed > toolshed cache Toolshed cache: C:\Users\brownekm\AppData\Local\UCSF\ChimeraX\Cache\1.7\toolshed > toolshed list List of installed bundles: * AddCharge (1.5.11): Add partial charges to atoms * AddH (2.2.5): Add hydrogens * AlignmentAlgorithms (2.0.1): Sequence alignment algorithms * AlignmentHdrs (3.3.1): Alignment header support * AlignmentMatrices (2.1): Sequence alignment similarity matrices * Alignments (2.9.3): Sequence alignment support * AlphaFold (1.0): Predict or fetch AlphaFold structures * AltlocExplorer (1.0.3): Examine/change alternate atomic locations * AmberInfo (1.0): Provide information about AmberTools installation * Arrays (1.1): C++ library for parsing numpy arrays * Atomic (1.46): Atomic-structure functionality * AtomicLibrary (10.0.7): Atomic-structure C++ library * AtomSearch (2.0.1): 3D atom search * AxesPlanes (2.3.2): Depict axes or planes * BasicActions (1.1.2): Basic actions for user-defined specifier names * BILD (1.0): BILD file reader * BlastProtein (2.1.2): Search PDB/NR/AlphaFold using BLAST * BondRot (2.0.4): Bond rotation support * BugReporter (1.0.1): Report bugs when an error occurs * BuildStructure (2.10.3): Create/modify structures * Bumps (1.0): Find protrusions in density maps * ButtonPanel (1.0.1): Create custom user interface panels * CageBuilder (1.0.1): Build polygonal meshes for oligomeric molecular assemblies * CellPack (1.0): Fetch cellPACK models from web * Centroids (1.3.2): Depict centroid of atoms * ChangeChains (1.0.2): Change chain IDs * CheckWaters (1.3.1): Check water placement in maps * ChemGroup (2.0.1): Detect chemically functional groups * Clashes (2.2.4): Find clashes/contacts in structures * ColorActions (1.0.3): Simple interface for coloring objects * ColorGlobe (1.0): Show directional resolution colored sphere * ColorKey (1.5.3): Add color key to graphics * CommandLine (1.2.5): Command line support * ConnectStructure (2.0.1): Add bonds to structures that lack them * Contacts (1.0.1): Display chain contact maps * Core (1.7.dev202306280018): ChimeraX Core Package * CoreFormats (1.1): ChimeraX session support * coulombic (1.4.2): Compute/show electrostatic potential * Crosslinks (1.0): Analyze crosslinks * Crystal (1.0): Crystal symmetries * CrystalContacts (1.0.1): Show contacting asymmetric units in a crystal * DataFormats (1.2.3): Data format management * Dicom (1.2): Read medical imaging and segmentations in DICOM format * DistMonitor (1.4): Interactive distance display * DockPrep (1.1.2): Prepare structures for docking * Dssp (2.0): Compute/assign secondary structure * EMDB-SFF (1.0): EMDB SFF file reader * ESMFold (1.0): Predict or fetch ESMFold structures * FileHistory (1.0.1): File History Panel * FunctionKey (1.0.1): Assign function keys to run commands * Geometry (1.3): Vector and coordinate system routines * gltf (1.0): Read/write glTF 3d scene files * Graphics (1.1.1): OpenGL graphics rendering * Hbonds (2.4): Identify hydrogen bonds in and among structures * Help (1.2.1): Show ChimeraX Help * HKCage (1.3): Create icosahedral mesh of hexagons and pentagons * IHM (1.1): Integrative Hybrid Models file reader * ImageFormats (1.2): Support for saving images * IMOD (1.0): IMOD model file reader * IO (1.0.1): Python convenience input/output functions * ItemsInspection (1.0.1): Inspection of attributes of a set of items * IUPAC (1.0): IUPAC fetch * Label (1.1.7): Add text labels to graphics * ListInfo (1.2): Report attributes for selected atomic data * Log (1.1.5): Log support * LookingGlass (1.1): LookingGlass holographic display * Maestro (1.8.2): Maestro reader * Map (1.1.4): Density maps * MapData (2.0): Volume data file formats * MapEraser (1.0.1): Map eraser * MapFilter (2.0.1): Operations on maps * MapFit (2.0): Fit molecules into maps * MapSeries (2.1.1): Volume series * Markers (1.0.1): Place markers on density maps * Mask (1.0.2): Mask a volume to a surface * MatchMaker (2.1): Superimpose structures * MCopy (1.0): Copy atomic structure attributes to another structure * MDcrds (2.6): Molecular dynamics support * MedicalToolbar (1.0.2): Toolbar for medical image analysis * Meeting (1.0.1): Shared interactive VR sessions. * MLP (1.1.1): Molecular lipophilicity calculation * mmCIF (2.12): mmCIF format read/write * MMTF (2.2): MMTF format read/write * Modeller (1.5.9): Interface to Modeller * ModelPanel (1.4): ChimeraX Model Panel * ModelSeries (1.0.1): Display sequences of models one by one * Mol2 (2.0): Mol2 reader/writer * Mole (1.0): Open JSON tunnel files from Mole * Morph (1.0.2): Morph atomic structures * MouseModes (1.2): Provide right button mouse mode tool * Movie (1.0): Commands to record movies * Neuron (1.0): Read SWC neuron trace files * Nifti (1.0): Read medical images in NIfTI format * NRRD (1.0): Read medical images in NRRD format * Nucleotides (2.0.3): Create nucleotide-specific displays * OpenCommand (1.10.2): Manages 'open' command extensibility * PDB (2.7.2): PDB format read/write * PDBBio (1.0.1): PDB biological assembly fetch * PDBLibrary (1.0.2): C++ PDB support * PDBMatrices (1.0): Crystal and biological unit matrices * PickBlobs (1.0.1): Measure and color blobs * Positions (1.0): Read and write model position matrices * PresetMgr (1.1): Preset management * PubChem (2.1): PubChem fetch * ReadPbonds (1.0.1): Read in pseudobonds from a file * Registration (1.1.1): Register ChimeraX * RemoteControl (1.0): Control ChimeraX from other apps * RenderByAttr (1.1): Depict attribute values on structures * RenumberResidues (1.1): Renumber residues * ResidueFit (1.0.1): Display fit of residues to density map * RestServer (1.2): Starts REST server to execute commands from network requests * RNALayout (1.0): Make RNA models * RotamerLibMgr (3.0): Manage rotamer libraries * RotamerLibsDunbrack (2.0): Dunbrack rotamer library * RotamerLibsDynameomics (2.0): Dynameomics rotamer library * RotamerLibsRichardson (2.0): Richardson rotamer libraries * SaveCommand (1.5.1): Manages 'save' command extensibility * SchemeMgr (1.0): HTTP scheme management * SDF (2.0.1): SDF file reader * Segger (1.0): Segment map * Segment (1.0.1): Watershed segment calculation * SelInspector (1.0): Inspect contents of selection * SeqView (2.9): Sequence viewer * Shape (1.0.1): Make models for geometric shapes * Shell (1.0.1): Interactive Python shell * Shortcuts (1.1.1): Button and keyboard shortcuts * ShowSequences (1.0.1): Choose/show structure sequences * SideView (1.0.1): Side view of scene * Smiles (2.1.2): SMILES fetch * SmoothLines (1.0): Smooth network of lines * SpaceNavigator (1.0): Space Navigator device support * StdCommands (1.12.1): Standard commands * STL (1.0.1): STL file read/write * Storm (1.0): STORM file reader * StructMeasure (1.1.2): Structure measurement user interface * Struts (1.0.1): struts for 3D printing * Surface (1.0.1): Surface calculations * SwapAA (2.0.1): Swap amino acid * SwapRes (2.2.1): Swap residue side chains * TapeMeasure (1.0): Tape measure mouse mode * Test (1.0): simple regression test * Toolbar (1.1.2): Toolbar * ToolshedUtils (1.2.4): Toolshed bundle utilities * Topography (1.0): Show a topographic surface