Opened 7 hours ago

#20767 new defect

sel <named selection> selects all atoms in chain B

Reported by: mohammad.alhossary@… Owned by:
Priority: normal Milestone:
Component: Unassigned Version:
Keywords: Cc:
Blocked By: Blocking:
Notify when closed: Platform:
Project:

Description

Description:

select :1-5
name test sel
select clear
select test

The above code SHOULD select the first 5 residues, but instead it selects
the entirety of chain B


Attached is the ChimeraX Log


Platform:


Windows-10-10.0.26200


ChimeraX Version:


1.12 (2026-06-12 03:42:34 UTC)


Gathered information:


OpenGL version: 3.3.0 - Build 31.0.101.2135

OpenGL renderer: Intel(R) UHD Graphics 620

OpenGL vendor: Intel


Python: 3.11.9

Locale: en_US.cp65001

Qt version: PyQt6 6.10.2, Qt 6.10.0

Qt runtime version: 6.10.2

Qt platform: windows


Manufacturer: Dell Inc.

Model: Latitude 5400

OS: Microsoft Windows 11 Pro (Build 26200.8737)

Memory: 16,985,047,040

MaxProcessMemory: 137,438,953,344

CPU: 8 Intel(R) Core(TM) i5-8365U CPU @ 1.60GHz

OSLanguage: en-US


Installed Packages:

