id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 4212 Timeout writing session file weberm@… Tom Goddard "{{{ The following bug report has been submitted: Platform: Windows-10-10.0.19041 ChimeraX Version: 1.1 (2020-09-09 22:22:27 UTC) Description Upon saving of sessions after writing of image snapshots (on white background)to disk, ChimeraX ends in an endless loop in attempting to write the file to SSD when using PDB code 3q1r or 3zd5 (relatively small; 16 GB of RAM). Error message: SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB 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 ""C:/Users/weber/Desktop/AG Falcone_work/Parasitologie-Seminar > 2021-02-05/PDB/3q1r_holoRNaseP_THEMA.cif"" 3q1r_holoRNaseP_THEMA.cif title: Crystal structure of a bacterial RNase P holoenzyme in complex with TRNA and in the presence of 5' leader [more info...] Chain information for 3q1r_holoRNaseP_THEMA.cif #1 --- Chain | Description A | Ribonuclease P protein component B | RNase P RNA C | TRNA (phe) D | TRNA 5' leader Non-standard residues in 3q1r_holoRNaseP_THEMA.cif #1 --- MG — magnesium ion > lighting full > nucleotides tube/slab shape box > color bychain > show surfaces > transparency 70 > hide surfaces > show surfaces > hide surfaces > show surfaces > save C:\Users\weber\Desktop\image1.png supersample 3 > set bgColor white > save C:\Users\weber\Desktop\image2.png supersample 3 > set bgColor black SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB\3zd5_Hammerhead_SCHMA.cxs SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB\3zd5_Hammerhead_SCHMA.cxs SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB\3zd5_Hammerhead_SCHMA.cxs SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB\3zd5_Hammerhead_SCHMA.cxs SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB\3zd5_Hammerhead_SCHMA.cxs SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB\3zd5_Hammerhead_SCHMA.cxs SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB\3zd5_Hammerhead_SCHMA.cxs SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB\3zd5_Hammerhead_SCHMA.cxs SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB\3zd5_Hammerhead_SCHMA.cxs SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB\3zd5_Hammerhead_SCHMA.cxs SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB\3zd5_Hammerhead_SCHMA.cxs SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB\3zd5_Hammerhead_SCHMA.cxs SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB\3zd5_Hammerhead_SCHMA.cxs SHGetFileInfo() timed out for C:\Users\weber\Desktop\AG Falcone_work\Parasitologie-Seminar 2021-02-05\PDB OpenGL version: 3.3.0 NVIDIA 431.53 OpenGL renderer: GeForce GTX 1060/PCIe/SSE2 OpenGL vendor: NVIDIA Corporation Manufacturer: Alienware Model: Alienware 13 R3 OS: Microsoft Windows 10 Pro (Build 19041) Memory: 17,046,663,168 MaxProcessMemory: 137,438,953,344 CPU: 8 Intel(R) Core(TM) i7-7700HQ CPU @ 2.80GHz"" 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-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-Label: 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-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 docutils: 0.16 filelock: 3.0.12 funcparserlib: 0.3.6 gdcm: 2.8.8 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 msgpack: 1.0.0 netifaces: 0.10.9 networkx: 2.4 numexpr: 2.7.1 numpy: 1.18.5+mkl numpydoc: 1.0.0 openvr: 1.12.501 packaging: 20.4 parso: 0.7.1 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 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 pywin32: 228 pyzmq: 19.0.2 qtconsole: 4.7.4 QtPy: 1.9.0 RandomWords: 0.3.0 requests: 2.24.0 scipy: 1.4.1 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 WMI: 1.5.1 }}} " defect closed normal Sessions can't reproduce Greg Couch all ChimeraX