The following bug report has been submitted:
Platform: macOS-15.5-arm64-arm-64bit
ChimeraX Version: 1.11.dev202506032146 (2025-06-03 21:46:01 UTC)
Description
qscore #2 toVolume #1 useGui false pointsPerShell 8 shellRadiusStep 0.100 maxShellRadius 2.00 referenceGaussianSigma 0.60 logDetails false outputFile ~/Desktop/q_score.txt
used the above command on the attached data
Log:
> open /Users/meng/Desktop/startup.cxc
> alias reset view orient; view initial
> alias start tool show $1
> alias whereprefs info path user unversioned config
> alias captut open help:user/tutorials/binding-sites.html#cap-example
> alias previewts toolshed url https://cxtoolshed-
> preview.rbvi.ucsf.edu;toolshed reload available
> alias normalts toolshed url https://cxtoolshed.rbvi.ucsf.edu;toolshed reload
> available
> alias btut open
> https://www.cgl.ucsf.edu/home/meng/chimerax/vdocs/user/tutorials/binding-
> sites.html; ui dockable false "Help Viewer"
> alias stut open https://www.rbvi.ucsf.edu/chimerax/data/conservation-
> coloring/conservation-coloring.html; ui dockable false "Help Viewer"
> alias ltut open https://www.rbvi.ucsf.edu/chimerax/data/loop-modeling/loop-
> modeling.html; ui dockable false "Help Viewer"
> alias mtut open https://www.rbvi.ucsf.edu/chimerax/data/mole-channel/mole-
> channel.html; ui dockable false "Help Viewer"; windowsize 600 800
executed startup.cxc
UCSF ChimeraX version: 1.11.dev202506032146 (2025-06-03)
© 2016-2025 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> toolshed show
Downloading bundle ChimeraX_QScore-1.2-cp311-cp311-macosx_10_13_universal2.whl
Installed ChimeraX-QScore (1.2)
> help qscore
> open /Users/meng/Desktop/*filt90* format fasta
Summary of feedback from opening /Users/meng/Desktop/redoxin-filt90.fasta
---
notes | Alignment identifier is redoxin-filt90.fasta
Showing conservation header ("seq_conservation" residue attribute) for
alignment redoxin-filt90.fasta
Opened 1032 sequences from redoxin-filt90.fasta
> open 4427*
Summary of feedback from opening 4427_6i7o_AY_fitted.cif
---
warnings | Invalid residue range for struct_conf "HELX7": residue in non-polymer entity "19", on line 29046
Atom OP1 has no neighbors to form bonds with according to residue template for
C /BQ1:824
Atom O2' has no neighbors to form bonds with according to residue template for
U /BQ1:825
Atom O3' has no neighbors to form bonds with according to residue template for
A /BQ1:837
Atom O2' has no neighbors to form bonds with according to residue template for
A /BQ1:837
Atom C2 has no neighbors to form bonds with according to residue template for
A /BQ1:837
Atom OP2 has no neighbors to form bonds with according to residue template for
U /BQ1:850
Atom O2' has no neighbors to form bonds with according to residue template for
U /BQ1:1533
Atom C1' has no neighbors to form bonds with according to residue template for
U /BQ1:1533
Atom N7 has no neighbors to form bonds with according to residue template for
G /BQ1:1640
Atom O2' has no neighbors to form bonds with according to residue template for
G /BQ1:1646
Atom OP2 has no neighbors to form bonds with according to residue template for
A /BQ1:1647
Atom O5' has no neighbors to form bonds with according to residue template for
A /BQ1:1647
Atom OP2 has no neighbors to form bonds with according to residue template for
U /BQ1:1659
Atom OP1 has no neighbors to form bonds with according to residue template for
A /BQ1:1704
Atom O4' has no neighbors to form bonds with according to residue template for
A /BQ1:1810
Atom N2 has no neighbors to form bonds with according to residue template for
G /BQ1:1948
Atom C5' has no neighbors to form bonds with according to residue template for
G /BQ1:1952
Atom O2' has no neighbors to form bonds with according to residue template for
U /BQ1:2175
Atom O2 has no neighbors to form bonds with according to residue template for
U /BQ1:2175
Atom C8 has no neighbors to form bonds with according to residue template for
A /BQ1:2535
Atom O5' has no neighbors to form bonds with according to residue template for
A /BQ1:2562
Atom N3 has no neighbors to form bonds with according to residue template for
A /BQ1:2562
Atom O3' has no neighbors to form bonds with according to residue template for
G /BQ1:2563
Atom O2' has no neighbors to form bonds with according to residue template for
