Opened 14 months ago

Closed 14 months ago

#15938 closed defect (duplicate)

Crash in Modeller tool _update_sequence_menus in Qt call meth_QFormLayout_removeRow()

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

Description 

The following bug report has been submitted:
Platform:        Linux-6.8.0-40-generic-x86_64-with-glibc2.35
ChimeraX Version: 1.3 (2021-12-08 23:08:33 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault

Current thread 0x000077b69d30c740 (most recent call first):
  File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/chimerax/modeller/tool.py", line 259 in _update_sequence_menus
  File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/chimerax/seqalign/widgets.py", line 33 in _items_change
  File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/chimerax/ui/widgets/item_chooser.py", line 72 in showEvent
  File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/chimerax/ui/gui.py", line 2407 in shown
  File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/chimerax/ui/gui.py", line 2187 in _mw_set_shown
  File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/chimerax/ui/gui.py", line 1892 in _tool_window_request_shown
  File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/chimerax/ui/gui.py", line 2095 in shown
  File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/chimerax/ui/gui.py", line 805 in set_tool_shown
  File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/chimerax/ui/gui.py", line 364 in set_tool_shown
  File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/chimerax/core/tools.py", line 175 in 
  File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/chimerax/ui/gui.py", line 382 in thread_safe
  File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/chimerax/core/tools.py", line 174 in display
  File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/chimerax/ui/cmd.py", line 210 in ui_tool_show
  File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/chimerax/core/commands/cli.py", line 2856 in run
  File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/chimerax/core/commands/run.py", line 36 in run
  File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/chimerax/ui/gui.py", line 1659 in 
  File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/chimerax/ui/gui.py", line 301 in event_loop
  File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/ChimeraX_main.py", line 867 in init
  File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/ChimeraX_main.py", line 1018 in 
  File "/usr/lib/ucsf-chimerax/lib/python3.9/runpy.py", line 87 in _run_code
  File "/usr/lib/ucsf-chimerax/lib/python3.9/runpy.py", line 197 in _run_module_as_main
===== Log before crash start =====
UCSF ChimeraX version: 1.3 (2021-12-08)  
© 2016-2021 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open "/home/matifortunka/Downloads/AF
> ftsj/FTSJ1_THADA_tRNAGln_SAM_refine_013_FINAL_MODEL_potentialH2Os.pdb"

Chain information for
FTSJ1_THADA_tRNAGln_SAM_refine_013_FINAL_MODEL_potentialH2Os.pdb #1  
---  
Chain | Description  
A | No description available  
B | No description available  
C | No description available  
  

> open "/home/matifortunka/Downloads/AF ftsj/sequence.fasta"

Summary of feedback from opening /home/matifortunka/Downloads/AF
ftsj/sequence.fasta  
---  
notes | Alignment identifier is sequence.fasta  
Associated FTSJ1_THADA_tRNAGln_SAM_refine_013_FINAL_MODEL_potentialH2Os.pdb
chain A to with 1 mismatch  
Associated FTSJ1_THADA_tRNAGln_SAM_refine_013_FINAL_MODEL_potentialH2Os.pdb
chain B to with 0 mismatches  
Associated FTSJ1_THADA_tRNAGln_SAM_refine_013_FINAL_MODEL_potentialH2Os.pdb
chain C to with 0 mismatches  
  
Opened 1 sequences from sequence.fasta  

> select /A:11

16 atoms, 15 bonds, 1 residue, 1 model selected  

> select /A:11-18

116 atoms, 116 bonds, 8 residues, 1 model selected  

> select /A:11

16 atoms, 15 bonds, 1 residue, 1 model selected  

> select /A:11-1922/B:9-254/C:1-74

33887 atoms, 34389 bonds, 10 pseudobonds, 2065 residues, 2 models selected  

> select /A:11

16 atoms, 15 bonds, 1 residue, 1 model selected  

> ui tool show "Model Loops"

No target sequence chosen for alignment sequence.fasta  

> ui tool show "Show Sequence Viewer"

> sequence chain /B

Alignment identifier is 1/B  

> select /B:44-48,70-75,85-89,112-115,152-158,176-180,191-197

600 atoms, 597 bonds, 39 residues, 1 model selected  

> ui tool show "Model Loops"

> modeller refine 1/B:1:all-missing numModels 5 fast true adjacentFlexible 1
> protocol DOPE tempPath "/home/matifortunka/Downloads/AF ftsj/modeller"

