id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 19718 Incorrect initial scaling on spatial display utz.ermel@… Tom Goddard "{{{ The following bug report has been submitted: Platform: Windows-10-10.0.26100 ChimeraX Version: 1.11 (2025-12-17 06:45:39 UTC) Description Incorrect initial scaling of scene with Sony ELF-SR2 screen. The scene is displayed at low size/large distance at the bottom of the screen. The screen is operated in 45 degree tilted mode. 2 Images are attached in a zip-archive show the 2D viewport and 3D screen contents with unmodified ChimeraX 1.11. Operations: - open PDB model - xr on Log: UCSF ChimeraX version: 1.11 (2025-12-17) © 2016-2025 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open 7sde format mmcif fromDatabase pdb 7sde title: Cryo-EM structure of Nse5/6 heterodimer [more info...] Chain information for 7sde #1 --- Chain | Description | UniProt A | Non-structural maintenance of chromosome element 5 | NSE5_YEAST 1-556 B | Ubiquitin-like protein SMT3,DNA repair protein KRE29 chimera | SMT3_YEAST -98--1, KRE29_YEAST 1-464 > xr true C:\Program Files\ChimeraX 1.11\bin\Lib\site- packages\xr\library\\__init__.py:2: UserWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html. The pkg_resources package is slated for removal as early as 2025-11-30. Refrain from using this package or pin to Setuptools<81. import pkg_resources Could not find OpenXR screen ASV27-2P, 1ASV27-2P, DS1_156, SR Display , only found , SR Display GB > mousemode setting zoom speed 0.2 started OpenXR rendering SonySRD System, render size 3840 by 2160 > xr false > mousemode setting zoom speed 1 > xr true Could not find OpenXR screen ASV27-2P, 1ASV27-2P, DS1_156, SR Display , only found , SR Display GB > mousemode setting zoom speed 0.2 started OpenXR rendering SonySRD System, render size 3840 by 2160 > xr false > mousemode setting zoom speed 1 > view > view orient > xr true Could not find OpenXR screen ASV27-2P, 1ASV27-2P, DS1_156, SR Display , only found , SR Display GB > mousemode setting zoom speed 0.2 started OpenXR rendering SonySRD System, render size 3840 by 2160 OpenGL version: 3.3.0 NVIDIA 581.83 OpenGL renderer: NVIDIA GeForce RTX 5080 Laptop GPU/PCIe/SSE2 OpenGL vendor: NVIDIA Corporation Python: 3.11.9 Locale: en_US.cp1252 Qt version: PyQt6 6.9.1, Qt 6.9.0 Qt runtime version: 6.9.2 Qt platform: windows Manufacturer: Alienware Model: Alienware 18 Area-51 AA18250 OS: Microsoft Windows 11 Pro (Build 26100) Memory: 68,137,205,760 MaxProcessMemory: 137,438,953,344 CPU: 24 Intel(R) Core(TM) Ultra 9 275HX OSLanguage: en-US Installed Packages: aiobotocore: 2.26.0 aiohappyeyeballs: 2.6.1 aiohttp: 3.13.1 aioitertools: 0.13.0 aiosignal: 1.4.0 alabaster: 1.0.0 annotated-types: 0.7.0 anyio: 4.12.0 appdirs: 1.4.4 asciitree: 0.3.3 asttokens: 3.0.1 asyncssh: 2.22.0 attrs: 25.4.0 autocommand: 2.2.2 babel: 2.17.0 backoff: 2.2.1 backports.tarfile: 1.2.0 beautifulsoup4: 4.13.5 blockdiag: 3.0.0 blosc2: 3.12.2 boto3: 1.41.5 botocore: 1.41.5 build: 1.3.0 certifi: 2025.11.12 cffi: 2.0.0 cftime: 1.6.5 charset-normalizer: 3.4.4 ChimeraX-AddCharge: 1.5.20 ChimeraX-AddH: 2.2.8 ChimeraX-AlignmentAlgorithms: 2.0.2 ChimeraX-AlignmentHdrs: 3.6.1 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 3.1.1 ChimeraX-AlphaFold: 1.0.1 ChimeraX-AltlocExplorer: 1.2 ChimeraX-AmberInfo: 1.0 ChimeraX-Animations: 1.0 ChimeraX-Aniso: 1.3.2 ChimeraX-Arrays: 1.1 ChimeraX-ArtiaX: 0.6.0 ChimeraX-Atomic: 1.61.4 ChimeraX-AtomicLibrary: 14.2.1 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: 1.1 ChimeraX-BondRot: 2.0.4 ChimeraX-BugReporter: 1.0.2 ChimeraX-BuildStructure: 2.13.