id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 19320 Save MRC: could not broadcast input array zeyu.chen@… Tom Goddard "{{{ The following bug report has been submitted: Platform: Windows-10-10.0.26100 ChimeraX Version: 1.10.1 (2025-07-24 20:15:27 UTC) Description Replace this text with list of actions that caused this problem to occur Log: UCSF ChimeraX version: 1.10.1 (2025-07-24) © 2016-2025 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open ""E:/edge download/cryosparc_P769_J403_005_volume_map_sharp.mrc"" Opened cryosparc_P769_J403_005_volume_map_sharp.mrc as #1, grid size 380,380,380, pixel 0.725, shown at level 0.036, step 2, values float32 > volume #1 level 0.1235 > volume #1 step 1 > volume flip #1 Opened cryosparc_P769_J403_005_volume_map_sharp.mrc z flip as #2, grid size 380,380,380, pixel 0.725, shown at step 1, values float32 > close #1 > open > D:/project/Roche/GPCR/GIPR/phenix/RealSpaceRefine_3/GIPR_EX3835_J348_real_space_refined_003.pdb Chain information for GIPR_EX3835_J348_real_space_refined_003.pdb #1 --- Chain | Description A | No description available B | No description available E | No description available G | No description available R | No description available > hide atoms > show cartoons > transparency 50 > surface dust #2 size 7.25 > select add #1 9574 atoms, 9792 bonds, 9 pseudobonds, 1221 residues, 2 models selected > surface dust #2 size 7.25 > select subtract #1 Nothing selected > color zone #2 near #1 distance 4.35 > hide #!1 models > transparency 0 > ui tool show ""Color Zone"" > color zone #2 near #1 distance 3 > transparency 0 > color zone #2 near #1 distance 2 > color zone #2 near #1 distance 2.5 [Repeated 1 time(s)] > transparency 0 > color zone #2 near #1 distance 2.8 > transparency 0 > color zone #2 near #1 distance 3 > transparency 0 > hide #!2 models > show #!1 models > select /G 453 atoms, 459 bonds, 59 residues, 1 model selected > color sel orange red > select add #1 9574 atoms, 9792 bonds, 9 pseudobonds, 1221 residues, 2 models selected > show #!2 models > color zone #2 near #1 distance 3 > hide #!1 models > select subtract #1 Nothing selected > transparency 0 > color zone #2 near #1 distance 3.5 > transparency 0 > save ""D:/project/Roche/GPCR/GIPR/model building/EX3835/J403/p769j403.mrc"" > models #2 > save ""D:/project/Roche/GPCR/GIPR/model > building/EX3835/J403/GIPR_EX3835_J403.pdb"" relModel #2 > set bgColor white > ui tool show ""Color Zone"" > color single #2 > transparency 0 > show #!1 models > transparency 50 > select add #1 9574 atoms, 9792 bonds, 9 pseudobonds, 1221 residues, 2 models selected > ui mousemode right ""rotate selected models"" > view matrix models > #1,0.9958,0.058439,-0.070522,1.695,-0.063786,0.99506,-0.07612,19.565,0.065725,0.080298,0.9946,-19.64 > fitmap #1 inMap #2 Fit molecule GIPR_EX3835_J348_real_space_refined_003.pdb (#1) to map p769j403.mrc (#2) using 9574 atoms average map value = 0.132, steps = 88 shifted from previous position = 0.807 rotated from previous position = 5.16 degrees atoms outside contour = 5106, contour level = 0.12348 Position of GIPR_EX3835_J348_real_space_refined_003.pdb (#1) relative to p769j403.mrc (#2) coordinates: Matrix rotation and translation 0.99193161 0.12529928 -0.01928142 -14.57822552 -0.12601358 0.99114500 -0.04185899 24.29185956 0.01386578 0.04395097 0.99893746 -7.71746476 Axis 0.32064158 -0.12385941 -0.93906753 Axis point 