Opened 3 years ago

Closed 3 years ago

#8307 closed defect (duplicate)

Dead Structure Measurement tool trying to show status

Reported by: chimerax-bug-report@… Owned by: Eric Pettersen
Priority: normal Milestone:
Component: Structure Analysis Version:
Keywords: Cc:
Blocked By: Blocking:
Notify when closed: Platform: all
Project: ChimeraX

Description 

The following bug report has been submitted:
Platform:        macOS-12.5-arm64-arm-64bit
ChimeraX Version: 1.5rc202211160223 (2022-11-16 02:23:03 UTC)
Description
(Describe the actions that caused this problem to occur here)

Log:
Startup Messages  
---  
warnings | No presets found in custom preset folder
/Users/tylerbenton/Documents/ChimeraX/XYZ_open  
No presets found in custom preset folder
/Users/tylerbenton/Documents/ChimeraX/examples  
  
Updating list of available bundles failed: [Errno 8] nodename nor servname
provided, or not known  
UCSF ChimeraX version: 1.5rc202211160223 (2022-11-16)  
© 2016-2022 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  
2023-01-11 08:15:55,657 WARNING Retrying (Retry(total=2, connect=None,
read=None, redirect=None, status=None)) after connection broken by
'NewConnectionError('<urllib3.connection.HTTPConnection object at
0x2b2f7a850>: Failed to establish a new connection: [Errno 8] nodename nor
servname provided, or not known')':
/cxservices/api/v1/chimerax/updates?uuid=c2f57103-0485-540a-85ef-c57060e2728e&OS=macosx&OSVersion=12.5&ChimeraXVersion=1.5rc202211160223  
2023-01-11 08:15:55,659 WARNING Retrying (Retry(total=1, connect=None,
read=None, redirect=None, status=None)) after connection broken by
'NewConnectionError('<urllib3.connection.HTTPConnection object at
0x16b84b7c0>: Failed to establish a new connection: [Errno 8] nodename nor
servname provided, or not known')':
/cxservices/api/v1/chimerax/updates?uuid=c2f57103-0485-540a-85ef-c57060e2728e&OS=macosx&OSVersion=12.5&ChimeraXVersion=1.5rc202211160223  
2023-01-11 08:15:55,663 WARNING Retrying (Retry(total=0, connect=None,
read=None, redirect=None, status=None)) after connection broken by
'NewConnectionError('<urllib3.connection.HTTPConnection object at
0x16b85f100>: Failed to establish a new connection: [Errno 8] nodename nor
servname provided, or not known')':
/cxservices/api/v1/chimerax/updates?uuid=c2f57103-0485-540a-85ef-c57060e2728e&OS=macosx&OSVersion=12.5&ChimeraXVersion=1.5rc202211160223  

> open /Users/tylerbenton/Documents/ChimeraX/zero_index_labels.py format
> python

executed zero_index_labels.py  

> open
> /Users/tylerbenton/Desktop/Calculations/testdir2/IRC_ENDO_extracted_IRC0.xyz
> format xyz

Opened IRC_ENDO_extracted_IRC0.xyz as an XYZ file  

> open /Users/tylerbenton/Desktop/Calculations/job_runner/EXOTS.out

Opened EXOTS.out as an ORCA output file  

> hide #1 models

> preset custom "zero index labels"

Using preset: Custom / Zero Index Labels  
executed zero_index_labels.py  
Preset implemented in Python; no expansion to individual ChimeraX commands
available.  