Traceback (most recent call last):  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/suds/transport/http.py", line 67, in open  
return self.u2open(u2request)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/suds/transport/http.py", line 132, in u2open  
return url.open(u2request, timeout=tm)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/urllib/request.py", line 523, in
open  
response = meth(req, response)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/urllib/request.py", line 632, in
http_response  
response = self.parent.error(  
File "/usr/lib/ucsf-chimerax/lib/python3.9/urllib/request.py", line 555, in
error  
result = self._call_chain(*args)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/urllib/request.py", line 494, in
_call_chain  
result = func(*args)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/urllib/request.py", line 747, in
http_error_302  
return self.parent.open(new, timeout=req.timeout)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/urllib/request.py", line 523, in
open  
response = meth(req, response)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/urllib/request.py", line 632, in
http_response  
response = self.parent.error(  
File "/usr/lib/ucsf-chimerax/lib/python3.9/urllib/request.py", line 561, in
error  
return self._call_chain(*args)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/urllib/request.py", line 494, in
_call_chain  
result = func(*args)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/urllib/request.py", line 641, in
http_error_default  
raise HTTPError(req.full_url, code, msg, hdrs, fp)  
urllib.error.HTTPError: HTTP Error 404: Not Found  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/core/tasks.py", line 196, in _run_thread  
self.run(*args, **kw)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/core/tasks.py", line 284, in run  
self.launch(*args, **kw)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/webservices/opal_job.py", line 121, in launch  
self._suds = Client(self.service_url + "?wsdl")  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/suds/client.py", line
115, in __init__  
self.wsdl = reader.open(url)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/suds/reader.py", line
150, in open  
d = self.fn(url, self.options)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/suds/wsdl.py", line
136, in __init__  
d = reader.open(url)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/suds/reader.py", line
74, in open  
d = self.download(url)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/suds/reader.py", line
92, in download  
fp = self.options.transport.open(Request(url))  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/suds/transport/https.py", line 62, in open  
return HttpTransport.open(self, request)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/suds/transport/http.py", line 69, in open  
raise TransportError(str(e), e.code, e.fp)  
suds.transport.TransportError: HTTP Error 404: Not Found  
  
Exception in thread 1:  
suds.transport.TransportError: HTTP Error 404: Not Found  
  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/suds/transport/http.py", line 69, in open  
raise TransportError(str(e), e.code, e.fp)  
  
See log for complete Python traceback.  
  
Modeller job ID None finished  
Traceback (most recent call last):  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/chimerax/ui/gui.py",
line 676, in customEvent  
func(*args, **kw)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/modeller/common.py", line 488, in on_finish  
err = self.get_file("stderr.txt")  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/webservices/opal_job.py", line 258, in get_file  
url = self._status_url + '/' + filename  
TypeError: unsupported operand type(s) for +: 'NoneType' and 'str'  
  
TypeError: unsupported operand type(s) for +: 'NoneType' and 'str'  
  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/webservices/opal_job.py", line 258, in get_file  
url = self._status_url + '/' + filename  
  
See log for complete Python traceback.  
  

> ui tool show "Show Sequence Viewer"

> sequence chain /A

Alignment identifier is 1/A  

> ui tool show "Show Sequence Viewer"

> sequence chain /C

Alignment identifier is 1/C  

> ui tool show "Model Loops"

> modeller refine 1/A:1:all-missing 1/B:1:all-missing 1/C:1:all-missing
> numModels 5 fast true adjacentFlexible 1 protocol DOPE tempPath
> "/home/matifortunka/Downloads/AF ftsj/modeller"

Traceback (most recent call last):  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/modeller/tool.py", line 229, in launch_modeller  
run(self.session, ("modeller %s %s numModels %d fast %s " % (sub_cmd, "
".join(aln_seq_args),  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/core/commands/run.py", line 36, in run  
results = command.run(text, log=log, return_json=return_json)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2877, in run  
result = ci.function(session, *args, optional=optional,  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 3417, in __call__  
return self.cmd.run(text, _used_aliases=_used_aliases, log=log)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2856, in run  
result = ci.function(session, **kw_args)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/modeller/cmd.py", line 121, in model_loops  
loops.model(session, targets, adjacent_flexible=adjacent_flexible,
block=block, chains=chains,  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/modeller/loops.py", line 135, in model  
mmap = seq.match_maps[chain]  
KeyError:   
  
KeyError:  
  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/modeller/loops.py", line 135, in model  
mmap = seq.match_maps[chain]  
  
See log for complete Python traceback.  
  