183.41597760 127.04236757 0.00000000 Rotation angle (degrees) 7.68980134 Shift along axis -0.43594013 > select subtract #1 Nothing selected > ui tool show ""Color Zone"" > color zone #2 near #1 distance 3 > transparency 0 > graphics silhouettes true > hide #!1 models > color single #2 > transparency 0 > show #!1 models > transparency 50 > close #1-2 > set bgColor black > set bgColor transparent > open D:/project/Roche/GPCR/GIPR/202511_Roche_GIPR- > EX3835_3.1A/cryosparc_P769_J403_005_volume_map.mrc Opened cryosparc_P769_J403_005_volume_map.mrc as #1, grid size 380,380,380, pixel 0.725, shown at level 0.0292, step 2, values float32 > volume flip #1 Opened cryosparc_P769_J403_005_volume_map.mrc z flip as #2, grid size 380,380,380, pixel 0.725, shown at step 1, values float32 > close #1 > save D:/project/Roche/GPCR/GIPR/202511_Roche_GIPR- > EX3835_3.1A/cryosparc_P769_J403_005_volume_map.mrc models #2 Traceback (most recent call last): File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\toolbar\tool.py"", line 185, in callback bundle_info.run_provider(session, name, session.toolbar, display_name=display_name) File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\core\toolshed\info.py"", line 397, in run_provider return api._api_caller.run_provider(api, session, name, mgr, **kw) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\core\toolshed\\__init__.py"", line 1419, in run_provider return cls._get_func(api, ""run_provider"")(session, name, mgr, **kw) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\toolbar\\__init__.py"", line 37, in run_provider providers.run_provider(session, name) File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\toolbar\providers.py"", line 56, in run_provider what(session) File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\toolbar\providers.py"", line 38, in _file_save show_save_file_dialog(session) File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\save_command\dialog.py"", line 138, in show_save_file_dialog _dlg.display(session, **kw) File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\save_command\dialog.py"", line 62, in display run(session, cmd) File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\core\commands\run.py"", line 49, in run results = command.run(text, log=log, return_json=return_json) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\core\commands\cli.py"", line 3221, in run result = ci.function(session, **kw_args) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\save_command\cmd.py"", line 86, in cmd_save Command(session, registry=registry).run(provider_cmd_text, log=log) File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\core\commands\cli.py"", line 3221, in run result = ci.function(session, **kw_args) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\save_command\cmd.py"", line 101, in provider_save saver_info.save(session, path, **provider_kw) File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\map\\__init__.py"", line 200, in save save_map(session, path, _name, **kw) File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\map\volume.py"", line 4028, in save_map save_grid_data(grids, path, session, format_name, options) File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\map_data\fileformats.py"", line 326, in save_grid_data ff.save_func(garg, tpath, options = options, progress = p) File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\map_data\mrc\writemrc.py"", line 