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Opened 7 weeks ago
Closed 6 weeks ago
#18863 closed defect (fixed)
Number_Entry widget: could not convert string to float: ''
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | General Controls | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: Linux-6.8.0-79-generic-x86_64-with-glibc2.35
ChimeraX Version: 1.9 (2024-12-11 19:11:19 UTC)
Description
Replace this text with list of actions that caused this problem to occur
Log:
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.9 (2024-12-11)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open
> /home/anshu/Documents/A_SXT_Analysis/A_codes/A_Analysis/GroundTruthResults/Cytomask/Cytomasks783_5_0.mrc
Summary of feedback from opening
/home/anshu/Documents/A_SXT_Analysis/A_codes/A_Analysis/GroundTruthResults/Cytomask/Cytomasks783_5_0.mrc
---
note | /home/anshu/Documents/A_SXT_Analysis/A_codes/A_Analysis/GroundTruthResults/Cytomask/Cytomasks783_5_0.mrc: invalid cell angles 0,0,0 must be between 0 and 180.
Opened Cytomasks783_5_0.mrc as #1, grid size 465,487,465, pixel 1, shown at
level 1, step 2, values float32
> set bgColor white
> set bgColor #ffffff00
> view orient
[Repeated 1 time(s)]
> volume #1 level 0.9928
> volume #1 step 1
> view orient
> open
> /home/anshu/Documents/A_SXT_Analysis/A_codes/A_Analysis/GroundTruthResults/NucMask/NUCMASK_783_5_0.mrc
Summary of feedback from opening
/home/anshu/Documents/A_SXT_Analysis/A_codes/A_Analysis/GroundTruthResults/NucMask/NUCMASK_783_5_0.mrc
---
note | /home/anshu/Documents/A_SXT_Analysis/A_codes/A_Analysis/GroundTruthResults/NucMask/NUCMASK_783_5_0.mrc: invalid cell angles 0,0,0 must be between 0 and 180.
Opened NUCMASK_783_5_0.mrc as #2, grid size 465,487,465, pixel 1, shown at
level 1, step 2, values float32
> volume #2 step 1
> volume #2 level 0.9946
> open
> /home/anshu/Documents/A_SXT_Analysis/A_codes/A_Analysis/DistCell_analysis/Mito_masks/mito_783_5.mrc
Opened mito_783_5.mrc as #3, grid size 465,487,465, pixel 1, shown at level
5e-05, step 2, values float32
> color #1 #ffffff00 models
> lighting soft
> graphics silhouettes true
> color #2 #aaaaaaff models
> color #3 #bf4040ff models
> color #3 #e0e0e0ff models
> volume #1,2,3 voxelSize 0.036817496,0.036817496,0.036817496
> view orient
> scalebar 1 xpos 0.5
> ui tool show "Scale Bar"
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax/lib/python3.11/site-
packages/chimerax/label/scalebar_gui.py", line 65, in _update_scalebar
self._show_scalebar()
File "/usr/lib/ucsf-chimerax/lib/python3.11/site-
packages/chimerax/label/scalebar_gui.py", line 70, in _show_scalebar
options = self._changed_options()
^^^^^^^^^^^^^^^^^^^^^^^
File "/usr/lib/ucsf-chimerax/lib/python3.11/site-
packages/chimerax/label/scalebar_gui.py", line 90, in _changed_options
length = self._length.value
^^^^^^^^^^^^^^^^^^
File "/usr/lib/ucsf-chimerax/lib/python3.11/site-
packages/chimerax/ui/widgets/composite.py", line 185, in _get_value
return self.string_to_value(self._line_edit.text())
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
ValueError: could not convert string to float: ''
ValueError: could not convert string to float: ''
File "/usr/lib/ucsf-chimerax/lib/python3.11/site-
packages/chimerax/ui/widgets/composite.py", line 185, in _get_value
return self.string_to_value(self._line_edit.text())
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax/lib/python3.11/site-
packages/chimerax/label/scalebar_gui.py", line 65, in _update_scalebar
self._show_scalebar()
File "/usr/lib/ucsf-chimerax/lib/python3.11/site-
packages/chimerax/label/scalebar_gui.py", line 70, in _show_scalebar
options = self._changed_options()
^^^^^^^^^^^^^^^^^^^^^^^
File "/usr/lib/ucsf-chimerax/lib/python3.11/site-
packages/chimerax/label/scalebar_gui.py", line 90, in _changed_options
length = self._length.value
^^^^^^^^^^^^^^^^^^
File "/usr/lib/ucsf-chimerax/lib/python3.11/site-
packages/chimerax/ui/widgets/composite.py", line 185, in _get_value
return self.string_to_value(self._line_edit.text())
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
ValueError: could not convert string to float: ''
ValueError: could not convert string to float: ''
File "/usr/lib/ucsf-chimerax/lib/python3.11/site-
packages/chimerax/ui/widgets/composite.py", line 185, in _get_value
return self.string_to_value(self._line_edit.text())
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
See log for complete Python traceback.