for a 2D image * ToQuest (1.0): Copy scenes to VR Quest headset * Tug (1.0.1): Tug on atoms with molecular dynamics * UI (1.30): ChimeraX user interface * uniprot (2.3): UniProt database support * UnitCell (1.0.1): Show crystal unit cell * ViewDockX (1.2.1): Analyze ligand-receptor docking results * VIPERdb (1.0): Read Virus Particle Explorer .vdb files * Vive (1.1): Virtual reality headset support * VolumeMenu (1.0.1): Volume menu * VTK (1.0): Legacy VTK file reader and writer * WavefrontOBJ (1.0): Wavefront OBJ file read/write * WebCam (1.0.2): Combine camera video with graphics * WebServices (1.1.1): Web service and HTTP request support * Zone (1.0.1): Mouse mode to show atom and map zones > toolshed reload > toolshed install NIH 3D NIH (3D) does not match any bundles > toolshed install NIHPresents NIHPresents does not match any bundles > toolshed install NIHPresets NIHPresets does not match any bundles > help help:user/preferences.html#startup Downloading bundle ChimeraX_NIHPresets-1.1.11-py3-none-any.whl Errors may have occurred when running pip: pip standard error: \--- [notice] A new release of pip is available: 23.0 -> 23.1.2 [notice] To update, run: C:\Program Files\ChimeraX-Daily\bin\ChimeraX.exe -m pip install --upgrade pip \--- pip standard output: \--- Looking in indexes: https://pypi.org/simple, https://cxtoolshed.rbvi.ucsf.edu/pypi/ Processing c:\users\brownekm\downloads\chimerax_nihpresets-1.1.11-py3-none- any.whl Requirement already satisfied: ChimeraX-Core~=1.3 in c:\program files\chimerax-daily\bin\lib\site-packages (from ChimeraX-NIHPresets==1.1.11) (1.7.dev202306280018) Requirement already satisfied: ChimeraX-PresetMgr~=1.0 in c:\program files\chimerax-daily\bin\lib\site-packages (from ChimeraX-NIHPresets==1.1.11) (1.1) Requirement already satisfied: ChimeraX-Struts>=1.0.1,~=1.0 in c:\program files\chimerax-daily\bin\lib\site-packages (from ChimeraX-NIHPresets==1.1.11) (1.0.1) Requirement already satisfied: ChimeraX-Geometry~=1.0 in c:\program files\chimerax-daily\bin\lib\site-packages (from ChimeraX- Struts>=1.0.1,~=1.0->ChimeraX-NIHPresets==1.1.11) (1.3) Requirement already satisfied: ChimeraX-Arrays~=1.0 in c:\program files\chimerax-daily\bin\lib\site-packages (from ChimeraX- Geometry~=1.0->ChimeraX-Struts>=1.0.1,~=1.0->ChimeraX-NIHPresets==1.1.11) (1.1) Installing collected packages: ChimeraX-NIHPresets Successfully installed ChimeraX-NIHPresets-1.1.11 \--- Successfully installed ChimeraX-NIHPresets-1.1.11 No change in list of installed bundles > toolshed install ChimeraX-NIHPresets-1.1.11 ChimeraX-NIHPresets-1.1.11 does not match any bundles > toolshed list List of installed bundles: * AddCharge (1.5.11): Add partial charges to atoms * AddH (2.2.5): Add hydrogens * AlignmentAlgorithms (2.0.1): Sequence alignment algorithms * AlignmentHdrs (3.3.1): Alignment header support * AlignmentMatrices (2.1): Sequence alignment similarity matrices * Alignments (2.9.3): Sequence alignment support * AlphaFold (1.0): Predict or fetch AlphaFold structures * AltlocExplorer (1.0.3): Examine/change alternate atomic locations * AmberInfo (1.0): Provide information about AmberTools installation * Arrays (1.1): C++ library for parsing numpy arrays * Atomic (1.46): Atomic-structure functionality * AtomicLibrary (10.0.7): Atomic-structure C++ library * AtomSearch (2.0.1): 3D atom search * AxesPlanes (2.3.2): Depict axes or planes * BasicActions (1.1.2): Basic actions for user-defined specifier names * BILD (1.0): BILD file reader * BlastProtein (2.1.2): Search PDB/NR/AlphaFold using BLAST * BondRot (2.0.4): Bond rotation support * BugReporter (1.0.1): Report bugs when an error occurs * BuildStructure (2.10.3): Create/modify structures * Bumps (1.0): Find protrusions in density maps * ButtonPanel (1.0.1): Create custom user interface panels * CageBuilder (1.0.1): Build polygonal meshes for oligomeric molecular assemblies * CellPack (1.0): Fetch cellPACK models from web * Centroids (1.3.2): Depict centroid of atoms * ChangeChains (1.0.2): Change chain IDs * CheckWaters (1.3.1): Check water placement in maps * ChemGroup (2.0.1): Detect chemically functional groups * Clashes (2.2.4): Find clashes/contacts in structures * ColorActions (1.0.3): Simple interface for coloring objects * ColorGlobe (1.0): Show directional resolution colored sphere * ColorKey (1.5.3): Add color key to graphics * CommandLine (1.2.5): Command line support * ConnectStructure (2.0.1): Add bonds to structures that lack them * Contacts (1.0.1): Display chain contact maps * Core (1.7.dev202306280018): ChimeraX Core Package * CoreFormats (1.1): ChimeraX session support * coulombic (1.4.2): Compute/show electrostatic potential * Crosslinks (1.0): Analyze crosslinks * Crystal (1.0): Crystal symmetries * CrystalContacts (1.0.1): Show contacting asymmetric units in a crystal * DataFormats (1.2.3): Data format management * Dicom (1.2): Read medical imaging and segmentations in DICOM format * DistMonitor (1.4): Interactive distance display * DockPrep (1.1.2): Prepare structures for docking * Dssp (2.0): Compute/assign secondary structure * EMDB-SFF (1.0): EMDB SFF file reader * ESMFold (1.0): Predict or fetch ESMFold structures * FileHistory (1.0.1): File History Panel * FunctionKey (1.0.1): Assign function keys to run commands * Geometry (1.3): Vector and coordinate system routines * gltf (1.0): Read/write glTF 3d scene files * Graphics (1.1.1): OpenGL graphics rendering * Hbonds (2.4): Identify hydrogen bonds in and among structures * Help (1.2.1): Show ChimeraX Help * HKCage (1.3): Create icosahedral mesh of hexagons and pentagons * IHM (1.1): Integrative Hybrid Models file reader * ImageFormats (1.2): Support for saving images * IMOD (1.0): IMOD model file reader * IO (1.0.1): Python convenience input/output functions * ItemsInspection (1.0.1): Inspection of attributes of a set of items * IUPAC (1.0): IUPAC fetch * Label (1.1.7): Add text labels to graphics * ListInfo (1.2): Report attributes for selected atomic data * Log (1.1.5): Log support * LookingGlass (1.1): LookingGlass holographic display * Maestro (1.8.2): Maestro reader * Map (1.1.4): Density maps * MapData (2.0): Volume data file formats * MapEraser (1.0.1): Map eraser * MapFilter (2.0.1): Operations on maps * MapFit (2.0): Fit molecules into maps * MapSeries (2.1.1): Volume series * Markers (1.0.1): Place markers on density maps * Mask (1.0.2): Mask a volume to a surface * MatchMaker (2.1): Superimpose structures * MCopy (1.0): Copy atomic structure attributes to another structure * MDcrds (2.6): Molecular dynamics support * MedicalToolbar (1.0.2): Toolbar for medical image analysis * Meeting (1.0.1): Shared interactive VR sessions. * MLP (1.1.1): Molecular lipophilicity calculation * mmCIF (2.12): mmCIF format read/write * MMTF (2.2): MMTF format read/write * Modeller (1.5.9): Interface to Modeller * ModelPanel (1.4): ChimeraX Model Panel * ModelSeries (1.0.1): Display sequences of models one by one * Mol2 (2.0): Mol2 reader/writer * Mole (1.0): Open JSON tunnel files from Mole * Morph (1.0.2): Morph atomic structures * MouseModes (1.2): Provide right button mouse mode