73, in write_mrc2000_grid_data matrix = grid_data.matrix((0,0,k), (isz,jsz,1)) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\map_filter\flip.py"", line 39, in matrix m = self.data.matrix(origin, ijk_size, ijk_step, progress=progress, ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\map_data\griddata.py"", line 317, in matrix m = self.read_matrix(ijk_origin, ijk_size, ijk_step, progress) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\map_data\mrc\mrc_grid.py"", line 50, in read_matrix m = self.mrc_data.read_matrix(ijk_origin, ijk_size, ijk_step, progress) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\map_data\mrc\mrc_format.py"", line 287, in read_matrix matrix = read_array(self.path, self.data_offset, ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\map_data\readarray.py"", line 68, in read_array matrix[(k-ko)//kstep,(j-jo)//jstep,:] = slice[::istep] ~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ValueError: could not broadcast input array from shape (0,) into shape (380,) ValueError: could not broadcast input array from shape (0,) into shape (380,) File ""E:\chimera X\chimeraX 1.10\ChimeraX 1.10.1\bin\Lib\site- packages\chimerax\map_data\readarray.py"", line 68, in read_array matrix[(k-ko)//kstep,(j-jo)//jstep,:] = slice[::istep] ~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ See log for complete Python traceback. OpenGL version: 3.3.0 - Build 32.0.101.6556 OpenGL renderer: Intel(R) UHD Graphics 750 OpenGL vendor: Intel Python: 3.11.4 Locale: zh_CN.cp936 Qt version: PyQt6 6.8.1, Qt 6.8.2 Qt runtime version: 6.8.2 Qt platform: windows Manufacturer: Dell Inc. Model: Vostro 3890 OS: Microsoft Windows 11 专业版 (Build 26100) Memory: 34,067,255,296 MaxProcessMemory: 137,438,953,344 CPU: 16 11th Gen Intel(R) Core(TM) i7-11700 @ 2.50GHz OSLanguage: zh-CN Installed Packages: alabaster: 1.0.0 appdirs: 1.4.4 asttokens: 3.0.0 babel: 2.17.0 beautifulsoup4: 4.13.3 blockdiag: 3.0.0 blosc2: 3.6.1 build: 1.2.2.post1 certifi: 2025.7.14 cftime: 1.6.4.post1 charset-normalizer: 3.4.2 ChimeraX-AddCharge: 1.5.19 ChimeraX-AddH: 2.2.7 ChimeraX-AlignmentAlgorithms: 2.0.2 ChimeraX-AlignmentHdrs: 3.6.1 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 2.20.2 ChimeraX-AlphaFold: 1.0.1 ChimeraX-AltlocExplorer: 1.1.2 ChimeraX-AmberInfo: 1.0 ChimeraX-Aniso: 1.1.4 ChimeraX-Arrays: 1.1 ChimeraX-Atomic: 1.60.7 ChimeraX-AtomicLibrary: 14.1.19 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.4 ChimeraX-BasicActions: 1.1.3 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 3.0.0 ChimeraX-Boltz: 1.0 ChimeraX-BondRot: 2.0.4 ChimeraX-BugReporter: 1.0.2 ChimeraX-BuildStructure: 2.13.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.5.1 ChimeraX-ButtonPanel: 1.0.1 ChimeraX-CageBuilder: 1.0.1 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.4 ChimeraX-ChangeChains: 1.1 ChimeraX-CheckWaters: 1.5 ChimeraX-ChemGroup: 2.0.2 ChimeraX-Clashes: 2.3 ChimeraX-ColorActions: 1.0.5 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.8 ChimeraX-CommandLine: 1.3 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.10.1 ChimeraX-CoreFormats: 1.2 ChimeraX-coulombic: 1.4.5 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0.1 ChimeraX-DataFormats: 1.2.4 ChimeraX-Dicom: 1.2.7 ChimeraX-DistMonitor: 1.4.2 ChimeraX-DockPrep: 1.1.4 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: 2.5.1 