> open
> /Users/tylerbenton/Desktop/Calculations/job_runner/IRC_EXO_A_new_forw_50.out

Opened IRC_EXO_A_new_forw_50.out as an ORCA output file  

> open
> /Users/tylerbenton/Desktop/Calculations/job_runner/IRC_EXO_A_new_forw_50.out

Opened IRC_EXO_A_new_forw_50.out as an ORCA output file  

> close #4

> hide #!2 models

> open
> /Users/tylerbenton/Desktop/Calculations/job_runner/IRC_EXO_A_new_rev_-50.out

Opened IRC_EXO_A_new_rev_-50.out as an ORCA output file  

> open
> /Users/tylerbenton/Desktop/Calculations/job_runner/IRC_EXO_A_new_TS_0.out

Opened IRC_EXO_A_new_TS_0.out as an ORCA output file  

> open /Users/tylerbenton/Desktop/Calculations/job_runner/IRC_EXO_A.out

Summary of feedback from opening
/Users/tylerbenton/Desktop/Calculations/job_runner/IRC_EXO_A.out  
---  
error | unable to open IRC_EXO_A.out  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/ui/graphics.py", line 51, in event  
if self.handle_drag_and_drop(event):  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/ui/graphics.py", line 116, in handle_drag_and_drop  
mw.dropEvent(event)  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/ui/gui.py", line 559, in dropEvent  
_open_dropped_file(self.session, p)  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/ui/gui.py", line 1922, in _open_dropped_file  
run(session, 'open %s' % FileNameArg.unparse(path))  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/run.py", line 38, in run  
results = command.run(text, log=log, return_json=return_json)  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/open_command/cmd.py", line 118, in cmd_open  
models = Command(session, registry=registry).run(provider_cmd_text,
log=log)[0]  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/open_command/cmd.py", line 193, in provider_open  
models, status = collated_open(session, None, [data], data_format,
_add_models,  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/open_command/cmd.py", line 457, in collated_open  
return remember_data_format()  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/open_command/cmd.py", line 428, in remember_data_format  
models, status = func(*func_args, **func_kw)  
File "/Users/tylerbenton/Library/Application Support/ChimeraX/1.5/site-
packages/SEQCROW/__init__.py", line 431, in open  
return open_aarontools(  
File "/Users/tylerbenton/Library/Application Support/ChimeraX/1.5/site-
packages/SEQCROW/io.py", line 40, in open_aarontools  
raise e  
File "/Users/tylerbenton/Library/Application Support/ChimeraX/1.5/site-
packages/SEQCROW/io.py", line 32, in open_aarontools  
fr = FileReader(  
File "/Users/tylerbenton/Library/Application Support/ChimeraX/1.5/site-
packages/AaronTools/fileIO.py", line 1012, in __init__  
self.read_orca_out(f, get_all, just_geom)  
File "/Users/tylerbenton/Library/Application Support/ChimeraX/1.5/site-
packages/AaronTools/fileIO.py", line 1631, in read_orca_out  
f, get_all=get_all, just_geom=just_geom, scan_read_all=scan_read_all  
NameError: name 'scan_read_all' is not defined  
  
NameError: name 'scan_read_all' is not defined  
  
File "/Users/tylerbenton/Library/Application Support/ChimeraX/1.5/site-
packages/AaronTools/fileIO.py", line 1631, in read_orca_out  
f, get_all=get_all, just_geom=just_geom, scan_read_all=scan_read_all  
  
See log for complete Python traceback.  
  

