Opened 5 months ago
Closed 5 months ago
#17834 closed defect (duplicate)
Session save: ItemTable's selectionModel() is None
Reported by: | Owned by: | Eric Pettersen | |
---|---|---|---|
Priority: | normal | Milestone: | |
Component: | Sessions | Version: | |
Keywords: | Cc: | ||
Blocked By: | Blocking: | ||
Notify when closed: | Platform: | all | |
Project: | ChimeraX |
Description
The following bug report has been submitted: Platform: macOS-15.5-arm64-arm-64bit ChimeraX Version: 1.5 (2022-11-24 00:03:27 UTC) Description (Describe the actions that caused this problem to occur here) Log: UCSF ChimeraX version: 1.5 (2022-11-24) © 2016-2022 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open "/Users/narbadaupreti/Desktop/C-term and DNA pdbs/H-bonds.pdb" Chain information for H-bonds.pdb #1 --- Chain | Description A B C D E | No description available F | No description available > select /F 759 atoms, 846 bonds, 38 residues, 1 model selected > ui tool show AlphaFold > alphafold search #1/A [Repeated 1 time(s)]Webservices job id: TTPJBA20SIXSEHGO Webservices job id: SG7TXOF84UR95B8M BlastProtein failed: failed BlastProtein failed: 'bytes' object has no attribute 'items' Parsing BlastProtein results failed: 'NoneType' object has no attribute 'keys' BlastProtein failed: failed BlastProtein failed: 'bytes' object has no attribute 'items' Parsing BlastProtein results failed: 'NoneType' object has no attribute 'keys' > style sel ball Changed 759 atom styles > select /A 1818 atoms, 1856 bonds, 227 residues, 1 model selected > select 9848 atoms, 10125 bonds, 1173 residues, 1 model selected > style sel stick Changed 9848 atom styles > color sel bychain > select /F 759 atoms, 846 bonds, 38 residues, 1 model selected > ui tool show H-Bonds > hbonds sel color #eafa26 dashes 20 showDist true restrict cross distSlop 4.0 > twoColors true saltOnly true select true reveal true retainCurrent true 6 hydrogen bonds found 0 strict hydrogen bonds found > select clear > select /F 759 atoms, 846 bonds, 38 residues, 1 model selected > ui tool show H-Bonds > hbonds sel color #eafa26 dashes 20 showDist true distSlop 4.0 twoColors true > saltOnly true select true reveal true retainCurrent true 6 hydrogen bonds found 0 strict hydrogen bonds found > select /F 759 atoms, 846 bonds, 38 residues, 1 model selected > ui tool show H-Bonds > hbonds sel color #eafa26 dashes 20 showDist true restrict both distSlop 4.0 > twoColors true saltOnly true select true reveal true retainCurrent true 0 hydrogen bonds found 0 strict hydrogen bonds found > ui tool show "Color Actions" > set bgColor white > save "/Users/narbadaupreti/Desktop/C-term and DNA pdbs/H-bonds-image 2.cxs" Traceback (most recent call last): File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 285, in process data = sm.take_snapshot(obj, session, self.state_flags) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/blastprotein/ui/results.py", line 150, in take_snapshot , 'table_session': self.table.session_info() File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/ui/widgets/item_table.py", line 586, in session_info selected = set([self.model().mapToSource(i).row() for i in self.selectionModel().selectedRows()]) AttributeError: 'NoneType' object has no attribute 'selectedRows' The above exception was the direct cause of the following exception: Traceback (most recent call last): File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 262, in discovery self.processed[key] = self.process(obj, parents) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 290, in process raise RuntimeError(msg) from e RuntimeError: Error while saving session data for 'tools' -> <chimerax.core.tools.Tools object at 0x1234329d0> -> <chimerax.blastprotein.ui.results.BlastProteinResults object at 0x161c76790> During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 899, in save session.save(output, version=version, include_maps=include_maps) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 625, in save mgr.discovery(self._state_containers) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 266, in discovery raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e)) ValueError: error processing: 'tools' -> <chimerax.core.tools.Tools object at 0x1234329d0> -> <chimerax.blastprotein.ui.results.BlastProteinResults object at 0x161c76790>: Error while saving session data for 'tools' -> <chimerax.core.tools.Tools object at 0x1234329d0> -> <chimerax.blastprotein.ui.results.BlastProteinResults object at 0x161c76790> ValueError: error processing: 'tools' -> -> : Error while saving session data for 'tools' -> -> File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 266, in discovery raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e)) See log for complete Python traceback. Traceback (most recent call last): File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 285, in process data = sm.take_snapshot(obj, session, self.state_flags) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/blastprotein/ui/results.py", line 150, in take_snapshot , 'table_session': self.table.session_info() File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/ui/widgets/item_table.py", line 586, in session_info selected = set([self.model().mapToSource(i).row() for i in