OpenGL version: 3.3.0 NVIDIA 550.54.14
OpenGL renderer: NVIDIA GeForce RTX 4070/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Python: 3.11.4
Locale: en_IN.ISO8859-1
Qt version: PyQt6 6.7.1, Qt 6.7.1
Qt runtime version: 6.7.3
Qt platform: xcb
XDG_SESSION_TYPE=x11
DESKTOP_SESSION=ubuntu
XDG_SESSION_DESKTOP=ubuntu
XDG_CURRENT_DESKTOP=ubuntu:GNOME
DISPLAY=:1
Manufacturer: Dell Inc.
Model: Precision 5820 Tower
OS: Ubuntu 22.04
Architecture: 64bit ELF
Virtual Machine: none
CPU: 28 Intel(R) Xeon(R) W-2275 CPU @ 3.30GHz
Cache Size: 19712 KB
Memory:
total used free shared buff/cache available
Mem: 125Gi 35Gi 51Gi 357Mi 38Gi 89Gi
Swap: 2.0Gi 1.0Mi 2.0Gi
Graphics:
0000:65:00.0 VGA compatible controller [0300]: NVIDIA Corporation Device [10de:2786] (rev a1)
Subsystem: Gigabyte Technology Co., Ltd Device [1458:40ee]
Kernel driver in use: nvidia
Installed Packages:
alabaster: 1.0.0
alabaster: 0.7.16
anyio: 4.7.0
appdirs: 1.4.4
asttokens: 2.4.1
asttokens: 3.0.0
auditwheel: 6.1.0
babel: 2.16.0
Babel: 2.15.0
beautifulsoup4: 4.12.3
blockdiag: 3.0.0
blosc2: 3.0.0
blosc2: 2.0.0
build: 1.2.1
certifi: 2024.6.2
certifi: 2024.8.30
cftime: 1.6.4
cftime: 1.6.4.post1
charset-normalizer: 3.3.2
charset-normalizer: 3.4.0
ChimeraX-AddCharge: 1.5.17
ChimeraX-AddCharge: 1.5.18
ChimeraX-AddH: 2.2.6
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.5
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.12.7
ChimeraX-Alignments: 2.16.1
ChimeraX-AlphaFold: 1.0.1
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.1.2
ChimeraX-AltlocExplorer: 1.1.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.58.8
ChimeraX-Atomic: 1.57.1
ChimeraX-AtomicLibrary: 14.0.6
ChimeraX-AtomicLibrary: 14.1.11
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.2
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 3.0.0
ChimeraX-BlastProtein: 2.4.6
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.12.1
ChimeraX-BuildStructure: 2.13.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.2.7
ChimeraX-BundleBuilder: 1.4.0
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.4
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.4
ChimeraX-ChemGroup: 2.0.1
ChimeraX-Clashes: 2.3
ChimeraX-Clashes: 2.2.4
ChimeraX-ColorActions: 1.0.5
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.6
ChimeraX-CommandLine: 1.2.5
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.9
ChimeraX-Core: 1.8
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.4
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: 1.2.4
ChimeraX-Dicom: 1.2.6
ChimeraX-DiffPlot: 1.0
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-Graphics: 1.4.1
ChimeraX-Hbonds: 2.4
ChimeraX-Hbonds: 2.5
ChimeraX-Help: 1.2.2
ChimeraX-Help: 1.3
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.3
ChimeraX-IO: 1.0.1
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-KVFinder: 1.2.1
ChimeraX-Label: 1.1.10
ChimeraX-Label: 1.1.14