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.6.0 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: 1.3.0 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-copick: 1.4.2 ChimeraX-Core: 1.11 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-Gamepad: 0.2.0 ChimeraX-Geometry: 1.3 ChimeraX-gltf: 1.0 ChimeraX-Graphics: 1.4.1 ChimeraX-Hbonds: 2.5.3 ChimeraX-Help: 1.3 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.1 ChimeraX-ImageFormats: 1.2 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.4 ChimeraX-ItemsInspection: 1.0.1 ChimeraX-IUPAC: 1.0 ChimeraX-KVFinder: 1.7.3 ChimeraX-Label: 1.2 ChimeraX-ListInfo: 1.2.2 ChimeraX-Log: 1.2.2 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.9.2 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-MCPServer: 0.1.0 ChimeraX-MDcrds: 2.17.2 ChimeraX-MedicalToolbar: 1.1 ChimeraX-Meeting: 1.0.1 ChimeraX-Minimize: 1.3.2 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.16 ChimeraX-MMTF: 2.2 ChimeraX-ModelArchive: 1.0 ChimeraX-Modeller: 1.5.22 ChimeraX-ModelPanel: 1.6 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: 1.0.1 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-OME-Zarr: 0.5.5 ChimeraX-OpenCommand: 1.15.2 ChimeraX-OrthoPick: 1.0.1 ChimeraX-PDB: 2.7.11 ChimeraX-PDBBio: 1.0.1 ChimeraX-PDBLibrary: 1.0.5 ChimeraX-PDBMatrices: 1.0 ChimeraX-PickBlobs: 1.0.1 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.1.4 ChimeraX-ProfileGrids: 1.4.2 ChimeraX-PubChem: 2.2 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.2 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.6.5 ChimeraX-RenumberResidues: 1.1 ChimeraX-ResidueFit: 1.0.1 ChimeraX-RestServer: 1.3.3 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 4.0 ChimeraX-RotamerLibsDunbrack: 2.0 ChimeraX-RotamerLibsDynameomics: 2.0 ChimeraX-RotamerLibsRichardson: 2.0 ChimeraX-SaveCommand: 1.5.2 ChimeraX-Scenes: 0.3.1 ChimeraX-SchemeMgr: 1.0 ChimeraX-SDF: 2.0.3 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0.1 ChimeraX-Segmentations: 3.5.10 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.17.3 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: 1.49.1 ChimeraX-Umap: 1.0 ChimeraX-uniprot: 2.3.2 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDock: 1.5.2 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 click: 8.3.1 cloudpickle: 3.1.2 colorama: 0.4.6 comm: 0.2.3 comtypes: 1.4.11 contourpy: 1.3.3 copick: 1.17.0 copick-shared-ui: 0.2.0 coverage: 7.13.0 cryoet_data_portal: 4.5.0 cryptography: 46.0.3 cxservices: 1.2.3 cycler: 0.12.1 Cython: 3.1.4 dask: 2025.12.0 debugpy: 1.8.19 decorator: 5.2.1 deepmerge: 2.0 Deprecated: 1.3.1 distinctipy: 1.3.4 distributed: 2025.12.0 docutils: 0.21.2 executing: 2.2.1 fasteners: 0.20 filelock: 3.19.1 fonttools: 4.61.1 frozenlist: 1.8.0 fsspec: 2025.12.0 funcparserlib: 2.0.0a0 geomdl: 5.4.0 glfw: 2.10.0 gql: 3.5.3 grako: 3.16.5 graphql-core: 3.2.6 h11: 0.16.0 h5py: 3.15.1 hatchling: 1.28.0 html2text: 2025.4.15 httpcore: 1.0.9 httpx: 0.28.1 httpx-sse: 0.4.3 idna: 3.11 ihm: 2.2 imagecodecs: 2024.6.1 ImageIO: 