tool * Movie (1.0): Commands to record movies * Neuron (1.0): Read SWC neuron trace files * Nifti (1.0): Read medical images in NIfTI format * NRRD (1.0): Read medical images in NRRD format * Nucleotides (2.0.3): Create nucleotide-specific displays * OpenCommand (1.10.2): Manages 'open' command extensibility * PDB (2.7.2): PDB format read/write * PDBBio (1.0.1): PDB biological assembly fetch * PDBLibrary (1.0.2): C++ PDB support * PDBMatrices (1.0): Crystal and biological unit matrices * PickBlobs (1.0.1): Measure and color blobs * Positions (1.0): Read and write model position matrices * PresetMgr (1.1): Preset management * PubChem (2.1): PubChem fetch * ReadPbonds (1.0.1): Read in pseudobonds from a file * Registration (1.1.1): Register ChimeraX * RemoteControl (1.0): Control ChimeraX from other apps * RenderByAttr (1.1): Depict attribute values on structures * RenumberResidues (1.1): Renumber residues * ResidueFit (1.0.1): Display fit of residues to density map * RestServer (1.2): Starts REST server to execute commands from network requests * RNALayout (1.0): Make RNA models * RotamerLibMgr (3.0): Manage rotamer libraries * RotamerLibsDunbrack (2.0): Dunbrack rotamer library * RotamerLibsDynameomics (2.0): Dynameomics rotamer library * RotamerLibsRichardson (2.0): Richardson rotamer libraries * SaveCommand (1.5.1): Manages 'save' command extensibility * SchemeMgr (1.0): HTTP scheme management * SDF (2.0.1): SDF file reader * Segger (1.0): Segment map * Segment (1.0.1): Watershed segment calculation * SelInspector (1.0): Inspect contents of selection * SeqView (2.9): Sequence viewer * Shape (1.0.1): Make models for geometric shapes * Shell (1.0.1): Interactive Python shell * Shortcuts (1.1.1): Button and keyboard shortcuts * ShowSequences (1.0.1): Choose/show structure sequences * SideView (1.0.1): Side view of scene * Smiles (2.1.2): SMILES fetch * SmoothLines (1.0): Smooth network of lines * SpaceNavigator (1.0): Space Navigator device support * StdCommands (1.12.1): Standard commands * STL (1.0.1): STL file read/write * Storm (1.0): STORM file reader * StructMeasure (1.1.2): Structure measurement user interface * Struts (1.0.1): struts for 3D printing * Surface (1.0.1): Surface calculations * SwapAA (2.0.1): Swap amino acid * SwapRes (2.2.1): Swap residue side chains * TapeMeasure (1.0): Tape measure mouse mode * Test (1.0): simple regression test * Toolbar (1.1.2): Toolbar * ToolshedUtils (1.2.4): Toolshed bundle utilities * Topography (1.0): Show a topographic surface for a 2D image * ToQuest (1.0): Copy scenes to VR Quest headset * Tug (1.0.1): Tug on atoms with molecular dynamics * UI (1.30): ChimeraX user interface * uniprot (2.3): UniProt database support * UnitCell (1.0.1): Show crystal unit cell * ViewDockX (1.2.1): Analyze ligand-receptor docking results * VIPERdb (1.0): Read Virus Particle Explorer .vdb files * Vive (1.1): Virtual reality headset support * VolumeMenu (1.0.1): Volume menu * VTK (1.0): Legacy VTK file reader and writer * WavefrontOBJ (1.0): Wavefront OBJ file read/write * WebCam (1.0.2): Combine camera video with graphics * WebServices (1.1.1): Web service and HTTP request support * Zone (1.0.1): Mouse mode to show atom and map zones OpenGL version: 3.3.0 NVIDIA 466.47 OpenGL renderer: NVIDIA GeForce RTX 2080 Ti/PCIe/SSE2 OpenGL vendor: NVIDIA Corporation Python: 3.11.2 Locale: en_US.cp1252 Qt version: PyQt6 6.4.2, Qt 6.4.2 Qt runtime version: 6.4.3 Qt platform: windows Manufacturer: HP Model: HP Z4 G4 Workstation OS: Microsoft Windows 10 Enterprise (Build 19045) Memory: 