> modeller refine 1/A:1:all-missing 1/B:1:all-missing 1/C:1:all-missing
> numModels 5 fast true adjacentFlexible 1 protocol DOPE tempPath
> "/home/matifortunka/Downloads/AF ftsj/modeller"

Traceback (most recent call last):  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/modeller/tool.py", line 229, in launch_modeller  
run(self.session, ("modeller %s %s numModels %d fast %s " % (sub_cmd, "
".join(aln_seq_args),  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/core/commands/run.py", line 36, in run  
results = command.run(text, log=log, return_json=return_json)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2877, in run  
result = ci.function(session, *args, optional=optional,  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 3417, in __call__  
return self.cmd.run(text, _used_aliases=_used_aliases, log=log)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2856, in run  
result = ci.function(session, **kw_args)  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/modeller/cmd.py", line 121, in model_loops  
loops.model(session, targets, adjacent_flexible=adjacent_flexible,
block=block, chains=chains,  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/modeller/loops.py", line 135, in model  
mmap = seq.match_maps[chain]  
KeyError:   
  
KeyError:  
  
File "/usr/lib/ucsf-chimerax/lib/python3.9/site-
packages/chimerax/modeller/loops.py", line 135, in model  
mmap = seq.match_maps[chain]  
  
See log for complete Python traceback.  
  

> select /B:15

19 atoms, 18 bonds, 1 residue, 1 model selected  

> select /B:15

19 atoms, 18 bonds, 1 residue, 1 model selected  

> select /B:12

21 atoms, 21 bonds, 1 residue, 1 model selected  

> select /B:12-18

132 atoms, 133 bonds, 7 residues, 1 model selected  

> select /A:11-1922/B:9-254/C:1-74

33887 atoms, 34389 bonds, 10 pseudobonds, 2065 residues, 2 models selected  

> open "/home/matifortunka/Downloads/AF ftsj/sequence2.fasta"

Sequence 'chain B' differs in length from preceding sequences, and it is
therefore impossible to open these sequences as an alignment. If you want to
open the sequences individually, specify 'false' as the value of the
'alignment' keyword in the 'open' command.  

> ui tool show "Show Sequence Viewer"

> sequence chain /A

Destroying pre-existing alignment with identifier 1/A  
Alignment identifier is 1/A  

> sequence chain /B

Destroying pre-existing alignment with identifier 1/B  
Alignment identifier is 1/B  

> sequence chain /C

Destroying pre-existing alignment with identifier 1/C  
Alignment identifier is 1/C  

> select clear

> select
> /A:18-26,36-44,48-62,73-88,94-105,111-127,131-143,149-157,159-179,185-207,222-238,245-262,266-278,288-293,295-298,304-317,327-345,350-373,376-380,387-399,405-425,435-445,452-465,467-473,477-486,491-511,518-526,528-536,539-548,550-556,558-576,593-607,623-631,635-646,657-668,676-709,721-743,749-766,779-782,785-796,800-811,817-819,823-838,844-857,881-909,911-917,921-933,942-964,1046-1069,1086-1101,1106-1125,1134-1147,1164-1174,1182-1194,1203-1219,1228-1243,1247-1265,1282-1288,1290-1305,1320-1329,1341-1356,1360-1369,1371-1373,1376-1386,1400-1420,1425-1446,1453-1476,1481-1495,1512-1531,1545-1550,1554-1573,1582-1584,1588-1597,1601-1613,1623-1626,1631-1642,1649-1667,1676-1690,1696-1708,1710-1713,1723-1738,1742-1755,1774-1792,1795-1807,1840-1856,1869-1888,1893-1896,1898-1921

20195 atoms, 20304 bonds, 1242 residues, 1 model selected  

> select clear

> ui tool show "Model Loops"


===== Log before crash end =====

Log:
UCSF ChimeraX version: 1.3 (2021-12-08)  
© 2016-2021 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  




OpenGL version: 3.3.0 NVIDIA 535.183.01
OpenGL renderer: NVIDIA GeForce RTX 3060 Laptop GPU/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Manufacturer: Micro-Star International Co., Ltd.
Model: Katana GF66 11UE
OS: Ubuntu 22.04 jammy
Architecture: 64bit ELF
Virutal Machine: none
CPU: 16 11th Gen Intel(R) Core(TM) i7-11800H @ 2.30GHz
Cache Size: 24576 KB
Memory:
	               total        used        free      shared  buff/cache   available
	Mem:            15Gi       7.3Gi       2.5Gi       245Mi       5.6Gi       7.5Gi
	Swap:           59Gi       0.0Ki        59Gi

