id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 8361 QOpenGLFramebufferObject: Framebuffer incomplete attachment chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: macOS-10.16-x86_64-i386-64bit ChimeraX Version: 1.4.dev202203190100 (2022-03-19 01:00:21 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. 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""62cdf6dddb3b7109d6d765cd"" }, ""deploymentId"" : 240000007 }, { ""rolloutId"" : ""60da5e84ab0ca017dace9abf"", ""factorPackIds"" : { }, ""deploymentId"" : 240000008 } ], ""experiments"" : [ ] }, ""reportNotes"" : [ ""dyld_process_snapshot_create_for_process failed with 5"" ] } ===== Log before crash start ===== UCSF ChimeraX version: 1.4.dev202203190100 (2022-03-19) © 2016-2022 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open ""/Users/hoangnguyen/Library/CloudStorage/OneDrive-UCSanDiego/Susan > Taylor lab/PKA project/data > analysis/cryosparc_P2_J29_class_00_final_volume.mrc"" format mrc Opened cryosparc_P2_J29_class_00_final_volume.mrc as #1, grid size 64,64,64, pixel 1.9, shown at level 0.105, step 1, values float32 > open 6no7 6no7 title: Crystal Structure of the full-length wild-type PKA RIa Holoenzyme [more info...] Chain information for 6no7 #2 --- Chain | Description | UniProt A C E G | cAMP-dependent protein kinase catalytic subunit α | KAPCA_HUMAN B D F H | cAMP-dependent protein kinase type I-alpha regulatory subunit | KAP0_BOVIN Non-standard residues in 6no7 #2 --- ATP — adenosine-5'-triphosphate MG — magnesium ion 6no7 mmCIF Assemblies --- 1| author_defined_assembly 2| author_defined_assembly > show atoms > hide atoms > show cartoons > scalebar bar Expected a number or a keyword > scalebar > open ""/Users/hoangnguyen/Library/CloudStorage/OneDrive-UCSanDiego/Susan > Taylor lab/PKA project/data > analysis/cryosparc_P2_J29_class_01_final_volume.mrc"" Opened cryosparc_P2_J29_class_01_final_volume.mrc as #4, grid size 64,64,64, pixel 1.9, shown at level 0.0848, step 1, values float32 > open ""/Users/hoangnguyen/Library/CloudStorage/OneDrive-UCSanDiego/Susan > Taylor lab/PKA project/data > analysis/cryosparc_P2_J35_class_00_final_volume.mrc"" Opened cryosparc_P2_J35_class_00_final_volume.mrc as #5, grid size 64,64,64, pixel 1.9, shown at level 0.111, step 1, values float32 > molmap #1 15 No atoms specified > hide #!1 models > hide #!3 models > hide #!4 models > hide #!5 models > molmap #2 15 Opened 6no7 map 15 as #6, grid size 43,46,44, pixel 5, shown at level 0.0525, step 1, values float32 No map chosen to save > save #2 Cannot determine format for '#2' > save ""/Users/hoangnguyen/Library/CloudStorage/OneDrive-UCSanDiego/Susan > Taylor lab/PKA project/6no7.png"" width 864 height 615 supersample 3 > transparentBackground true > save ""/Users/hoangnguyen/Library/CloudStorage/OneDrive-UCSanDiego/Susan > Taylor lab/PKA project/6no7.mrc"" models #6 > hide #!2 models > scalebar > scalebar 100 > hide #!6 models > show #!5 models > volume #5 level -0.0007704 > show #!6 models > select add #6 2 models selected > ui mousemode right translate > volume #5 level 0.0004234 Drag select of 6 6no7.mrc > open ""/Users/hoangnguyen/Library/CloudStorage/OneDrive-UCSanDiego/Susan > Taylor lab/PKA project/data > analysis/cryosparc_P2_J35_class_00_final_volume.mrc"" Opened cryosparc_P2_J35_class_00_final_volume.mrc as #7, grid size 64,64,64, pixel 1.9, shown at level 0.111, step 1, values float32 > hide #!5 models > hide #!6 models > volume #7 level -0.001964 > volume #7 level 0.0004234 > show #!6 models > show #!5 models > hide #!5 models > volume #7 level 0.006392 > volume #7 level 0.003408 > hide #!7 models > scalebar 100 > hide #!6 models > select subtract #6 Nothing selected > show #!2 models > scalebar 100 > color bg white Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero', 'byidentity', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random' or a keyword > color bg whitebgcolor white Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero', 