> open /Users/tylerbenton/Desktop/Calculations/job_runner/IRC_EXO_A.out

Summary of feedback from opening
/Users/tylerbenton/Desktop/Calculations/job_runner/IRC_EXO_A.out  
---  
error | unable to open IRC_EXO_A.out  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/ui/graphics.py", line 51, in event  
if self.handle_drag_and_drop(event):  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/ui/graphics.py", line 116, in handle_drag_and_drop  
mw.dropEvent(event)  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/ui/gui.py", line 559, in dropEvent  
_open_dropped_file(self.session, p)  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/ui/gui.py", line 1922, in _open_dropped_file  
run(session, 'open %s' % FileNameArg.unparse(path))  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/run.py", line 38, in run  
results = command.run(text, log=log, return_json=return_json)  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/open_command/cmd.py", line 118, in cmd_open  
models = Command(session, registry=registry).run(provider_cmd_text,
log=log)[0]  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/open_command/cmd.py", line 193, in provider_open  
models, status = collated_open(session, None, [data], data_format,
_add_models,  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/open_command/cmd.py", line 457, in collated_open  
return remember_data_format()  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/open_command/cmd.py", line 428, in remember_data_format  
models, status = func(*func_args, **func_kw)  
File "/Users/tylerbenton/Library/Application Support/ChimeraX/1.5/site-
packages/SEQCROW/__init__.py", line 431, in open  
return open_aarontools(  
File "/Users/tylerbenton/Library/Application Support/ChimeraX/1.5/site-
packages/SEQCROW/io.py", line 40, in open_aarontools  
raise e  
File "/Users/tylerbenton/Library/Application Support/ChimeraX/1.5/site-
packages/SEQCROW/io.py", line 32, in open_aarontools  
fr = FileReader(  
File "/Users/tylerbenton/Library/Application Support/ChimeraX/1.5/site-
packages/AaronTools/fileIO.py", line 1012, in __init__  
self.read_orca_out(f, get_all, just_geom)  
File "/Users/tylerbenton/Library/Application Support/ChimeraX/1.5/site-
packages/AaronTools/fileIO.py", line 1631, in read_orca_out  
f, get_all=get_all, just_geom=just_geom, scan_read_all=scan_read_all  
NameError: name 'scan_read_all' is not defined  
  
NameError: name 'scan_read_all' is not defined  
  
File "/Users/tylerbenton/Library/Application Support/ChimeraX/1.5/site-
packages/AaronTools/fileIO.py", line 1631, in read_orca_out  
f, get_all=get_all, just_geom=just_geom, scan_read_all=scan_read_all  
  
See log for complete Python traceback.  
  

> open /Users/tylerbenton/Desktop/Calculations/job_runner/IRC_EXO_A.log

Opened IRC_EXO_A.log as a Gaussian output file  

> coordset slider #6

> hide #3 models

> hide #4 models

> hide #5 models

> ui mousemode right distance

> distance #6/a:1@C1 #6/a:1@O3

Distance between IRC_EXO_A #6/a UNK 1 C1 and O3: 2.441Å  

> show #5 models

> show #!2 models

> hide #5 models

> show #5 models

> hide #6 models

> show #6 models

> hide #6 models

> show #6 models

> hide #6 models

> hide #!2 models

> hide #5 models

> show #6 models

> show #5 models

> show #3 models

> log metadata #2

No models had metadata

> log chains #2

> view #2 clip false

> hide #7.1 models

> hide #!7 models

> hide #6 models

> hide #3 models

> ui tool show "Orbital Viewer"

> open
> /Users/tylerbenton/Desktop/Calculations/job_runner/IRC_EXO_A_new_TS_0.gbw

Unrecognized file suffix '.gbw'  

> preset custom "zero index labels"

Using preset: Custom / Zero Index Labels  
executed zero_index_labels.py  
Preset implemented in Python; no expansion to individual ChimeraX commands
available.  

> distance #5/a:1@C1 #5/a:1@C2

Distance between IRC_EXO_A_new_TS_0 #5/a UNK 1 C1 and C2: 1.412Å  

> show #!7 models

> show #7.1 models

> distance #5/a:1@C6 #5/a:1@C2

Distance between IRC_EXO_A_new_TS_0 #5/a UNK 1 C6 and C2: 1.674Å  

> hide #!5 models

> close #2

> close #3

> close #4

> close #5

> close #6

> close #7

> open /Users/tylerbenton/Desktop/Calculations/job_runner/EXOTS.out

Opened EXOTS.out as an ORCA output file  

> ui tool show "Orbital Viewer"

> view #2 clip false

> log metadata #2

The model has no metadata

> log chains #2

> ui tool show "File Info"

> ui tool show "Managed Models"

> ui tool show "Orbital Viewer"

> ui tool show "Altloc Explorer"