ChimeraX-LinuxSupport: 1.0.1
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.1.6
ChimeraX-Log: 1.2
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.1
ChimeraX-Map: 1.3
ChimeraX-Map: 1.2
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-MatchMaker: 2.1.6
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.7.2
ChimeraX-MDcrds: 2.7.1
ChimeraX-MedicalToolbar: 1.0.3
ChimeraX-MedicalToolbar: 1.1
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.14.1
ChimeraX-mmCIF: 2.14.2
ChimeraX-MMTF: 2.2
ChimeraX-ModelArchive: 1.0
ChimeraX-Modeller: 1.5.18
ChimeraX-Modeller: 1.5.17
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-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: 1.13.5
ChimeraX-OpenCommand: 1.14
ChimeraX-OrthoPick: 1.0.1
ChimeraX-PDB: 2.7.6
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-PresetMgr: 1.1.2
ChimeraX-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.6.2
ChimeraX-RenderByAttr: 1.4.1
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.3.1
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: 3.5.6
ChimeraX-Segmentations: 3.0.15
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.14
ChimeraX-SeqView: 2.11.2
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.1.1
ChimeraX-Shortcuts: 1.2.0
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: 1.18.1
ChimeraX-StdCommands: 1.16.5
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
ChimeraX-TapeMeasure: 1.0
ChimeraX-TaskManager: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.2.3
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: 1.39.1
ChimeraX-UI: 1.41
ChimeraX-Umap: 1.0
ChimeraX-uniprot: 2.3.1
ChimeraX-uniprot: 2.3
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.4.4
ChimeraX-ViewDockX: 1.4.3
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: 1.1.4
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.2.2
contourpy: 1.3.1
contourpy: 1.2.1
cxservices: 1.2.2
cxservices: 1.2.3
cycler: 0.12.1
Cython: 3.0.10
debugpy: 1.8.1
debugpy: 1.8.9
decorator: 5.1.1
distro: 1.9.0
docutils: 0.20.1
docutils: 0.21.2
executing: 2.0.1
executing: 2.1.0
filelock: 3.15.4
filelock: 3.13.4
fonttools: 4.55.3
fonttools: 4.53.0
funcparserlib: 2.0.0a0
glfw: 2.7.0
glfw: 2.8.0
grako: 3.16.5
h11: 0.14.0
h5py: 3.11.0
h5py: 3.12.1
html2text: 2024.2.26
httpcore: 1.0.7
httpx: 0.28.1
idna: 3.10
idna: 3.7
ihm: 1.3
ihm: 1.0
imagecodecs: 2024.1.1
imagecodecs: 2024.6.1
imagesize: 1.4.1
ipykernel: 6.29.2
ipykernel: 6.29.5
ipython: 8.26.0
ipython: 8.21.0
ipywidgets: 8.1.3
ipywidgets: 8.1.5
jedi: 0.19.1
Jinja2: 3.1.4
jupyter_client: 8.6.2
jupyter_client: 8.6.0
jupyter_core: 5.7.2
jupyterlab_widgets: 3.0.11
jupyterlab_widgets: 3.0.13
kiwisolver: 1.4.5
kiwisolver: 1.4.7
line-profiler: 4.1.2
line_profiler: 4.1.3
lxml: 5.2.2
lxml: 5.2.1
lz4: 4.3.3
MarkupSafe: 3.0.2
MarkupSafe: 2.1.5
matplotlib: 3.9.2
matplotlib: 3.8.4
matplotlib-inline: 0.1.7
msgpack: 1.0.8
ndindex: 1.9.2