137,220,087,808 MaxProcessMemory: 137,438,953,344 CPU: 20 Intel(R) Core(TM) i9-10900X CPU @ 3.70GHz OSLanguage: en-US 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 blosc2: 2.0.0 build: 0.10.0 certifi: 2023.5.7 cftime: 1.6.2 charset-normalizer: 3.1.0 ChimeraX-AddCharge: 1.5.11 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: 1.46 ChimeraX-AtomicLibrary: 10.0.7 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: 2.10.3 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-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: 1.7.dev202306280018 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: 1.1.2 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: 1.2.1 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: 1.1.7 ChimeraX-ListInfo: 1.2 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: 2.1 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 ChimeraX-MMTF: 2.2 ChimeraX-Modeller: 1.5.9 ChimeraX-ModelPanel: 1.4 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: 1.10.2 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: 1.1.1 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: 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: 2.9 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: 2.1.2 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.12.1 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: 1.2.4 ChimeraX-Topography: 1.0 ChimeraX-ToQuest: 1.0 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.30 ChimeraX-uniprot: 2.3 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.2.1 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: 1.1.1 ChimeraX-Zone: 1.0.1 colorama: 0.4.6 comm: 0.1.3 comtypes: 1.1.14 contourpy: 1.1.0 cxservices: 1.2.2 cycler: 0.11.0 Cython: 0.29.33 debugpy: 1.6.7 decorator: 5.1.1 docutils: 0.19 executing: 1.2.0 filelock: 3.9.0 fonttools: 4.40.0 funcparserlib: 1.0.1 grako: 3.16.5 h5py: 3.9.0 html2text: 2020.1.16 idna: 3.4 ihm: 0.35 imagecodecs: 2023.3.16 imagesize: 1.4.1 ipykernel: 6.23.2 ipython: 8.14.0 ipython-genutils: 0.2.0 ipywidgets: 8.0.6 jedi: 0.18.2 Jinja2: 3.1.2 jupyter-client: 8.2.0 jupyter-core: 5.3.1 jupyterlab-widgets: 3.0.7 kiwisolver: 1.4.4 line-profiler: 4.0.2 lxml: 4.9.2 lz4: 4.3.2 MarkupSafe: 2.1.3 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 pickleshare: 0.7.5 Pillow: 9.3.0 pip: 23.0 pkginfo: 1.9.6 platformdirs: 3.8.0 prompt-toolkit: 3.0.38 psutil: 5.9.4 pure-eval: 0.2.2 py-cpuinfo: 9.0.0 pycollada: 0.7.2 pydicom: 2.3.0 Pygments: 2.14.0 pynrrd: 1.0.0 PyOpenGL: 3.1.6 PyOpenGL-accelerate: 3.1.6 pyparsing: 3.1.0 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 pywin32: 305 pyzmq: 25.1.0 qtconsole: 5.4.3 QtPy: 2.3.1 RandomWords: 0.4.0 requests: 2.31.0 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: 3.8.0 tcia-utils: 1.2.0 tifffile: 2022.10.10 tinyarray: 1.2.4 tomli: 2.0.1 tornado: 6.3.2 traitlets: 5.9.0 typing-extensions: 4.6.3 tzdata: 2023.3 urllib3: 2.0.3 wcwidth: 0.2.6 webcolors: 1.12 wheel: 0.38.4 wheel-filename: 1.4.1 widgetsnbextension: 4.0.7 WMI: 1.5.1
Change History (3)
comment:1 by , 2 years ago
Cc: | added |
---|---|
Component: | Unassigned → Tool Shed |
Owner: | set to |
Platform: | → all |
Project: | → ChimeraX |
Status: | new → assigned |
Summary: | ChimeraX bug report submission → Bundles not installing |
comment:2 by , 2 years ago
Should be working in tomorrow's build, but you may or may not have to follow Eric's advice first.
comment:3 by , 2 years ago
Resolution: | → fixed |
---|---|
Status: | assigned → closed |
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Hi Kristen,
--Eric