> ui tool show Angles/Torsions

> distance #2/a:1@C1 #2/a:1@O3

Distance between EXOTS #2/a UNK 1 C1 and O3: 2.441Å  

> distance style dashes 8

[Repeated 2 time(s)]

> distance style dashes 7

[Repeated 2 time(s)]

> distance style dashes 6

[Repeated 2 time(s)]

> distance style dashes 5

[Repeated 2 time(s)]

> distance style dashes 6

[Repeated 2 time(s)]

> distance style dashes 7

[Repeated 2 time(s)]

> distance style dashes 8

[Repeated 2 time(s)]

> distance style dashes 9

[Repeated 2 time(s)]

> distance style dashes 10

[Repeated 2 time(s)]

> distance style radius 0.01

[Repeated 2 time(s)]

> distance style radius 0.05

[Repeated 2 time(s)]Need to select at least one atom  

> ui tool show "Buried Volume"

Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/struct_measure/tool.py", line 626, in clear_status  
if s.apc_status_label.text() == s.apc_status_tip:  
RuntimeError: wrapped C/C++ object of type QLabel has been deleted  
  
RuntimeError: wrapped C/C++ object of type QLabel has been deleted  
  
File
"/Applications/ChimeraX-1.5-rc2022.11.16.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/struct_measure/tool.py", line 626, in clear_status  
if s.apc_status_label.text() == s.apc_status_tip:  
  
See log for complete Python traceback.  
  




OpenGL version: 4.1 Metal - 76.3
OpenGL renderer: Apple M1 Pro
OpenGL vendor: Apple

Python: 3.9.11
Locale: UTF-8
Qt version: PyQt6 6.3.1, Qt 6.3.1
Qt runtime version: 6.3.2
Qt platform: cocoa
Hardware:

    Hardware Overview:

      Model Name: MacBook Pro
      Model Identifier: MacBookPro18,3
      Chip: Apple M1 Pro
      Total Number of Cores: 10 (8 performance and 2 efficiency)
      Memory: 16 GB
      System Firmware Version: 7459.141.1
      OS Loader Version: 7459.141.1

Software:

    System Software Overview:

      System Version: macOS 12.5 (21G72)
      Kernel Version: Darwin 21.6.0
      Time since boot: 3 days 6:06

Graphics/Displays:

    Apple M1 Pro:

      Chipset Model: Apple M1 Pro
      Type: GPU
      Bus: Built-In
      Total Number of Cores: 16
      Vendor: Apple (0x106b)
      Metal Family: Supported, Metal GPUFamily Apple 7
      Displays:
        Color LCD:
          Display Type: Built-in Liquid Retina XDR Display
          Resolution: 3024 x 1964 Retina
          Main Display: Yes
          Mirror: Off
          Online: Yes
          Automatically Adjust Brightness: Yes
          Connection Type: Internal
        P24h-10:
          Resolution: 2560 x 1440 (QHD/WQHD - Wide Quad High Definition)
          UI Looks like: 2560 x 1440 @ 60.00Hz
          Mirror: Off
          Online: Yes
          Rotation: Supported


