Opened 18 months ago

Closed 18 months ago

#15018 closed defect (limitation)

Showing molecular surface: Unable to allocate 4.41 MiB for an array

Reported by: chimerax-bug-report@… Owned by: Tom Goddard
Priority: normal Milestone:
Component: Surface Version:
Keywords: Cc:
Blocked By: Blocking:
Notify when closed: Platform: all
Project: ChimeraX

Description 

The following bug report has been submitted:
Platform:        Windows-10-10.0.22631
ChimeraX Version: 1.8.dev202403260833 (2024-03-26 08:33:35 UTC)
Description
(Describe the actions that caused this problem to occur here)

Log:
UCSF ChimeraX version: 1.8.dev202403260833 (2024-03-26)  
© 2016-2024 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open C:\\\Users\\\shibi\\\Desktop\\\IBDV_GX.cif

Summary of feedback from opening C:\\\Users\\\shibi\\\Desktop\\\IBDV_GX.cif  
---  
note | PDBx/mmCIF styling lost on line 1856. Rereading mmCIF file from the beginning.  
  
IBDV_GX.cif title:  
Structure of infectious bursal disease virus Gx strain [more info...]  
  
Chain information for IBDV_GX.cif #1  
---  
Chain | Description | UniProt  
A A_10 A_11 A_12 A_13 A_14 A_15 A_16 A_17 A_18 A_19 A_2 A_20 A_21 A_22 A_23 A_24 A_25 A_26 A_27 A_28 A_29 A_3 A_30 A_31 A_32 A_33 A_34 A_35 A_36 A_37 A_38 A_39 A_4 A_40 A_41 A_42 A_43 A_44 A_45 A_46 A_47 A_48 A_49 A_5 A_50 A_51 A_52 A_53 A_54 A_55 A_56 A_57 A_58 A_59 A_6 A_60 A_7 A_8 A_9 B B_10 B_11 B_12 B_13 B_14 B_15 B_16 B_17 B_18 B_19 B_2 B_20 B_21 B_22 B_23 B_24 B_25 B_26 B_27 B_28 B_29 B_3 B_30 B_31 B_32 B_33 B_34 B_35 B_36 B_37 B_38 B_39 B_4 B_40 B_41 B_42 B_43 B_44 B_45 B_46 B_47 B_48 B_49 B_5 B_50 B_51 B_52 B_53 B_54 B_55 B_56 B_57 B_58 B_59 B_6 B_60 B_7 B_8 B_9 C C_10 C_11 C_12 C_13 C_14 C_15 C_16 C_17 C_18 C_19 C_2 C_20 C_21 C_22 C_23 C_24 C_25 C_26 C_27 C_28 C_29 C_3 C_30 C_31 C_32 C_33 C_34 C_35 C_36 C_37 C_38 C_39 C_4 C_40 C_41 C_42 C_43 C_44 C_45 C_46 C_47 C_48 C_49 C_5 C_50 C_51 C_52 C_53 C_54 C_55 C_56 C_57 C_58 C_59 C_6 C_60 C_7 C_8 C_9 D D_10 D_11 D_12 D_13 D_14 D_15 D_16 D_17 D_18 D_19 D_2 D_20 D_21 D_22 D_23 D_24 D_25 D_26 D_27 D_28 D_29 D_3 D_30 D_31 D_32 D_33 D_34 D_35 D_36 D_37 D_38 D_39 D_4 D_40 D_41 D_42 D_43 D_44 D_45 D_46 D_47 D_48 D_49 D_5 D_50 D_51 D_52 D_53 D_54 D_55 D_56 D_57 D_58 D_59 D_6 D_60 D_7 D_8 D_9 E E_10 E_11 E_12 E_13 E_14 E_15 E_16 E_17 E_18 E_19 E_2 E_20 E_21 E_22 E_23 E_24 E_25 E_26 E_27 E_28 E_29 E_3 E_30 E_31 E_32 E_33 E_34 E_35 E_36 E_37 E_38 E_39 E_4 E_40 E_41 E_42 E_43 E_44 E_45 