G /BQ1:2563
Atom N has no neighbors to form bonds with according to residue template for
LYS /AW1:28
Atom NH2 has no neighbors to form bonds with according to residue template for
ARG /AW1:128
Atom O has no neighbors to form bonds with according to residue template for
ARG /AW1:149
Atom N has no neighbors to form bonds with according to residue template for
ASP /AW1:176
Atom OE1 has no neighbors to form bonds with according to residue template for
GLN /AW1:250
Atom N has no neighbors to form bonds with according to residue template for
LYS /AW1:251
Atom NZ has no neighbors to form bonds with according to residue template for
LYS /AA1:32
Atom N has no neighbors to form bonds with according to residue template for
VAL /AA1:40
Atom OP2 has no neighbors to form bonds with according to residue template for
U /21:632
Atom O3' has no neighbors to form bonds with according to residue template for
U /21:805
Atom O2' has no neighbors to form bonds with according to residue template for
U /21:805
Atom O3' has no neighbors to form bonds with according to residue template for
A /21:811
Atom O2' has no neighbors to form bonds with according to residue template for
A /21:811
Atom O2' has no neighbors to form bonds with according to residue template for
U /21:864
Atom OP2 has no neighbors to form bonds with according to residue template for
G /21:957
Atom C8 has no neighbors to form bonds with according to residue template for
A /21:1020
Atom O2' has no neighbors to form bonds with according to residue template for
G /21:1035
Atom C5' has no neighbors to form bonds with according to residue template for
G /21:1048
Atom O3' has no neighbors to form bonds with according to residue template for
G /21:1101
Atom OP1 has no neighbors to form bonds with according to residue template for
G /21:1788
Atom O3' has no neighbors to form bonds with according to residue template for
G /21:1788
Atom CD2 has no neighbors to form bonds with according to residue template for
HIS /Q1:160
Atom O has no neighbors to form bonds with according to residue template for
LEU /Q1:184
Atom CG1 has no neighbors to form bonds with according to residue template for
ILE /Q1:193
Atom CG2 has no neighbors to form bonds with according to residue template for
ILE /Q1:193
Atom O has no neighbors to form bonds with according to residue template for
ALA /Q1:200
Atom CB has no neighbors to form bonds with according to residue template for
ALA /Q1:200
Atom O has no neighbors to form bonds with according to residue template for
LYS /Q1:216
Atom OE1 has no neighbors to form bonds with according to residue template for
GLU /U1:33
Atom OE2 has no neighbors to form bonds with according to residue template for
GLU /U1:33
Atom CG has no neighbors to form bonds with according to residue template for
ARG /U1:114
Atom O has no neighbors to form bonds with according to residue template for
THR /X1:6
Atom N has no neighbors to form bonds with according to residue template for
ILE /X1:122
Atom NH1 has no neighbors to form bonds with according to residue template for
ARG /Z1:127
Atom N has no neighbors to form bonds with according to residue template for
LYS /Z1:128
Atom O has no neighbors to form bonds with according to residue template for
LYS /Z1:128
Atom N has no neighbors to form bonds with according to residue template for
VAL /b1:6
Atom N has no neighbors to form bonds with according to residue template for
VAL /b1:33
Atom OD1 has no neighbors to form bonds with according to residue template for
ASP /b1:54
Atom OD2 has no neighbors to form bonds with according to residue template for
ASP /b1:54
Atom OD1 has no neighbors to form bonds with according to residue template for
ASP /b1:55
Atom CD1 has no neighbors to form bonds with according to residue template for
LEU /f1:21
Atom CD2 has no neighbors to form bonds with according to residue template for
LEU /f1:21
Atom CD1 has no neighbors to form bonds with according to residue template for
TYR /f1:31
Atom O has no neighbors to form bonds with according to residue template for
ILE /BF1:96
Atom CG2 has no neighbors to form bonds with according to residue template for
ILE /BF1:96
Atom N has no neighbors to form bonds with according to residue template for
ARG /BF1:162