self.selectionModel().selectedRows()]) AttributeError: 'NoneType' object has no attribute 'selectedRows' The above exception was the direct cause of the following exception: Traceback (most recent call last): File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 262, in discovery self.processed[key] = self.process(obj, parents) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 290, in process raise RuntimeError(msg) from e RuntimeError: Error while saving session data for 'tools' -> <chimerax.core.tools.Tools object at 0x1234329d0> -> <chimerax.blastprotein.ui.results.BlastProteinResults object at 0x161c76790> During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/save_command/dialog.py", line 116, in <lambda> lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output file", File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/save_command/dialog.py", line 127, in show_save_file_dialog _dlg.display(session, **kw) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/save_command/dialog.py", line 51, in display run(session, cmd) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.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 "/Users/narbadaupreti/Desktop/ChimeraX-1.5.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 "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/save_command/cmd.py", line 75, in cmd_save Command(session, registry=registry).run(provider_cmd_text, log=log) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.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 "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/save_command/cmd.py", line 90, in provider_save saver_info.save(session, path, **provider_kw) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core_formats/__init__.py", line 84, in save return cxs_save(session, path, **kw) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 899, in save session.save(output, version=version, include_maps=include_maps) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 625, in save mgr.discovery(self._state_containers) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 266, in discovery raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e)) ValueError: error processing: 'tools' -> <chimerax.core.tools.Tools object at 0x1234329d0> -> <chimerax.blastprotein.ui.results.BlastProteinResults object at 0x161c76790>: Error while saving session data for 'tools' -> <chimerax.core.tools.Tools object at 0x1234329d0> -> <chimerax.blastprotein.ui.results.BlastProteinResults object at 0x161c76790> ValueError: error processing: 'tools' -> -> : Error while saving session data for 'tools' -> -> File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 266, in discovery raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e)) See log for complete Python traceback. > save "/Users/narbadaupreti/Desktop/C-term and DNA pdbs/2nd image.cxs" Traceback (most recent call last): File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 285, in process data = sm.take_snapshot(obj, session, self.state_flags) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/blastprotein/ui/results.py", line 150, in take_snapshot , 'table_session': self.table.session_info() File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/ui/widgets/item_table.py", line 586, in session_info selected = set([self.model().mapToSource(i).row() for i in self.selectionModel().selectedRows()]) AttributeError: 'NoneType' object has no attribute 'selectedRows' The above exception was the direct cause of the following exception: Traceback (most recent call last): File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 262, in discovery self.processed[key] = self.process(obj, parents) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 290, in process raise RuntimeError(msg) from e RuntimeError: Error while saving session data for 'tools' -> <chimerax.core.tools.Tools object at 0x1234329d0> -> <chimerax.blastprotein.ui.results.BlastProteinResults object at 0x161c76790> During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 899, in save session.save(output, version=version, include_maps=include_maps) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 625, in save mgr.discovery(self._state_containers) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 266, in discovery raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e)) ValueError: error processing: 'tools' -> <chimerax.core.tools.Tools object at 0x1234329d0> -> <chimerax.blastprotein.ui.results.BlastProteinResults object at 0x161c76790>: Error while saving session data for 'tools' -> <chimerax.core.tools.Tools object at 0x1234329d0> -> <chimerax.blastprotein.ui.results.BlastProteinResults object at 0x161c76790> ValueError: error processing: 'tools' -> -> : Error while saving session data for 'tools' -> -> File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 266, in discovery raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e)) See log for complete Python traceback. Traceback (most recent call last): File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 285, in process data = sm.take_snapshot(obj, session, self.state_flags) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/blastprotein/ui/results.py", line 150, in take_snapshot , 