accessible-pygments: 0.0.5

aiohappyeyeballs: 2.6.2

aiohttp: 3.13.4

aiosignal: 1.4.0

alabaster: 1.0.0

annotated-types: 0.7.0

anyio: 4.13.0

appdirs: 1.4.4

asttokens: 3.0.1

attrs: 26.1.0

babel: 2.18.0

beautifulsoup4: 4.13.5

blockdiag: 3.0.0

blosc2: 4.4.3

bs4: 0.0.2

build: 1.3.0

certifi: 2026.5.20

cftime: 1.6.5

charset-normalizer: 3.4.7

ChimeraX-AddCharge: 1.5.20

ChimeraX-AddH: 2.2.8

ChimeraX-AlignmentAlgorithms: 2.0.2

ChimeraX-AlignmentHdrs: 3.6.2

ChimeraX-AlignmentMatrices: 2.1

ChimeraX-Alignments: 3.2

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-Atomic: 1.67.1

ChimeraX-AtomicLibrary: 14.4

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: 1.4.1

ChimeraX-ChangeChains: 1.1

ChimeraX-CheckWaters: 1.5

ChimeraX-ChemGroup: 2.0.2

ChimeraX-Clashes: 2.4

ChimeraX-Cluster: 1.0

ChimeraX-ColorActions: 1.0.5

ChimeraX-ColorGlobe: 1.0

ChimeraX-ColorKey: 1.5.8

ChimeraX-CommandLine: 1.3.1

ChimeraX-ConnectStructure: 2.0.1

ChimeraX-Contacts: 1.0.1

ChimeraX-Core: 1.12

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: 1.2.2

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: 1.4.1

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: 1.8.2

ChimeraX-Label: 1.5

ChimeraX-LightingGUI: 1.0

ChimeraX-ListInfo: 1.3.1

ChimeraX-Log: 1.2.2

ChimeraX-LookingGlass: 1.1

ChimeraX-Maestro: 1.9.3

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-MatchAlign: 1.2

ChimeraX-MatchMaker: 2.4.1

ChimeraX-MCopy: 1.0

ChimeraX-MCPServer: 0.2.0

ChimeraX-MDcrds: 2.19

ChimeraX-MedicalToolbar: 1.1

ChimeraX-Meeting: 1.0.1

ChimeraX-Minimize: 1.3.9

ChimeraX-MLP: 1.1.1

ChimeraX-mmCIF: 2.16

ChimeraX-MMTF: 2.2

ChimeraX-ModelArchive: 1.0

ChimeraX-Modeller: 1.5.23

ChimeraX-ModelPanel: 1.6.1

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: 1.0.1

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-OpenCommand: 1.15.4

ChimeraX-OpenFold: 1.0

ChimeraX-OrthoPick: 1.0.1

ChimeraX-PDB: 2.7.13

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: 1.6

ChimeraX-PubChem: 2.2

ChimeraX-ReadPbonds: 1.0.1

ChimeraX-Registration: 1.1.2

ChimeraX-RemoteControl: 1.0

ChimeraX-RenderByAttr: 1.8.2

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: 3.5.12

ChimeraX-SelInspector: 1.0

ChimeraX-SeqView: 2.18

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-SNFG: 1.0

ChimeraX-SpaceNavigator: 1.0

ChimeraX-StdCommands: 1.19.3

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: 2.5.3

ChimeraX-TapeMeasure: 1.0

ChimeraX-TaskManager: 1.0

ChimeraX-Test: 1.0

ChimeraX-Toolbar: 1.2.4

ChimeraX-ToolshedUtils: 1.2.4

ChimeraX-Topography: 1.0

ChimeraX-ToQuest: 1.0

ChimeraX-Tug: 1.0.1

ChimeraX-UI: 1.50.8

ChimeraX-Umap: 1.0

ChimeraX-uniprot: 2.3.2

ChimeraX-UnitCell: 1.0.1

ChimeraX-ViewDock: 1.6.2

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: 8.4.1

colorama: 0.4.6

comm: 0.2.3

comtypes: 1.4.11

contourpy: 1.3.3

coverage: 7.14.1

cxservices: 1.2.3

cycler: 0.12.1

Cython: 3.2.4

debugpy: 1.8.21

decorator: 5.3.1

docutils: 0.21.2

executing: 2.2.1

filelock: 3.19.1

fonttools: 4.63.0

frozenlist: 1.8.0

funcparserlib: 2.0.0a0

glfw: 2.10.0

grako: 3.16.5

h11: 0.16.0

h5py: 3.16.0

html2text: 2025.4.15

httpcore: 1.0.9

httpx: 0.28.1

httpx-sse: 0.4.3

idna: 3.18

ihm: 2.2

imagecodecs: 2024.6.1

imagesize: 2.0.0

iniconfig: 2.3.0

ipykernel: 7.1.0

ipython: 9.9.0

ipython_pygments_lexers: 1.1.1

jedi: 0.19.2

Jinja2: 3.1.6

jsonschema: 4.26.0

jsonschema-specifications: 2025.9.1

jupyter_client: 8.8.0

jupyter_core: 5.9.1

kiwisolver: 1.5.0

line_profiler: 5.0.0

lxml: 6.0.2

lz4: 4.3.2

Markdown: 3.8.2

MarkupSafe: 3.0.3

matplotlib: 3.10.7

matplotlib-inline: 0.2.2

mcp: 1.18.0

msgpack: 1.1.1

multidict: 6.7.1

narwhals: 2.22.1

ndindex: 1.10.1

nest-asyncio: 1.6.0

netCDF4: 1.6.5

networkx: 3.3

nibabel: 5.2.0

nptyping: 2.5.0

numexpr: 2.14.1

numpy: 1.26.4

nvidia-nvjitlink-cu12: 12.9.86

OpenMM: 8.4.0

OpenMM-CUDA-12: 8.4.0

openvr: 1.26.701

packaging: 25.0

ParmEd: 4.2.2

parso: 0.8.7

pep517: 0.13.1

pickleshare: 0.7.5

pillow: 11.3.0

pip: 25.2

pkginfo: 1.12.1.2

platformdirs: 4.10.0

plotly: 6.8.0

pluggy: 1.6.0

prompt_toolkit: 3.0.52

propcache: 0.5.2

psutil: 7.0.0

pure_eval: 0.2.3

py-cpuinfo: 9.0.0

pybind11: 3.0.1

pycollada: 0.8

pydantic: 2.13.4

pydantic-settings: 2.14.1

pydantic_core: 2.46.4

pydata-sphinx-theme: 0.18.0

pydicom: 2.4.4

Pygments: 2.18.0

pynmrstar: 3.5.1

pynrrd: 1.0.0

PyOpenGL: 3.1.10

PyOpenGL-accelerate: 3.1.10

pyopenxr: 1.1.4501

pyparsing: 3.3.2

pyproject_hooks: 1.2.0

PyQt6-commercial: 6.10.2

PyQt6-Qt6: 6.10.2

PyQt6-WebEngine-commercial: 6.10.0

PyQt6-WebEngine-Qt6: 6.10.2

PyQt6_sip: 13.10.3

pytest: 9.0.3

pytest-cov: 7.1.0

python-dateutil: 2.9.0.post0

python-dotenv: 1.2.2

python-multipart: 0.0.32

pywin32: 311

pyzmq: 27.1.0

qtconsole: 5.7.0

QtPy: 2.4.3

qtshim: 1.2.2

RandomWords: 0.4.0

referencing: 0.37.0

requests: 2.32.5

roman-numerals: 4.1.0

rpds-py: 2026.5.1

scipy: 1.14.0

setuptools: 80.9.0

sfftk-rw: 0.8.1

six: 1.17.0

snowballstemmer: 3.1.1

sortedcontainers: 2.4.0

soupsieve: 2.8.4

Sphinx: 9.0.4

sphinx-autodoc-typehints: 3.6.1

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: 3.4.4

stack-data: 0.6.3

starlette: 1.3.0

superqt: 0.7.6

tables: 3.10.2

tcia_utils: 3.2.1

threadpoolctl: 3.6.0

tifffile: 2025.3.13

tinyarray: 1.2.5

tornado: 6.5.7

tqdm: 4.68.2

traitlets: 5.14.3

typing-inspection: 0.4.2

typing_extensions: 4.15.0

tzdata: 2026.2

Unidecode: 1.4.0

urllib3: 2.7.0

uvicorn: 0.49.0

wcwidth: 0.8.1

webcolors: 24.11.1

wheel: 0.45.1

wheel-filename: 1.4.2

WMI: 1.5.1

yarl: 1.24.2

log.txt

wFAP0.pdb

Attachments (2)

log.txt (272.1 KB ) - added by mohammad.alhossary@… 7 hours ago.
Added by email2trac
wFAP0.pdb (238.8 KB ) - added by mohammad.alhossary@… 7 hours ago.
Added by email2trac

Download all attachments as: .zip

Change History (2)

by mohammad.alhossary@…, 7 hours ago

Attachment: log.txt added

Added by email2trac

by mohammad.alhossary@…, 7 hours ago

Attachment: wFAP0.pdb added

Added by email2trac

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