id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 790 error saving session with crosslinks histogram Elaine Meng Tom Goddard "If I open the attached cxc file and then try to save session, I get the following error and no file is produced: Traceback (most recent call last): File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/cmd_line/tool.py"", line 177, in execute cmd.run(cmd_text) File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/commands/cli.py"", line 2395, in run result = ci.function(session, **kw_args) File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/commands/save.py"", line 58, in save fmt.export(session, filename, fmt.nicknames[0], **kw) File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/io.py"", line 193, in export result = self.export_func(session, path, **kw) File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/session.py"", line 571, in save session.save(output, version=version) File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/session.py"", line 440, in save mgr.discovery(self._state_containers) File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/session.py"", line 200, in discovery self.processed[key] = self.process(obj) File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/session.py"", line 226, in process return copy_state(data, convert=self._add_obj) File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/state.py"", line 172, in copy_state return _copy(data) File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/state.py"", line 159, in _copy items = [(_copy(k), _copy(v)) for k, v in data.items()] File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/state.py"", line 159, in items = [(_copy(k), _copy(v)) for k, v in data.items()] File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/state.py"", line 159, in _copy items = [(_copy(k), _copy(v)) for k, v in data.items()] File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/state.py"", line 159, in items = [(_copy(k), _copy(v)) for k, v in data.items()] File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/state.py"", line 170, in _copy return convert(data) File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/session.py"", line 206, in _add_obj uid = _UniqueName.from_obj(self.session, obj) File ""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/session.py"", line 105, in from_obj (obj_cls.__name__, bundle_info.name)) RuntimeError: unable to restore objects of LengthsPlot class in ChimeraX-Crosslinks bundle I'd started ChimeraX from the Terminal and these messages had appeared therein (in case it matters): [chopin:~/Desktop] meng% chix hb3.cxc GVA info: Successfully connected to the Intel plugin, offline Gen7 Could not find tool ""Crosslinks"" 2017-08-08 15:53:29.097 QtWebEngineProcess[35162:2034939] Couldn't set selectedTextBackgroundColor from default () " defect closed major Input/Output fixed all ChimeraX