Installed Packages:
    alabaster: 0.7.12
    appdirs: 1.4.4
    appnope: 0.1.3
    asttokens: 2.1.0
    Babel: 2.11.0
    backcall: 0.2.0
    blockdiag: 3.0.0
    build: 0.8.0
    certifi: 2021.10.8
    cftime: 1.6.2
    charset-normalizer: 2.1.1
    ChimeraX-AddCharge: 1.4
    ChimeraX-AddH: 2.2.1
    ChimeraX-AlignmentAlgorithms: 2.0
    ChimeraX-AlignmentHdrs: 3.2.1
    ChimeraX-AlignmentMatrices: 2.0
    ChimeraX-Alignments: 2.6
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.0.3
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.0
    ChimeraX-Atomic: 1.41.5
    ChimeraX-AtomicLibrary: 8.0.3
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.3
    ChimeraX-BasicActions: 1.1.2
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 2.1.2
    ChimeraX-BondRot: 2.0.1
    ChimeraX-BugReporter: 1.0.1
    ChimeraX-BuildStructure: 2.7.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.2
    ChimeraX-ButtonPanel: 1.0.1
    ChimeraX-CageBuilder: 1.0.1
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.3.1
    ChimeraX-ChangeChains: 1.0.2
    ChimeraX-CheckWaters: 1.3
    ChimeraX-ChemGroup: 2.0
    ChimeraX-Clashes: 2.2.4
    ChimeraX-ColorActions: 1.0.3
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.2
    ChimeraX-CommandLine: 1.2.4
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.5rc202211160223
    ChimeraX-CoreFormats: 1.1
    ChimeraX-coulombic: 1.3.2
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.2
    ChimeraX-Dicom: 1.1
    ChimeraX-DistMonitor: 1.3
    ChimeraX-DockPrep: 1.0
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ExperimentalCommands: 1.0
    ChimeraX-FileHistory: 1.0.1
    ChimeraX-FunctionKey: 1.0.1
    ChimeraX-Geometry: 1.2
    ChimeraX-gltf: 1.0
    ChimeraX-Graphics: 1.1
    ChimeraX-Hbonds: 2.4
    ChimeraX-Help: 1.2.1
    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-Label: 1.1.7
    ChimeraX-ListInfo: 1.1.1
    ChimeraX-Log: 1.1.5
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.8.2
    ChimeraX-Map: 1.1.2
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0.1
    ChimeraX-MapFilter: 2.0
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.1.1
    ChimeraX-Markers: 1.0.1
    ChimeraX-Mask: 1.0.1
    ChimeraX-MatchMaker: 2.0.9
    ChimeraX-MDcrds: 2.6
    ChimeraX-MedicalToolbar: 1.0.2
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1
    ChimeraX-mmCIF: 2.8
    ChimeraX-MMTF: 2.2
    ChimeraX-Modeller: 1.5.6
    ChimeraX-ModelPanel: 1.3.6
    ChimeraX-ModelSeries: 1.0.1
    ChimeraX-Mol2: 2.0
    ChimeraX-Mole: 1.0
    ChimeraX-Morph: 1.0.1
    ChimeraX-MouseModes: 1.1.1
    ChimeraX-Movie: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.9.1
    ChimeraX-PDB: 2.6.8
    ChimeraX-PDBBio: 1.0
    ChimeraX-PDBLibrary: 1.0.2
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PickBlobs: 1.0.1
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.1
    ChimeraX-PubChem: 2.1
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.1
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.1
    ChimeraX-RNALayout: 1.0
    ChimeraX-RotamerLibMgr: 2.0.1
    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
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.7.2
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0.1
    ChimeraX-Shortcuts: 1.1.1
    ChimeraX-ShowSequences: 1.0.1
    ChimeraX-SideView: 1.0.1
    ChimeraX-Smiles: 2.1
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.10
    ChimeraX-STL: 1.0