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numexpr: 2.10.2
numexpr: 2.10.0
numpy: 1.26.4
openvr: 1.26.701
packaging: 23.2
packaging: 24.1
ParmEd: 4.2.2
parso: 0.8.4
pep517: 0.13.1
pexpect: 4.9.0
pillow: 10.3.0
pillow: 10.4.0
pip: 24.0
pip: 24.2
pkginfo: 1.11.1
pkginfo: 1.10.0
platformdirs: 4.2.2
platformdirs: 4.3.6
prompt_toolkit: 3.0.47
prompt_toolkit: 3.0.48
psutil: 5.9.8
psutil: 6.0.0
ptyprocess: 0.7.0
pure-eval: 0.2.2
pure_eval: 0.2.3
py-cpuinfo: 9.0.0
pycollada: 0.8
pydicom: 2.4.4
pyelftools: 0.31
Pygments: 2.17.2
Pygments: 2.18.0
pynmrstar: 3.3.4
pynrrd: 1.0.0
PyOpenGL: 3.1.7
PyOpenGL-accelerate: 3.1.7
pyopenxr: 1.0.3401
pyparsing: 3.2.0
pyparsing: 3.1.2
pyproject_hooks: 1.1.0
pyproject_hooks: 1.2.0
PyQt6-commercial: 6.7.1
PyQt6-commercial: 6.6.1
PyQt6-Qt6: 6.6.3
PyQt6-Qt6: 6.7.3
PyQt6-sip: 13.6.0
PyQt6-WebEngine-commercial: 6.7.0
PyQt6-WebEngine-commercial: 6.6.0
PyQt6-WebEngine-Qt6: 6.7.3
PyQt6-WebEngine-Qt6: 6.6.3
PyQt6-WebEngineSubwheel-Qt6: 6.7.3
PyQt6_sip: 13.8.0
python-dateutil: 2.9.0.post0
pytz: 2024.1
pytz: 2024.2
pyzmq: 26.2.0
pyzmq: 26.0.3
qtconsole: 5.5.2
qtconsole: 5.5.1
QtPy: 2.4.1
QtPy: 2.4.2
qtshim: 1.0
RandomWords: 0.4.0
requests: 2.31.0
requests: 2.32.3
scipy: 1.13.0
scipy: 1.14.0
setuptools: 72.1.0
setuptools: 69.5.1
sfftk-rw: 0.8.1
six: 1.16.0
sniffio: 1.3.1
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
soupsieve: 2.5
soupsieve: 2.6
Sphinx: 8.0.2
Sphinx: 7.2.6
sphinx-autodoc-typehints: 2.2.3
sphinx-autodoc-typehints: 2.0.1
sphinxcontrib-applehelp: 1.0.8
sphinxcontrib-applehelp: 2.0.0
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 1.0.6
sphinxcontrib-devhelp: 2.0.0
sphinxcontrib-htmlhelp: 2.1.0
sphinxcontrib-htmlhelp: 2.0.5
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 2.0.0
sphinxcontrib-qthelp: 1.0.7
sphinxcontrib-serializinghtml: 2.0.0
sphinxcontrib-serializinghtml: 1.1.10
stack-data: 0.6.3
superqt: 0.6.3
tables: 3.10.1
tables: 3.8.0
tcia_utils: 1.5.1
tifffile: 2024.1.30
tifffile: 2024.7.24
tinyarray: 1.2.4
tornado: 6.4.1
tornado: 6.4.2
traitlets: 5.14.3
traitlets: 5.14.2
typing_extensions: 4.12.2
tzdata: 2024.2
tzdata: 2024.1
urllib3: 2.2.1
urllib3: 2.2.3
wcwidth: 0.2.13
webcolors: 24.6.0
webcolors: 1.13
wheel: 0.43.0
wheel-filename: 1.4.1
widgetsnbextension: 4.0.11
widgetsnbextension: 4.0.13
Change History (2)
comment:1 by , 7 weeks ago
| Component: | Unassigned → General Controls |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Number_Entry widget: could not convert string to float: '' |
comment:2 by , 6 weeks ago
| Resolution: | → fixed |
|---|---|
| Status: | assigned → closed |
Fixed.
Needed to change the scalebar code which was looking for a ValueError to instead look for None values to see when float entry fields are invalid.
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Related to #17057, but I'm not certain the fix applied there (returning None) will work in the context of the Scale Bar tool...