E_46 E_47 E_48 E_49 E_5 E_50 E_51 E_52 E_53 E_54 E_55 E_56 E_57 E_58 E_59 E_6 E_60 E_7 E_8 E_9 F F_10 F_11 F_12 F_13 F_14 F_15 F_16 F_17 F_18 F_19 F_2 F_20 F_21 F_22 F_23 F_24 F_25 F_26 F_27 F_28 F_29 F_3 F_30 F_31 F_32 F_33 F_34 F_35 F_36 F_37 F_38 F_39 F_4 F_40 F_41 F_42 F_43 F_44 F_45 F_46 F_47 F_48 F_49 F_5 F_50 F_51 F_52 F_53 F_54 F_55 F_56 F_57 F_58 F_59 F_6 F_60 F_7 F_8 F_9 G G_10 G_11 G_12 G_13 G_14 G_15 G_16 G_17 G_18 G_19 G_2 G_20 G_21 G_22 G_23 G_24 G_25 G_26 G_27 G_28 G_29 G_3 G_30 G_31 G_32 G_33 G_34 G_35 G_36 G_37 G_38 G_39 G_4 G_40 G_41 G_42 G_43 G_44 G_45 G_46 G_47 G_48 G_49 G_5 G_50 G_51 G_52 G_53 G_54 G_55 G_56 G_57 G_58 G_59 G_6 G_60 G_7 G_8 G_9 H H_10 H_11 H_12 H_13 H_14 H_15 H_16 H_17 H_18 H_19 H_2 H_20 H_21 H_22 H_23 H_24 H_25 H_26 H_27 H_28 H_29 H_3 H_30 H_31 H_32 H_33 H_34 H_35 H_36 H_37 H_38 H_39 H_4 H_40 H_41 H_42 H_43 H_44 H_45 H_46 H_47 H_48 H_49 H_5 H_50 H_51 H_52 H_53 H_54 H_55 H_56 H_57 H_58 H_59 H_6 H_60 H_7 H_8 H_9 I I_10 I_11 I_12 I_13 I_14 I_15 I_16 I_17 I_18 I_19 I_2 I_20 I_21 I_22 I_23 I_24 I_25 I_26 I_27 I_28 I_29 I_3 I_30 I_31 I_32 I_33 I_34 I_35 I_36 I_37 I_38 I_39 I_4 I_40 I_41 I_42 I_43 I_44 I_45 I_46 I_47 I_48 I_49 I_5 I_50 I_51 I_52 I_53 I_54 I_55 I_56 I_57 I_58 I_59 I_6 I_60 I_7 I_8 I_9 J J_10 J_11 J_12 J_13 J_14 J_15 J_16 J_17 J_18 J_19 J_2 J_20 J_21 J_22 J_23 J_24 J_25 J_26 J_27 J_28 J_29 J_3 J_30 J_31 J_32 J_33 J_34 J_35 J_36 J_37 J_38 J_39 J_4 J_40 J_41 J_42 J_43 J_44 J_45 J_46 J_47 J_48 J_49 J_5 J_50 J_51 J_52 J_53 J_54 J_55 J_56 J_57 J_58 J_59 J_6 J_60 J_7 J_8 J_9 K K_10 K_11 K_12 K_13 K_14 K_15 K_16 K_17 K_18 K_19 K_2 K_20 K_21 K_22 K_23 K_24 K_25 K_26 K_27 K_28 K_29 K_3 K_30 K_31 K_32 K_33 K_34 K_35 K_36 K_37 K_38 K_39 K_4 K_40 K_41 K_42 K_43 K_44 K_45 K_46 K_47 K_48 K_49 K_5 K_50 K_51 K_52 K_53 K_54 K_55 K_56 K_57 K_58 K_59 K_6 K_60 K_7 K_8 K_9 L L_10 L_11 L_12 L_13 L_14 L_15 L_16 L_17 L_18 L_19 L_2 L_20 L_21 L_22 L_23 L_24 L_25 L_26 L_27 L_28 L_29 L_3 L_30 L_31 L_32 L_33 L_34 L_35 L_36 L_37 L_38 L_39 L_4 L_40 L_41 L_42 L_43 L_44 L_45 L_46 L_47 L_48 L_49 L_5 L_50 L_51 L_52 L_53 L_54 L_55 L_56 L_57 L_58 L_59 L_6 L_60 L_7 L_8 L_9 M M_10 M_11 M_12 M_13 M_14 M_15 M_16 M_17 M_18 M_19 M_2 M_20 M_21 M_22 M_23 M_24 M_25 M_26 M_27 M_28 M_29 M_3 M_30 M_31 M_32 M_33 M_34 M_35 M_36 M_37 M_38 M_39 M_4 M_40 M_41 M_42 M_43 M_44 M_45 M_46 M_47 M_48 M_49 M_5 M_50 M_51 M_52 M_53 M_54 M_55 M_56 M_57 M_58 M_59 M_6 M_60 M_7 M_8 M_9 | Structural polyprotein | Q6SZ77_IBDV 1-441  
  