'table_session': self.table.session_info() File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/ui/widgets/item_table.py", line 586, in session_info selected = set([self.model().mapToSource(i).row() for i in self.selectionModel().selectedRows()]) AttributeError: 'NoneType' object has no attribute 'selectedRows' The above exception was the direct cause of the following exception: Traceback (most recent call last): File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 262, in discovery self.processed[key] = self.process(obj, parents) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 290, in process raise RuntimeError(msg) from e RuntimeError: Error while saving session data for 'tools' -> <chimerax.core.tools.Tools object at 0x1234329d0> -> <chimerax.blastprotein.ui.results.BlastProteinResults object at 0x161c76790> During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/save_command/dialog.py", line 116, in <lambda> lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output file", File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/save_command/dialog.py", line 127, in show_save_file_dialog _dlg.display(session, **kw) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/save_command/dialog.py", line 51, in display run(session, cmd) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.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 "/Users/narbadaupreti/Desktop/ChimeraX-1.5.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 "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/save_command/cmd.py", line 75, in cmd_save Command(session, registry=registry).run(provider_cmd_text, log=log) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.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 "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/save_command/cmd.py", line 90, in provider_save saver_info.save(session, path, **provider_kw) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core_formats/__init__.py", line 84, in save return cxs_save(session, path, **kw) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 899, in save session.save(output, version=version, include_maps=include_maps) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 625, in save mgr.discovery(self._state_containers) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 266, in discovery raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e)) ValueError: error processing: 'tools' -> <chimerax.core.tools.Tools object at 0x1234329d0> -> <chimerax.blastprotein.ui.results.BlastProteinResults object at 0x161c76790>: Error while saving session data for 'tools' -> <chimerax.core.tools.Tools object at 0x1234329d0> -> <chimerax.blastprotein.ui.results.BlastProteinResults object at 0x161c76790> ValueError: error processing: 'tools' -> -> : Error while saving session data for 'tools' -> -> File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 266, in discovery raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e)) See log for complete Python traceback. > cd "/Users/narbadaupreti/Desktop/C-term and DNA pdbs" Current working directory is: /Users/narbadaupreti/Desktop/C-term and DNA pdbs > save "/Users/narbadaupreti/Desktop/H-bond between DNA and C-term.cxs" Traceback (most recent call last): File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 285, in process data = sm.take_snapshot(obj, session, self.state_flags) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/blastprotein/ui/results.py", line 150, in take_snapshot , 'table_session': self.table.session_info() File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/ui/widgets/item_table.py", line 586, in session_info selected = set([self.model().mapToSource(i).row() for i in self.selectionModel().selectedRows()]) AttributeError: 'NoneType' object has no attribute 'selectedRows' The above exception was the direct cause of the following exception: Traceback (most recent call last): File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 262, in discovery self.processed[key] = self.process(obj, parents) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 290, in process raise RuntimeError(msg) from e RuntimeError: Error while saving session data for 'tools' -> <chimerax.core.tools.Tools object at 0x1234329d0> -> <chimerax.blastprotein.ui.results.BlastProteinResults object at 0x161c76790> During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 899, in save session.save(output, version=version, include_maps=include_maps) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 625, in save mgr.discovery(self._state_containers) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 266, in discovery raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e)) ValueError: error processing: 'tools' -> <chimerax.core.tools.Tools object at 0x1234329d0> -> <chimerax.blastprotein.ui.results.BlastProteinResults object at 0x161c76790>: Error while saving session data for 'tools' -> <chimerax.core.tools.Tools object at 0x1234329d0> -> <chimerax.blastprotein.ui.results.BlastProteinResults object at 0x161c76790> ValueError: error processing: 'tools' -> -> : Error while saving session data for 'tools' -> -> File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 266, in discovery raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e)) See log for complete Python