'byidentity', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random' or a keyword > bgcolor white Unknown command: bgcolor white > set bgColor white > set bgColor #ffffff00 > ui mousemode right zoom > ui mousemode right translate > select /a 2746 atoms, 2818 bonds, 336 residues, 1 model selected > hide /a > cartoon hide sel > select /b 2259 atoms, 2299 bonds, 285 residues, 1 model selected > cartoonhide /b Unknown command: cartoonhide /b > cartoon hide /b > select /c 2775 atoms, 2847 bonds, 340 residues, 1 model selected > cartoon hide /c > select /d 2268 atoms, 2308 bonds, 286 residues, 1 model selected > cartoon hide /d > ui mousemode right zoom > ui mousemode right translate > ui mousemode right rotate > ui mousemode right ""translate selected models"" > select /e 2799 atoms, 2871 bonds, 8 pseudobonds, 342 residues, 2 models selected > select /f 2248 atoms, 2288 bonds, 284 residues, 1 model selected > select /B 2259 atoms, 2299 bonds, 285 residues, 1 model selected > select /D 2268 atoms, 2308 bonds, 286 residues, 1 model selected > select /F 2248 atoms, 2288 bonds, 284 residues, 1 model selected QOpenGLFramebufferObject: Framebuffer incomplete attachment. QOpenGLFramebufferObject: Framebuffer incomplete, missing attachment. QQuickRenderTarget: textureId is invalid QQuickWindow: No render target (neither swapchain nor custom target was provided) QOpenGLFramebufferObject: Framebuffer incomplete attachment. QOpenGLFramebufferObject: Framebuffer incomplete, missing attachment. QQuickRenderTarget: textureId is invalid QQuickWindow: No render target (neither swapchain nor custom target was provided) Failed to lock QIOSurfaceGraphicsBuffer(0x600000c95560, surface=0x0, size=QSize(-2147483648, -2147483648), isLocked=false, isInUse=false) -536870206 ===== Log before crash end ===== Log: UCSF ChimeraX version: 1.4.dev202203190100 (2022-03-19) © 2016-2022 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX OpenGL version: 4.1 Metal - 83 OpenGL renderer: Apple M1 OpenGL vendor: Apple Locale: UTF-8 Qt version: PyQt6 6.2.3, Qt 6.2.3 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Pro Model Identifier: MacBookPro17,1 Model Number: MJ123LL/A Chip: Unknown Total Number of Cores: 8 (4 performance and 4 efficiency) Memory: 16 GB System Firmware Version: 8419.41.10 OS Loader Version: 8419.41.10 Software: System Software Overview: System Version: macOS 13.0.1 (22A400) Kernel Version: Darwin 22.1.0 Time since boot: 40 days, 1 hour, 32 minutes Graphics/Displays: Apple M1: Chipset Model: Apple M1 Type: GPU Bus: Built-In Total Number of Cores: 8 Vendor: Apple (0x106b) Metal Support: Metal 3 Displays: Color LCD: Display Type: Built-In Retina LCD Resolution: 2560 x 1600 Retina Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: Yes Connection Type: Internal Installed Packages: alabaster: 0.7.12 appdirs: 1.4.4 appnope: 0.1.2 Babel: 2.9.1 backcall: 0.2.0 blockdiag: 3.0.0 certifi: 2021.5.30 cftime: 1.6.0 charset-normalizer: 2.0.12 ChimeraX-AddCharge: 1.2.3 ChimeraX-AddH: 2.1.11 ChimeraX-AlignmentAlgorithms: 2.0 ChimeraX-AlignmentHdrs: 3.2.1 ChimeraX-AlignmentMatrices: 2.0 ChimeraX-Alignments: 2.3 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.0.1 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.0 ChimeraX-Atomic: 1.36.2 ChimeraX-AtomicLibrary: 6.1.1 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.1 ChimeraX-BasicActions: 1.1 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 2.0 ChimeraX-BondRot: 2.0 ChimeraX-BugReporter: 1.0 ChimeraX-BuildStructure: 2.6.