> hide atoms

> show surfaces

An error occurred in drawing the scene. Redrawing graphics is now stopped to
avoid a continuous stream of error messages. To restart graphics use the
command "graphics restart" after changing the settings that caused the error.  
  
Unable to allocate 4.41 MiB for an array with shape (385222, 3) and data type
uint32  
  
Traceback (most recent call last):  
File "D:\ChiremaX\ChimeraX\bin\Lib\site-packages\chimerax\core\updateloop.py",
line 84, in draw_new_frame  
view.draw(check_for_changes = False)  
File "D:\ChiremaX\ChimeraX\bin\Lib\site-packages\chimerax\graphics\view.py",
line 188, in draw  
self._draw_scene(camera, drawings)  
File "D:\ChiremaX\ChimeraX\bin\Lib\site-packages\chimerax\graphics\view.py",
line 226, in _draw_scene  
shadow, multishadow = self._compute_shadowmaps(opaque_drawings,
transparent_drawings, camera)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "D:\ChiremaX\ChimeraX\bin\Lib\site-packages\chimerax\graphics\view.py",
line 632, in _compute_shadowmaps  
multishadow_enabled = r.multishadow.use_multishadow_map(shadow_drawings)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "D:\ChiremaX\ChimeraX\bin\Lib\site-packages\chimerax\graphics\opengl.py",
line 1647, in use_multishadow_map  
draw_depth(r, sdrawings, opaque_only = not mat.transparent_cast_shadows)  
File "D:\ChiremaX\ChimeraX\bin\Lib\site-
packages\chimerax\graphics\drawing.py", line 1579, in draw_depth  
draw_opaque(r, drawings)  
File "D:\ChiremaX\ChimeraX\bin\Lib\site-
packages\chimerax\graphics\drawing.py", line 1554, in draw_opaque  
_draw_multiple(drawings, renderer, Drawing.OPAQUE_DRAW_PASS)  
File "D:\ChiremaX\ChimeraX\bin\Lib\site-
packages\chimerax\graphics\drawing.py", line 1567, in _draw_multiple  
d.draw(renderer, draw_pass)  
File "D:\ChiremaX\ChimeraX\bin\Lib\site-
packages\chimerax\graphics\drawing.py", line 780, in draw  
self.draw_self(renderer, draw_pass)  
File "D:\ChiremaX\ChimeraX\bin\Lib\site-
packages\chimerax\graphics\drawing.py", line 787, in draw_self  
self._draw_geometry(renderer, opaque_only = any_transp)  
File "D:\ChiremaX\ChimeraX\bin\Lib\site-
packages\chimerax\graphics\drawing.py", line 814, in _draw_geometry  
ds.activate_bindings(renderer)  
File "D:\ChiremaX\ChimeraX\bin\Lib\site-
packages\chimerax\graphics\drawing.py", line 1924, in activate_bindings  
self.update_buffers()  
File "D:\ChiremaX\ChimeraX\bin\Lib\site-
packages\chimerax\graphics\drawing.py", line 1912, in update_buffers  
b.update_buffer_data(data)  
File "D:\ChiremaX\ChimeraX\bin\Lib\site-packages\chimerax\graphics\opengl.py",
line 2739, in update_buffer_data  
d = data.astype(self.value_type, order = 'C')  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
numpy.core._exceptions._ArrayMemoryError: Unable to allocate 4.41 MiB for an
array with shape (385222, 3) and data type uint32  
  




OpenGL version: 3.3.0 - Build 31.0.101.4146
OpenGL renderer: Intel(R) Iris(R) Xe Graphics
OpenGL vendor: Intel

Python: 3.11.4
Locale: zh_CN.cp936
Qt version: PyQt6 6.6.1, Qt 6.6.1
Qt runtime version: 6.6.2
Qt platform: windows