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: 1.6.2 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: 2.2.2 ChimeraX-MCopy: 1.0 ChimeraX-MDcrds: 2.10.1 ChimeraX-MedicalToolbar: 1.1 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.16 ChimeraX-MMTF: 2.2 ChimeraX-ModelArchive: 1.0 ChimeraX-Modeller: 1.5.19 ChimeraX-ModelPanel: 1.5.1 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: 1.14.1 ChimeraX-OrthoPick: 1.0.1 ChimeraX-PDB: 2.7.10 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: 1.1.3 ChimeraX-ProfileGrids: 1.1.3 ChimeraX-PubChem: 2.2 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.2 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.6.3 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: 2.0.3 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0.1 ChimeraX-Segmentations: 3.5.7 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.17.1 ChimeraX-Shape: 1.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.2.1 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: 1.19.1 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: 2.5.2 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: 1.45.2 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: 1.1.5 ChimeraX-Zone: 1.0.1 colorama: 0.4.6 comm: 0.2.2 comtypes: 1.4.10 contourpy: 1.3.2 coverage: 7.10.0 cxservices: 1.2.3 cycler: 0.12.1 Cython: 3.0.12 debugpy: 1.8.15 decorator: 5.2.1 docutils: 0.21.2 executing: 2.2.0 filelock: 3.18.0 fonttools: 4.59.0 funcparserlib: 2.0.0a0 glfw: 2.9.0 grako: 3.16.5 h5py: 3.14.0 html2text: 2024.2.26 idna: 3.10 ihm: 2.2 imagecodecs: 2024.6.1 imagesize: 1.4.1 iniconfig: 2.1.0 ipykernel: 6.29.5 ipython: 8.26.0 ipywidgets: 8.1.7 jedi: 0.19.1 Jinja2: 3.1.6 jupyter_client: 8.6.3 jupyter_core: 5.8.1 jupyterlab_widgets: 3.0.15 kiwisolver: 1.4.8 line_profiler: 4.2.0 lxml: 5.3.1 lz4: 4.3.2 MarkupSafe: 3.0.2 matplotlib: 3.10.1 matplotlib-inline: 0.1.7 msgpack: 1.1.0 ndindex: 1.10.0 nest-asyncio: 1.6.0 netCDF4: 1.6.5 networkx: 3.3 nibabel: 5.2.0 nptyping: 2.5.0 numexpr: 2.11.0 numpy: 1.26.4 nvidia-nvjitlink-cu12: 12.9.86 OpenMM: 8.2.0 OpenMM-CUDA-12: 8.2.0 openvr: 1.26.701 packaging: 24.2 ParmEd: 4.2.2 parso: 0.8.4 pep517: 0.13.1 pickleshare: 0.7.5 pillow: 10.4.0 pip: 25.0.1 pkginfo: 1.11.1 platformdirs: 4.3.8 pluggy: 1.6.0 prompt_toolkit: 3.0.51 psutil: 7.0.0 pure_eval: 0.2.3 py-cpuinfo: 9.0.0 pycollada: 0.8 pydicom: 2.4.4 Pygments: 2.18.0 pynmrstar: 3.3.5 pynrrd: 1.0.0 PyOpenGL: 3.1.9 PyOpenGL-accelerate: 3.1.9 pyopenxr: 1.1.4501 pyparsing: 3.2.3 pyproject_hooks: 1.2.0 PyQt6-commercial: 6.8.1 PyQt6-Qt6: 6.8.2 PyQt6-WebEngine-commercial: 6.8.0 PyQt6-WebEngine-Qt6: 6.8.2 PyQt6_sip: 13.10.0 pytest: 8.4.1 pytest-cov: 6.2.1 python-dateutil: 2.9.0.post0 pytz: 2025.2 pywin32: 310 pyzmq: 27.0.0 qtconsole: 5.5.2 QtPy: 2.4.3 qtshim: 1.1 RandomWords: 0.4.0 requests: 2.32.3 roman-numerals-py: 3.1.0 scipy: 1.14.0 setuptools: 78.1.0 sfftk-rw: 0.8.1 six: 1.16.0 snowballstemmer: 3.0.1 sortedcontainers: 2.4.0 soupsieve: 2.7 Sphinx: 8.2.3 sphinx-autodoc-typehints: 3.1.0 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: 0.7.1 tables: 3.10.2 tcia_utils: 1.5.1 tifffile: 2025.3.13 tinyarray: 1.2.4 tornado: 6.5.1 traitlets: 5.14.3 typing_extensions: 4.14.1 tzdata: 2025.2 urllib3: 2.5.0 wcwidth: 0.2.13 webcolors: 24.11.1 wheel: 0.45.1 wheel-filename: 1.4.2 widgetsnbextension: 4.0.14 WMI: 1.5.1 }}} " defect closed normal Input/Output duplicate all ChimeraX