traceback. Traceback (most recent call last): File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 285, in process data = sm.take_snapshot(obj, session, self.state_flags) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/blastprotein/ui/results.py", line 150, in take_snapshot , 'table_session': self.table.session_info() File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/ui/widgets/item_table.py", line 586, in session_info selected = set([self.model().mapToSource(i).row() for i in self.selectionModel().selectedRows()]) AttributeError: 'NoneType' object has no attribute 'selectedRows' The above exception was the direct cause of the following exception: Traceback (most recent call last): File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 262, in discovery self.processed[key] = self.process(obj, parents) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 290, in process raise RuntimeError(msg) from e RuntimeError: Error while saving session data for 'tools' -> <chimerax.core.tools.Tools object at 0x1234329d0> -> <chimerax.blastprotein.ui.results.BlastProteinResults object at 0x161c76790> During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/save_command/dialog.py", line 116, in <lambda> lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output file", File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/save_command/dialog.py", line 127, in show_save_file_dialog _dlg.display(session, **kw) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/save_command/dialog.py", line 51, in display run(session, cmd) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.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 "/Users/narbadaupreti/Desktop/ChimeraX-1.5.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 "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/save_command/cmd.py", line 75, in cmd_save Command(session, registry=registry).run(provider_cmd_text, log=log) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.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 "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/save_command/cmd.py", line 90, in provider_save saver_info.save(session, path, **provider_kw) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core_formats/__init__.py", line 84, in save return cxs_save(session, path, **kw) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 899, in save session.save(output, version=version, include_maps=include_maps) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 625, in save mgr.discovery(self._state_containers) File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 266, in discovery raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e)) ValueError: error processing: 'tools' -> <chimerax.core.tools.Tools object at 0x1234329d0> -> <chimerax.blastprotein.ui.results.BlastProteinResults object at 0x161c76790>: Error while saving session data for 'tools' -> <chimerax.core.tools.Tools object at 0x1234329d0> -> <chimerax.blastprotein.ui.results.BlastProteinResults object at 0x161c76790> ValueError: error processing: 'tools' -> -> : Error while saving session data for 'tools' -> -> File "/Users/narbadaupreti/Desktop/ChimeraX-1.5.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/session.py", line 266, in discovery raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e)) See log for complete Python traceback. OpenGL version: 4.1 Metal - 89.4 OpenGL renderer: Apple M1 OpenGL vendor: Apple Python: 3.9.11 Locale: en_US.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: MacBookPro17,1 Model Number: MYD92LL/A Chip: Apple M1 Total Number of Cores: 8 (4 performance and 4 efficiency) Memory: 8 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: 6 days, 3 hours, 59 minutes Graphics/Displays: Apple M1: Chipset Model: Apple M1 Type: GPU Bus: Built-In Total Number of Cores: 8 Vendor: Apple (0x106b) Metal Support: Metal 3 Displays: Color LCD: Display Type: Built-In Retina LCD Resolution: 2560 x 1600 Retina Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: Yes Connection Type: Internal 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: 1.5 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 colorama: 0.4.5 cxservices: 1.2 cycler: 0.11.0 Cython: 0.29.32 debugpy: 1.6.4 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: 2022.7.31 imagesize: 1.4.1 importlib-metadata: 5.1.0 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: 5.1.0 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 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: 22.2.2 pkginfo: 1.8.3 platformdirs: 2.5.4 prompt-toolkit: 3.0.33 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 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: 0.6.2 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: 1.26.13 wcwidth: 0.2.5 webcolors: 1.12 wheel: 0.37.1 wheel-filename: 1.4.1 zipp: 3.11.0
Change History (2)
comment:1 by , 5 months ago
Component: | Unassigned → Sessions |
---|---|
Owner: | set to |
Platform: | → all |
Project: | → ChimeraX |
Status: | new → accepted |
Summary: | ChimeraX bug report submission → Session save: ItemTable's selectionModel() is None |
comment:2 by , 5 months ago
Resolution: | → duplicate |
---|---|
Status: | accepted → closed |
Note:
See TracTickets
for help on using tickets.
Duplicate of #16653