Atom C has no neighbors to form bonds with according to residue template for
ARG /BF1:162
Atom N has no neighbors to form bonds with according to residue template for
LYS /AN1:60
Atom CE has no neighbors to form bonds with according to residue template for
LYS /AN1:111
Atom N has no neighbors to form bonds with according to residue template for
SER /BN1:55
Atom O has no neighbors to form bonds with according to residue template for
SER /BN1:55
Atom OP1 has no neighbors to form bonds with according to residue template for
C /2b1:644
Atom O4' has no neighbors to form bonds with according to residue template for
G /2b1:647
Atom OP1 has no neighbors to form bonds with according to residue template for
C /2b1:691
Atom O2 has no neighbors to form bonds with according to residue template for
C /2b1:691
Atom O2' has no neighbors to form bonds with according to residue template for
C /2b1:692
Atom OE2 has no neighbors to form bonds with according to residue template for
GLU /Wb1:64
Atom CD1 has no neighbors to form bonds with according to residue template for
LEU /Wb1:70
Atom CD2 has no neighbors to form bonds with according to residue template for
LEU /Wb1:70
Opened 4427_6i7o_AY.mrc as #1, grid size 80,80,80, pixel 1, shown at level
0.0854, step 1, values float32
Chain information for 4427_6i7o_AY_fitted.cif #2
---
Chain | Description
21 2b1 | No description available
AA1 | No description available
AN1 | No description available
AT1 | No description available
AW1 | No description available
AY1 | No description available
BF1 | No description available
BN1 | No description available
BQ1 | No description available
Q1 | No description available
U1 | No description available
Wb1 | No description available
X1 | No description available
Y1 | No description available
Z1 | No description available
b1 | No description available
e1 | No description available
f1 | No description available
> qscore #2 toVolume #1 useGui false pointsPerShell 8 shellRadiusStep 0.100
> maxShellRadius 2.00 referenceGaussianSigma 0.60 logDetails false outputFile
> ~/Desktop/q_score.txt
WARNING: the following residues in #2 have atoms outside the bounds of volume
#1 and will be excluded from the Q-score calculation:
/21:624-625,629-632,638-808,811-812,814-859,864,876,886-923,929-937,944,956,969,972-973,976-985,989-1016,1019-1032,1035,1047-1789/2b1:647,650-652,655,680,684-714/AA1:32-33,39-40/AN1:54,58,60-61,64,67,99-101,111,115-116/AT1:28-31/AW1:19-20,26-30,69,72,74,91-93,107,109,115-126,128,134-135,137-150,152-164,174-191,193-251/BF1:96,129,131-137,161-162/BN1:15,19,38-39,55-56,59-62,71/BQ1:824-825,837-845,847-1590,1592-1635,1640-1650,1658-1662,1664-1704,1722,1737-1738,1741-1784,1789-1794,1796,1799-1801,1809-1950,1952,2095,2097-2175,2177-2178,2180-2549,2558-2564/Q1:121-122,128,130-135,139-157,160-161,164,184-204,214-215,218/U1-V1/Wb1:64,66-70/X1:4-6,74,76-116,122-144/Y1:11,18/Z1:122,127-128/b1:3,5-29,31,33-54,59-77,125-126/e1:15,19-22/f1:28-31,72,80
Traceback (most recent call last):
File
"/Users/meng/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/cmd_line/tool.py", line 322, in execute
cmd.run(cmd_text)
File
"/Users/meng/Desktop/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/cli.py", line 3219, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/Users/meng/Library/Application Support/ChimeraX/1.11/lib/python/site-
packages/chimerax/qscore/cmd.py", line 40, in qscore
residue_map, (query_atoms, atom_scores) = q_score(residues, to_volume,
ref_sigma=reference_gaussian_sigma,
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/Users/meng/Library/Application Support/ChimeraX/1.11/lib/python/site-
packages/chimerax/qscore/qscore.py", line 256, in q_score
report_results(residue_scores, query_atoms, q_scores, oob_residues,
log=log_details, filename=output_file)
File "/Users/meng/Library/Application Support/ChimeraX/1.11/lib/python/site-
packages/chimerax/qscore/qscore.py", line 287, in report_results
qavg, qworst = scores
^^^^^^^^^^^^
TypeError: cannot unpack non-iterable NoneType object
TypeError: cannot unpack non-iterable NoneType object
File "/Users/meng/Library/Application Support/ChimeraX/1.11/lib/python/site-
packages/chimerax/qscore/qscore.py", line 287, in report_results
qavg, qworst = scores
^^^^^^^^^^^^
See log for complete Python traceback.