Manufacturer: HUAWEI
Model: MDG-XX
OS: Microsoft Windows 11 家庭中文版 (Build 22631)
Memory: 16,890,716,160
MaxProcessMemory: 137,438,953,344
CPU: 16 13th Gen Intel(R) Core(TM) i5-1340P
OSLanguage: zh-CN

Installed Packages:
    alabaster: 0.7.16
    appdirs: 1.4.4
    asttokens: 2.4.1
    Babel: 2.14.0
    beautifulsoup4: 4.12.3
    blockdiag: 3.0.0
    blosc2: 2.5.1
    build: 1.1.1
    certifi: 2024.2.2
    cftime: 1.6.3
    charset-normalizer: 3.3.2
    ChimeraX-AddCharge: 1.5.16
    ChimeraX-AddH: 2.2.5
    ChimeraX-AlignmentAlgorithms: 2.0.1
    ChimeraX-AlignmentHdrs: 3.4.3
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.12.5
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.1.1
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.56
    ChimeraX-AtomicLibrary: 14.0.2
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.4
    ChimeraX-BasicActions: 1.1.2
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 2.1.2
    ChimeraX-BondRot: 2.0.4
    ChimeraX-BugReporter: 1.0.1
    ChimeraX-BuildStructure: 2.12.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.2.2
    ChimeraX-ButtonPanel: 1.0.1
    ChimeraX-CageBuilder: 1.0.1
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.4
    ChimeraX-ChangeChains: 1.1
    ChimeraX-CheckWaters: 1.4
    ChimeraX-ChemGroup: 2.0.1
    ChimeraX-Clashes: 2.2.4
    ChimeraX-ColorActions: 1.0.3
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.5
    ChimeraX-CommandLine: 1.2.5
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.8.dev202403260833
    ChimeraX-CoreFormats: 1.2
    ChimeraX-coulombic: 1.4.3
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.3
    ChimeraX-Dicom: 1.2
    ChimeraX-DistMonitor: 1.4.2
    ChimeraX-DockPrep: 1.1.3
    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: 1.1.1
    ChimeraX-Hbonds: 2.4
    ChimeraX-Help: 1.2.2
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.1
    ChimeraX-ItemsInspection: 1.0.1
    ChimeraX-IUPAC: 1.0
    ChimeraX-Label: 1.1.9
    ChimeraX-ListInfo: 1.2.2
    ChimeraX-Log: 1.1.6
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.9.1
    ChimeraX-Map: 1.1.4
    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: 2.1.3
    ChimeraX-MCopy: 1.0
    ChimeraX-MDcrds: 2.7
    ChimeraX-MedicalToolbar: 1.0.2
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.14
    ChimeraX-MMTF: 2.2
    ChimeraX-Modeller: 1.5.15
    ChimeraX-ModelPanel: 1.5
    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-Neuron: 1.0
    ChimeraX-Nifti: 1.1
    ChimeraX-NMRSTAR: 1.0.2
    ChimeraX-NRRD: 1.1
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.13.3
    ChimeraX-PDB: 2.7.5
    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: 1.1.1
    ChimeraX-PubChem: 2.1
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.2
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.3
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.2
    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: 2.0.2
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0.1
    ChimeraX-Segmentations: 1.0
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.11.2
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0.1
    ChimeraX-Shortcuts: 1.1.1
    ChimeraX-ShowSequences: 1.0.3
    ChimeraX-SideView: 1.0.1
    ChimeraX-Smiles: 2.1.2
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.16.3
    ChimeraX-STL: 1.0.1
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.2
    ChimeraX-Struts: 1.0.1
    ChimeraX-Surface: 1.0.1
    ChimeraX-SwapAA: 2.0.1
    ChimeraX-SwapRes: 2.5
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-TaskManager: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.1.2