Graphics:
	00:02.0 VGA compatible controller [0300]: Intel Corporation TigerLake-H GT1 [UHD Graphics] [8086:9a60] (rev 01)	
	DeviceName: Onboard - Video	
	Subsystem: Micro-Star International Co., Ltd. [MSI] TigerLake-H GT1 [UHD Graphics] [1462:12ea]
Locale: ('en_US', 'UTF-8')
PyQt5 5.15.2, Qt 5.15.2
Installed Packages:
    alabaster: 0.7.12
    appdirs: 1.4.4
    Babel: 2.9.1
    backcall: 0.2.0
    blockdiag: 2.0.1
    certifi: 2021.10.8
    cftime: 1.5.1.1
    charset-normalizer: 2.0.9
    ChimeraX-AddCharge: 1.2.2
    ChimeraX-AddH: 2.1.11
    ChimeraX-AlignmentAlgorithms: 2.0
    ChimeraX-AlignmentHdrs: 3.2
    ChimeraX-AlignmentMatrices: 2.0
    ChimeraX-Alignments: 2.2.3
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.0.1
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.0
    ChimeraX-Atomic: 1.31
    ChimeraX-AtomicLibrary: 4.2
    ChimeraX-AtomSearch: 2.0
    ChimeraX-AtomSearchLibrary: 1.0
    ChimeraX-AxesPlanes: 2.0
    ChimeraX-BasicActions: 1.1
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 2.0
    ChimeraX-BondRot: 2.0
    ChimeraX-BugReporter: 1.0
    ChimeraX-BuildStructure: 2.6.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.1
    ChimeraX-ButtonPanel: 1.0
    ChimeraX-CageBuilder: 1.0
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.2
    ChimeraX-ChemGroup: 2.0
    ChimeraX-Clashes: 2.2.2
    ChimeraX-ColorActions: 1.0
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5
    ChimeraX-CommandLine: 1.1.5
    ChimeraX-ConnectStructure: 2.0
    ChimeraX-Contacts: 1.0
    ChimeraX-Core: 1.3
    ChimeraX-CoreFormats: 1.1
    ChimeraX-coulombic: 1.3.2
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0
    ChimeraX-DataFormats: 1.2.2
    ChimeraX-Dicom: 1.0
    ChimeraX-DistMonitor: 1.1.5
    ChimeraX-DistUI: 1.0
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ExperimentalCommands: 1.0
    ChimeraX-FileHistory: 1.0
    ChimeraX-FunctionKey: 1.0
    ChimeraX-Geometry: 1.1
    ChimeraX-gltf: 1.0
    ChimeraX-Graphics: 1.1
    ChimeraX-Hbonds: 2.1.2
    ChimeraX-Help: 1.2
    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
    ChimeraX-Label: 1.1
    ChimeraX-LinuxSupport: 1.0
    ChimeraX-ListInfo: 1.1.1
    ChimeraX-Log: 1.1.4
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.8.1
    ChimeraX-Map: 1.1
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0
    ChimeraX-MapFilter: 2.0
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.1
    ChimeraX-Markers: 1.0
    ChimeraX-Mask: 1.0
    ChimeraX-MatchMaker: 2.0.4
    ChimeraX-MDcrds: 2.6
    ChimeraX-MedicalToolbar: 1.0.1
    ChimeraX-Meeting: 1.0
    ChimeraX-MLP: 1.1
    ChimeraX-mmCIF: 2.4
    ChimeraX-MMTF: 2.1
    ChimeraX-Modeller: 1.2.6
    ChimeraX-ModelPanel: 1.2.1
    ChimeraX-ModelSeries: 1.0
    ChimeraX-Mol2: 2.0
    ChimeraX-Morph: 1.0
    ChimeraX-MouseModes: 1.1
    ChimeraX-Movie: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nucleotides: 2.0.2
    ChimeraX-OpenCommand: 1.7
    ChimeraX-PDB: 2.6.5
    ChimeraX-PDBBio: 1.0
    ChimeraX-PDBLibrary: 1.0.2
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PickBlobs: 1.0
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.0.1
    ChimeraX-PubChem: 2.1
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1
    ChimeraX-RemoteControl: 1.0
    ChimeraX-ResidueFit: 1.0