2.37.2 imagesize: 1.4.1 importlib_metadata: 8.7.1 importlib_metadata: 8.0.0 inflect: 7.3.1 iniconfig: 2.3.0 ipykernel: 6.30.1 ipython: 9.5.0 ipython_pygments_lexers: 1.1.1 ipywidgets: 8.1.8 jaraco.collections: 5.1.0 jaraco.context: 5.3.0 jaraco.functools: 4.0.1 jaraco.text: 3.12.1 jedi: 0.19.2 Jinja2: 3.1.6 jmespath: 1.0.1 jsonschema: 4.25.1 jsonschema-specifications: 2025.9.1 jupyter_client: 8.6.3 jupyter_core: 5.9.1 jupyterlab_widgets: 3.0.16 kiwisolver: 1.4.9 lazy_loader: 0.4 line_profiler: 5.0.0 linkify-it-py: 2.0.3 locket: 1.0.0 lxml: 6.0.2 lz4: 4.3.2 Markdown: 3.8.2 markdown-it-py: 4.0.0 MarkupSafe: 3.0.3 matplotlib: 3.10.7 matplotlib-inline: 0.2.1 mcp: 1.18.0 mdit-py-plugins: 0.5.0 mdurl: 0.1.2 more-itertools: 10.3.0 mrcfile: 1.5.4 msgpack: 1.1.1 multidict: 6.7.0 ndindex: 1.10.1 nest-asyncio: 1.6.0 netCDF4: 1.6.5 networkx: 3.3 nibabel: 5.2.0 nptyping: 2.5.0 numcodecs: 0.15.1 numexpr: 2.14.1 numpy: 2.2.6 numpy: 1.26.4 nvidia-nvjitlink-cu12: 12.9.86 ome-zarr: 0.10.3 OpenMM: 8.2.0 OpenMM-CUDA-12: 8.2.0 openvr: 1.26.701 packaging: 25.0 packaging: 24.2 pandas: 2.3.3 ParmEd: 4.2.2 parso: 0.8.5 partd: 1.4.2 pathspec: 1.0.2 pep517: 0.13.1 pickleshare: 0.7.5 pillow: 11.3.0 pip: 25.2 pkginfo: 1.12.1.2 platformdirs: 4.5.1 platformdirs: 4.2.2 pluggy: 1.6.0 prompt_toolkit: 3.0.52 propcache: 0.4.1 psutil: 7.0.0 pure_eval: 0.2.3 py-cpuinfo: 9.0.0 pyarrow: 22.0.0 pybind11: 3.0.1 pycollada: 0.8 pycparser: 2.23 pydantic: 2.12.5 pydantic-settings: 2.12.0 pydantic_core: 2.41.5 pydicom: 2.4.4 Pygments: 2.19.2 Pygments: 2.18.0 pynmrstar: 3.3.6 pynrrd: 1.0.0 PyOpenGL: 3.1.10 PyOpenGL-accelerate: 3.1.10 pyopenxr: 1.1.4501 pyparsing: 3.2.5 pyproject_hooks: 1.2.0 PyQt6-commercial: 6.9.1 PyQt6-Qt6: 6.9.2 PyQt6-WebEngine-commercial: 6.9.0 PyQt6-WebEngine-Qt6: 6.9.2 PyQt6_sip: 13.10.2 PySDL2: 0.9.17 pysdl2-dll: 2.32.0 pyspnego: 0.12.0 pytest: 9.0.2 pytest-cov: 7.0.0 python-dateutil: 2.9.0.post0 python-dotenv: 1.2.1 python-multipart: 0.0.21 pytz: 2025.2 pywin32: 311 PyYAML: 6.0.3 pyzmq: 27.1.0 qtconsole: 5.7.0 QtPy: 2.4.3 qtshim: 1.2 RandomWords: 0.4.0 referencing: 0.37.0 requests: 2.32.5 requests-toolbelt: 1.0.0 rich: 14.2.0 roman-numerals: 4.0.0 roman-numerals-py: 4.0.0 rpds-py: 0.30.0 s3fs: 2025.12.0 s3transfer: 0.15.0 scikit-image: 0.26.0 scipy: 1.14.0 setuptools: 80.9.0 sfftk-rw: 0.8.1 six: 1.17.0 smbprotocol: 1.15.0 snowballstemmer: 3.0.1 sortedcontainers: 2.4.0 soupsieve: 2.8 Sphinx: 8.2.3 sphinx-autodoc-typehints: 3.2.0 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 sse-starlette: 3.0.4 sshfs: 2025.11.0 sspilib: 0.5.0 stack-data: 0.6.3 starfile: 0.5.13 starlette: 0.50.0 strcase: 1.0.0 superqt: 0.7.6 tables: 3.10.2 tblib: 3.2.2 tcia_utils: 1.5.1 textual: 7.0.1 tifffile: 2025.3.13 tinyarray: 1.2.5 tomli: 2.0.1 toolz: 1.1.0 tornado: 6.5.4 tqdm: 4.67.1 traitlets: 5.14.3 trimesh: 4.11.0 trove-classifiers: 2025.12.1.14 typeguard: 4.3.0 typing-inspection: 0.4.2 typing_extensions: 4.15.0 typing_extensions: 4.12.2 tzdata: 2025.3 uc-micro-py: 1.0.3 urllib3: 2.6.2 uvicorn: 0.38.0 wcwidth: 0.2.14 webcolors: 24.11.1 wheel: 0.45.1 wheel: 0.45.1 wheel-filename: 1.4.2 widgetsnbextension: 4.0.15 WMI: 1.5.1 wrapt: 1.17.3 yarl: 1.22.0 zarr: 2.18.7 zict: 3.0.0 zipp: 3.23.0 zipp: 3.19.2 File attachment: images.zip }}} [attachment:""images.zip""] " defect closed normal VR fixed gregdp@… all ChimeraX