OpenGL version: 4.1 Metal - 89.4
OpenGL renderer: Apple M1 Pro
OpenGL vendor: Apple
Python: 3.11.4
Locale: en_US.UTF-8
Qt version: PyQt6 6.8.1, Qt 6.8.2
Qt runtime version: 6.8.2
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: MacBookPro18,1
Model Number: MK1F3LL/A
Chip: Apple M1 Pro
Total Number of Cores: 10 (8 performance and 2 efficiency)
Memory: 16 GB
System Firmware Version: 11881.121.1
OS Loader Version: 11881.121.1
Software:
System Software Overview:
System Version: macOS 15.5 (24F74)
Kernel Version: Darwin 24.5.0
Time since boot: 5 hours, 16 minutes
Graphics/Displays:
Apple M1 Pro:
Chipset Model: Apple M1 Pro
Type: GPU
Bus: Built-In
Total Number of Cores: 16
Vendor: Apple (0x106b)
Metal Support: Metal 3
Displays:
Color LCD:
Display Type: Built-in Liquid Retina XDR Display
Resolution: 3456 x 2234 Retina
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
Installed Packages:
alabaster: 1.0.0
appdirs: 1.4.4
appnope: 0.1.4
asttokens: 3.0.0
auditwheel: 6.4.0
babel: 2.17.0
beautifulsoup4: 4.13.3
blockdiag: 3.0.0
blosc2: 3.3.4
build: 1.2.2.post1
certifi: 2023.11.17
cftime: 1.6.4.post1
charset-normalizer: 3.4.2
ChimeraX-AddCharge: 1.5.18
ChimeraX-AddH: 2.2.7
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.6.1
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.20.1
ChimeraX-AlphaFold: 1.0.1
ChimeraX-AltlocExplorer: 1.1.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Aniso: 1.3.1
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.60.8
ChimeraX-AtomicLibrary: 14.1.18
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: 1.0
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.2
ChimeraX-BuildStructure: 2.13.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.5.1
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-Core: 1.11.dev202506032146
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-Geometry: 1.3
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.4.1
ChimeraX-Hbonds: 2.5.1
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
ChimeraX-Label: 1.1.14
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.2
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.1
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: 2.2.1
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.11
ChimeraX-MedicalToolbar: 1.1
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.16
ChimeraX-MMTF: 2.2
ChimeraX-ModelArchive: 1.0
ChimeraX-Modeller: 1.5.19
ChimeraX-ModelPanel: 1.5.1
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
ChimeraX-OrthoPick: 1.0.1
ChimeraX-PDB: 2.7.10
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: 1.1.3
ChimeraX-ProfileGrids: 1.1.3
ChimeraX-PubChem: 2.2
ChimeraX-QScore: 1.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.6.3
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.3.1