    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
    ChimeraX-SchemeMgr: 1.0
    ChimeraX-SDF: 2.0
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.4.6
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0
    ChimeraX-Shortcuts: 1.1
    ChimeraX-ShowAttr: 1.0
    ChimeraX-ShowSequences: 1.0
    ChimeraX-SideView: 1.0
    ChimeraX-Smiles: 2.1
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.6.1
    ChimeraX-STL: 1.0
    ChimeraX-Storm: 1.0
    ChimeraX-Struts: 1.0
    ChimeraX-Surface: 1.0
    ChimeraX-SwapAA: 2.0
    ChimeraX-SwapRes: 2.1
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.1
    ChimeraX-ToolshedUtils: 1.2
    ChimeraX-Tug: 1.0
    ChimeraX-UI: 1.13.7
    ChimeraX-uniprot: 2.2
    ChimeraX-UnitCell: 1.0
    ChimeraX-ViewDockX: 1.0.1
    ChimeraX-VIPERdb: 1.0
    ChimeraX-Vive: 1.1
    ChimeraX-VolumeMenu: 1.0
    ChimeraX-VTK: 1.0
    ChimeraX-WavefrontOBJ: 1.0
    ChimeraX-WebCam: 1.0
    ChimeraX-WebServices: 1.0
    ChimeraX-Zone: 1.0
    colorama: 0.4.4
    cxservices: 1.1
    cycler: 0.11.0
    Cython: 0.29.24
    decorator: 5.1.0
    distro: 1.6.0
    docutils: 0.17.1
    filelock: 3.0.12
    funcparserlib: 0.3.6
    grako: 3.16.5
    h5py: 3.6.0
    html2text: 2020.1.16
    idna: 3.3
    ihm: 0.21
    imagecodecs: 2021.4.28
    imagesize: 1.3.0
    ipykernel: 5.5.5
    ipython: 7.23.1
    ipython-genutils: 0.2.0
    jedi: 0.18.0
    Jinja2: 3.0.1
    jupyter-client: 6.1.12
    jupyter-core: 4.9.1
    kiwisolver: 1.3.2
    line-profiler: 3.3.0
    lxml: 4.6.3
    lz4: 3.1.3
    MarkupSafe: 2.0.1
    matplotlib: 3.4.3
    matplotlib-inline: 0.1.3
    msgpack: 1.0.2
    netCDF4: 1.5.7
    networkx: 2.6.3
    numexpr: 2.8.0
    numpy: 1.21.2
    openvr: 1.16.801
    packaging: 21.3
    ParmEd: 3.2.0
    parso: 0.8.3
    pexpect: 4.8.0
    pickleshare: 0.7.5
    Pillow: 8.3.2
    pip: 21.2.4
    pkginfo: 1.7.1
    prompt-toolkit: 3.0.23
    psutil: 5.8.0
    ptyprocess: 0.7.0
    pycollada: 0.7.1
    pydicom: 2.1.2
    Pygments: 2.10.0
    PyOpenGL: 3.1.5
    PyOpenGL-accelerate: 3.1.5
    pyparsing: 3.0.6
    PyQt5-commercial: 5.15.2
    PyQt5-sip: 12.8.1
    PyQtWebEngine-commercial: 5.15.2
    python-dateutil: 2.8.2
    pytz: 2021.3
    pyzmq: 22.3.0
    qtconsole: 5.1.1
    QtPy: 1.11.3
    RandomWords: 0.3.0
    requests: 2.26.0
    scipy: 1.7.1
    setuptools: 57.5.0
    sfftk-rw: 0.7.1
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    Sphinx: 4.2.0
    sphinx-autodoc-typehints: 1.12.0
    sphinxcontrib-applehelp: 1.0.2
    sphinxcontrib-blockdiag: 2.0.0
    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
    suds-jurko: 0.6
    tables: 3.6.1
    tifffile: 2021.4.8
    tinyarray: 1.2.3
    tornado: 6.1
    traitlets: 5.1.1
    urllib3: 1.26.7
    wcwidth: 0.2.5
    webcolors: 1.11.1
    wheel: 0.37.0
    wheel-filename: 1.3.0

Change History (2)

comment:1 by Eric Pettersen, 14 months ago

Component: Unassigned → Structure Prediction
Owner: set to Eric Pettersen
Platform: → all
Project: → ChimeraX
Status: new → accepted
Summary: ChimeraX bug report submission → Crash in Modeller tool _update_sequence_menus in Qt call meth_QFormLayout_removeRow()

comment:2 by Eric Pettersen, 14 months ago

Resolution: → duplicate
Status: accepted → closed

Duplicate of #15753

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