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.1
    ChimeraX-Struts: 1.0.1
    ChimeraX-Surface: 1.0
    ChimeraX-SwapAA: 2.0.1
    ChimeraX-SwapRes: 2.1.3
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.1.2
    ChimeraX-ToolshedUtils: 1.2.1
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.24.3
    ChimeraX-uniprot: 2.2.1
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.1.4
    ChimeraX-VIPERdb: 1.0
    ChimeraX-Vive: 1.1
    ChimeraX-VolumeMenu: 1.0.1
    ChimeraX-VTK: 1.0
    ChimeraX-WavefrontOBJ: 1.0
    ChimeraX-WebCam: 1.0.1
    ChimeraX-WebServices: 1.1.0
    ChimeraX-Zone: 1.0.1
    click: 8.1.3
    colorama: 0.4.5
    cxservices: 1.2
    cycler: 0.11.0
    Cython: 0.29.32
    debugpy: 1.6.3
    decorator: 5.1.1
    docutils: 0.19
    entrypoints: 0.4
    executing: 1.2.0
    filelock: 3.7.1
    fonttools: 4.38.0
    funcparserlib: 1.0.1
    grako: 3.16.5
    h5py: 3.7.0
    html2text: 2020.1.16
    idna: 3.4
    ihm: 0.33
    imagecodecs: 2022.2.22
    imagesize: 1.4.1
    importlib-metadata: 5.0.0
    ipykernel: 6.15.3
    ipython: 8.4.0
    ipython-genutils: 0.2.0
    jedi: 0.18.1
    Jinja2: 3.1.2
    jupyter-client: 7.3.4
    jupyter-core: 5.0.0
    kiwisolver: 1.4.4
    line-profiler: 3.5.1
    lxml: 4.9.1
    lz4: 4.0.2
    MarkupSafe: 2.1.1
    matplotlib: 3.5.2
    matplotlib-inline: 0.1.6
    MolecularDynamicsViewer: 1.4
    msgpack: 1.0.4
    nest-asyncio: 1.5.6
    netCDF4: 1.6.0
    networkx: 2.8.5
    numexpr: 2.8.4
    numpy: 1.23.1
    openvr: 1.23.701
    packaging: 21.3
    ParmEd: 3.4.3
    parso: 0.8.3
    pep517: 0.13.0
    pexpect: 4.8.0
    pickleshare: 0.7.5
    Pillow: 9.2.0
    pip: 22.3.1
    pip-tools: 6.10.0
    pkginfo: 1.8.3
    platformdirs: 2.5.4
    prompt-toolkit: 3.0.32
    psutil: 5.9.1
    ptyprocess: 0.7.0
    pure-eval: 0.2.2
    pycollada: 0.7.2
    pydicom: 2.3.0
    Pygments: 2.12.0
    PyOpenGL: 3.1.5
    PyOpenGL-accelerate: 3.1.5
    pyparsing: 3.0.9
    PyQt6-commercial: 6.3.1
    PyQt6-Qt6: 6.3.2
    PyQt6-sip: 13.4.0
    PyQt6-WebEngine-commercial: 6.3.1
    PyQt6-WebEngine-Qt6: 6.3.2
    python-dateutil: 2.8.2
    pytz: 2022.6
    pyzmq: 24.0.1
    qtconsole: 5.3.1
    QtPy: 2.3.0
    RandomWords: 0.4.0
    requests: 2.28.1
    scipy: 1.9.0
    Send2Trash: 1.8.0
    SEQCROW: 1.5.8
    setuptools: 65.1.1
    setuptools-scm: 7.0.5
    sfftk-rw: 0.7.2
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    Sphinx: 5.1.1
    sphinx-autodoc-typehints: 1.19.1
    sphinxcontrib-applehelp: 1.0.2
    sphinxcontrib-blockdiag: 3.0.0
    sphinxcontrib-devhelp: 1.0.2
    sphinxcontrib-htmlhelp: 2.0.0
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 1.0.3
    sphinxcontrib-serializinghtml: 1.1.5
    stack-data: 0.6.1
    tables: 3.7.0
    tifffile: 2022.7.31
    tinyarray: 1.2.4
    tomli: 2.0.1
    tornado: 6.2
    traitlets: 5.3.0
    typing-extensions: 4.4.0
    urllib3: 1.26.12
    wcwidth: 0.2.5
    webcolors: 1.12
    wheel: 0.37.1
    wheel-filename: 1.4.1
    zipp: 3.10.0

Change History (2)

comment:1 by Eric Pettersen, 3 years ago

Component: Unassigned → Structure Analysis
Owner: set to Eric Pettersen
Platform: → all
Project: → ChimeraX
Status: new → accepted
Summary: ChimeraX bug report submission → Dead Structure Measurement tool trying to show status

comment:2 by Eric Pettersen, 3 years ago

Resolution: → duplicate
Status: accepted → closed

duplicate of #8148

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