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.1 ChimeraX-ButtonPanel: 1.0 ChimeraX-CageBuilder: 1.0 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.2 ChimeraX-ChemGroup: 2.0 ChimeraX-Clashes: 2.2.2 ChimeraX-ColorActions: 1.0 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.1 ChimeraX-CommandLine: 1.2.2 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0 ChimeraX-Core: 1.4.dev202203190100 ChimeraX-CoreFormats: 1.1 ChimeraX-coulombic: 1.3.2 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0 ChimeraX-DataFormats: 1.2.2 ChimeraX-Dicom: 1.0 ChimeraX-DistMonitor: 1.1.5 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: 1.1 ChimeraX-Hbonds: 2.1.2 ChimeraX-Help: 1.2 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 ChimeraX-Label: 1.1 ChimeraX-ListInfo: 1.1.1 ChimeraX-Log: 1.1.5 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.8.1 ChimeraX-Map: 1.1 ChimeraX-MapData: 2.0 ChimeraX-MapEraser: 1.0 ChimeraX-MapFilter: 2.0 ChimeraX-MapFit: 2.0 ChimeraX-MapSeries: 2.1 ChimeraX-Markers: 1.0 ChimeraX-Mask: 1.0 ChimeraX-MatchMaker: 2.0.6 ChimeraX-MDcrds: 2.6 ChimeraX-MedicalToolbar: 1.0.1 ChimeraX-Meeting: 1.0 ChimeraX-MLP: 1.1 ChimeraX-mmCIF: 2.7 ChimeraX-MMTF: 2.1 ChimeraX-Modeller: 1.5.5 ChimeraX-ModelPanel: 1.3.2 ChimeraX-ModelSeries: 1.0 ChimeraX-Mol2: 2.0 ChimeraX-Morph: 1.0 ChimeraX-MouseModes: 1.1 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nucleotides: 2.0.2 ChimeraX-OpenCommand: 1.8 ChimeraX-PDB: 2.6.6 ChimeraX-PDBBio: 1.0 ChimeraX-PDBLibrary: 1.0.2 ChimeraX-PDBMatrices: 1.0 ChimeraX-PickBlobs: 1.0 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.1 ChimeraX-PubChem: 2.1 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1 ChimeraX-RemoteControl: 1.0 ChimeraX-ResidueFit: 1.0 ChimeraX-RestServer: 1.1 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 2.0.1 ChimeraX-RotamerLibsDunbrack: 2.0 ChimeraX-RotamerLibsDynameomics: 2.0 ChimeraX-RotamerLibsRichardson: 2.0 ChimeraX-SaveCommand: 1.5 ChimeraX-SchemeMgr: 1.0 ChimeraX-SDF: 2.0 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.5 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0 ChimeraX-Shortcuts: 1.1 ChimeraX-ShowAttr: 1.0 ChimeraX-ShowSequences: 1.0 ChimeraX-SideView: 1.0 ChimeraX-Smiles: 2.1 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.8 ChimeraX-STL: 1.0 ChimeraX-Storm: 1.0 ChimeraX-StructMeasure: 1.0.1 ChimeraX-Struts: 1.0.1 ChimeraX-Surface: 1.0 ChimeraX-SwapAA: 2.0 ChimeraX-SwapRes: 2.1.1 ChimeraX-TapeMeasure: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.1 ChimeraX-ToolshedUtils: 1.2.1 ChimeraX-Tug: 1.0 ChimeraX-UI: 1.16.3 ChimeraX-uniprot: 2.2 ChimeraX-UnitCell: 1.0 ChimeraX-ViewDockX: 1.1.2 ChimeraX-VIPERdb: 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: 0.4.4 cxservices: 1.1 cycler: 0.11.0 Cython: 0.29.26 debugpy: 1.5.1 decorator: 5.1.1 docutils: 0.17.1 entrypoints: 0.4 filelock: 3.4.2 fonttools: 4.31.1 funcparserlib: 1.0.0a0 grako: 3.16.5 h5py: 3.6.0 html2text: 2020.1.16 idna: 3.3 ihm: 0.27 imagecodecs: 2021.11.20 imagesize: 1.3.0 ipykernel: 6.6.1 ipython: 7.31.1 ipython-genutils: 0.2.0 jedi: 0.18.1 Jinja2: 3.0.3 jupyter-client: 7.1.0 jupyter-core: 4.9.2 kiwisolver: 1.4.0 line-profiler: 3.4.0 lxml: 4.7.1 lz4: 3.1.10 MarkupSafe: 2.1.1 matplotlib: 3.5.1 matplotlib-inline: 0.1.3 msgpack: 1.0.3 nest-asyncio: 1.5.4 netCDF4: 1.5.8 networkx: 2.6.3 numexpr: 2.8.1 numpy: 1.22.1 openvr: 1.16.802 packaging: 21.0 ParmEd: 3.4.3 parso: 0.8.3 pexpect: 4.8.0 pickleshare: 0.7.5 Pillow: 9.0.1 pip: 21.3.1 pkginfo: 1.8.2 prompt-toolkit: 3.0.28 psutil: 5.9.0 ptyprocess: 0.7.0 pycollada: 0.7.2 pydicom: 2.2.2 Pygments: 2.11.2 PyOpenGL: 3.1.5 PyOpenGL-accelerate: 3.1.5 pyparsing: 3.0.7 PyQt6-commercial: 6.2.3 PyQt6-sip: 13.2.0 PyQt6-WebEngine-commercial: 6.2.1 python-dateutil: 2.8.2 pytz: 2022.1 pyzmq: 22.3.0 qtconsole: 5.2.2 QtPy: 2.0.1 RandomWords: 0.3.0 requests: 2.27.1 scipy: 1.7.3 setuptools: 59.8.0 sfftk-rw: 0.7.1 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 Sphinx: 4.3.2 sphinx-autodoc-typehints: 1.15.2 sphinxcontrib-applehelp: 1.0.2 sphinxcontrib-blockdiag: 3.0.0 sphinxcontrib-devhelp: 1.0.2 sphinxcontrib-htmlhelp: 2.0.0 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.3 sphinxcontrib-serializinghtml: 1.1.5 suds-community: 1.0.0 tables: 3.7.0 tifffile: 2021.11.2 tinyarray: 1.2.4 tornado: 6.1 traitlets: 5.1.1 urllib3: 1.26.9 wcwidth: 0.2.5 webcolors: 1.11.1 wheel: 0.37.1 wheel-filename: 1.3.0 }}} " defect closed normal Window Toolkit can't reproduce Eric Pettersen all ChimeraX