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: 2.0.3
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-Segmentations: 3.5.7
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.17.1
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: 1.46
ChimeraX-Umap: 1.0
ChimeraX-uniprot: 2.3.1
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.4.4
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
colorama: 0.4.6
comm: 0.2.2
contourpy: 1.3.2
coverage: 7.8.2
cxservices: 1.2.3
cycler: 0.12.1
Cython: 3.0.12
debugpy: 1.8.14
decorator: 5.2.1
docutils: 0.21.2
executing: 2.2.0
filelock: 3.18.0
fonttools: 4.58.1
funcparserlib: 2.0.0a0
glfw: 2.9.0
grako: 3.16.5
h5py: 3.13.0
html2text: 2024.2.26
idna: 3.10
ihm: 2.2
imagecodecs: 2024.6.1
imagesize: 1.4.1
iniconfig: 2.1.0
ipykernel: 6.29.5
ipython: 8.26.0
ipywidgets: 8.1.7
jedi: 0.19.1
Jinja2: 3.1.6
joblib: 1.5.0
jupyter_client: 8.6.3
jupyter_core: 5.8.1
jupyterlab_widgets: 3.0.15
kiwisolver: 1.4.8
line_profiler: 4.2.0
llvmlite: 0.44.0
lxml: 5.3.1
lz4: 4.4.4
MarkupSafe: 3.0.2
matplotlib: 3.10.1
matplotlib-inline: 0.1.7
msgpack: 1.1.0
narwhals: 1.39.0
ndindex: 1.10.0
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numba: 0.61.2
numexpr: 2.10.2
numpy: 2.2.5
numpy: 1.26.4
OpenMM: 8.2.0
openvr: 1.26.701
packaging: 24.2
ParmEd: 4.2.2
parso: 0.8.4
pep517: 0.13.1
pexpect: 4.9.0
pickleshare: 0.7.5
pillow: 10.4.0
pip: 25.0.1
pkginfo: 1.11.1
platformdirs: 4.3.8
plotly: 6.0.1
pluggy: 1.6.0
prompt_toolkit: 3.0.51
psutil: 7.0.0
ptyprocess: 0.7.0
pure_eval: 0.2.3
py-cpuinfo: 9.0.0
pycollada: 0.8
pydicom: 2.4.4
pyelftools: 0.32
Pygments: 2.18.0
pyKVFinder: 0.8.0
pynmrstar: 3.3.5
pynndescent: 0.5.13
pynrrd: 1.0.0
PyOpenGL: 3.1.9
PyOpenGL-accelerate: 3.1.9
pyopenxr: 1.1.4501
pyparsing: 3.2.3
pyproject_hooks: 1.2.0
PyQt6-commercial: 6.8.1
PyQt6-Qt6: 6.8.2
PyQt6-WebEngine-commercial: 6.8.0
PyQt6-WebEngine-Qt6: 6.8.2
PyQt6_sip: 13.10.0
pytest: 8.4.0
pytest-cov: 6.1.1
python-dateutil: 2.9.0.post0
pytz: 2025.2
pyzmq: 26.4.0
qtconsole: 5.5.2
QtPy: 2.4.3
qtshim: 1.1
RandomWords: 0.4.0
requests: 2.32.3
roman-numerals-py: 3.1.0
scikit-learn: 1.6.1
scipy: 1.14.0
setuptools: 78.1.0
sfftk-rw: 0.8.1
six: 1.16.0
snowballstemmer: 3.0.1
sortedcontainers: 2.4.0
soupsieve: 2.7
Sphinx: 8.2.3
sphinx-autodoc-typehints: 3.1.0
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
stack-data: 0.6.3
superqt: 0.7.1
tables: 3.10.2
tcia_utils: 1.5.1
threadpoolctl: 3.6.0
tifffile: 2025.3.13
tinyarray: 1.2.4
tomlkit: 0.13.2
tornado: 6.5.1
tqdm: 4.67.1
traitlets: 5.14.3
typing_extensions: 4.14.0
tzdata: 2025.2
umap-learn: 0.5.7
urllib3: 2.4.0
wcwidth: 0.2.13
webcolors: 24.11.1
wheel: 0.45.1
wheel-filename: 1.4.2
widgetsnbextension: 4.0.14
File attachment: 4427_6i7o_AY.mrc
4427_6i7o_AY.mrc
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