    ChimeraX-ToolshedUtils: 1.2.4
    ChimeraX-Topography: 1.0
    ChimeraX-ToQuest: 1.0
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.37.1
    ChimeraX-uniprot: 2.3
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.3.2
    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: 1.1.3
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.6
    comm: 0.2.2
    comtypes: 1.3.1
    contourpy: 1.2.0
    cxservices: 1.2.2
    cycler: 0.12.1
    Cython: 3.0.9
    debugpy: 1.8.1
    decorator: 5.1.1
    docutils: 0.20.1
    executing: 2.0.1
    filelock: 3.13.1
    fonttools: 4.50.0
    funcparserlib: 2.0.0a0
    glfw: 2.7.0
    grako: 3.16.5
    h5py: 3.10.0
    html2text: 2024.2.26
    idna: 3.6
    ihm: 0.43
    imagecodecs: 2024.1.1
    imagesize: 1.4.1
    ipykernel: 6.29.2
    ipython: 8.21.0
    ipywidgets: 8.1.2
    jedi: 0.19.1
    Jinja2: 3.1.3
    jupyter-client: 8.6.0
    jupyter-core: 5.7.2
    jupyterlab-widgets: 3.0.10
    kiwisolver: 1.4.5
    line-profiler: 4.1.2
    lxml: 5.1.0
    lz4: 4.3.3
    MarkupSafe: 2.1.5
    matplotlib: 3.8.3
    matplotlib-inline: 0.1.6
    msgpack: 1.0.8
    ndindex: 1.8
    nest-asyncio: 1.6.0
    netCDF4: 1.6.5
    networkx: 3.2.1
    nibabel: 5.0.1
    nptyping: 2.5.0
    numexpr: 2.9.0
    numpy: 1.26.4
    openvr: 1.26.701
    packaging: 24.0
    ParmEd: 4.2.2
    parso: 0.8.3
    pep517: 0.13.1
    pillow: 10.2.0
    pip: 24.0
    pkginfo: 1.10.0
    platformdirs: 4.2.0
    prompt-toolkit: 3.0.43
    psutil: 5.9.8
    pure-eval: 0.2.2
    py-cpuinfo: 9.0.0
    pycollada: 0.8
    pydicom: 2.3.0
    pygments: 2.17.2
    pynmrstar: 3.3.4
    pynrrd: 1.0.0
    PyOpenGL: 3.1.7
    PyOpenGL-accelerate: 3.1.7
    pyopenxr: 1.0.3302
    pyparsing: 3.1.2
    pyproject-hooks: 1.0.0
    PyQt6-commercial: 6.6.1
    PyQt6-Qt6: 6.6.2
    PyQt6-sip: 13.6.0
    PyQt6-WebEngine-commercial: 6.6.0
    PyQt6-WebEngine-Qt6: 6.6.2
    python-dateutil: 2.9.0.post0
    pytz: 2024.1
    pywin32: 306
    pyzmq: 25.1.2
    qtconsole: 5.5.1
    QtPy: 2.4.1
    RandomWords: 0.4.0
    requests: 2.31.0
    scipy: 1.12.0
    setuptools: 69.2.0
    sfftk-rw: 0.8.1
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    soupsieve: 2.5
    sphinx: 7.2.6
    sphinx-autodoc-typehints: 2.0.0
    sphinxcontrib-applehelp: 1.0.8
    sphinxcontrib-blockdiag: 3.0.0
    sphinxcontrib-devhelp: 1.0.6
    sphinxcontrib-htmlhelp: 2.0.5
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 1.0.7
    sphinxcontrib-serializinghtml: 1.1.10
    stack-data: 0.6.3
    superqt: 0.6.1
    tables: 3.9.2
    tcia-utils: 1.5.1
    tifffile: 2024.1.30
    tinyarray: 1.2.4
    tornado: 6.4
    traitlets: 5.14.1
    typing-extensions: 4.10.0
    tzdata: 2024.1
    urllib3: 2.2.1
    wcwidth: 0.2.13
    webcolors: 1.13
    wheel: 0.43.0
    wheel-filename: 1.4.1
    widgetsnbextension: 4.0.10
    WMI: 1.5.1

Change History (2)

comment:1 by Eric Pettersen, 18 months ago

Component: Unassigned → Surface
Owner: set to Tom Goddard
Platform: → all
Project: → ChimeraX
Status: new → assigned
Summary: ChimeraX bug report submission → ArrayMemoryError showing surface

comment:2 by Tom Goddard, 18 months ago

Resolution: → limitation
Status: assigned → closed
Summary: ArrayMemoryError showing surface → Showing molecular surface: Unable to allocate 4.41 MiB for an array

User opened an mmCIF file of a virus with 780 chains then tried to make a molecular surface and it ran out of memory eventually failing unable to allocate 4 Mbytes.

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