id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 2692 One-shot triggersets: 'set' object has no attribute 'append' Tristan Croll Eric Pettersen "{{{ The following bug report has been submitted: Platform: Linux-3.10.0-957.12.2.el7.x86_64-x86_64-with-centos-7.6.1810-Core ChimeraX Version: 0.91 (2019-12-10) Description Trying to use TriggerSet with `default_one_time=True` in `add_trigger()` leads to this (`TriggerSet._pending_del` is a set, not a list). Log: UCSF ChimeraX version: 0.91 (2019-12-10) © 2016-2019 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > isolde demo crystal_intro > set selectionWidth 4 before.pdb title: Crystal structure of etub from clostridium kluyveri [more info...] Chain information for before.pdb #1 --- Chain | Description A | predicted microcompartment protein Done loading forcefield before.pdb title: Crystal structure of etub from clostridium kluyveri [more info...] Chain information for before.pdb --- Chain | Description 1.1/A | predicted microcompartment protein WARNING: multiple experimental reflection datasets found: (dataset) FOBS, SIGFOBS, (dataset) IOBS, SIGIOBS, (dataset) DANO, SIGDANO, (dataset) F(+), SIGF(+), F(-), SIGF(-), (dataset) I(+), SIGI(+), I(-), SIGI(-) Automatically choosing ""(dataset) IOBS, SIGIOBS"". Reflection data provided as intensities. Performing French & Wilson scaling to convert to amplitudes... Loaded crystallographic demo: PDB ID 3io0 > isolde demo crystal_intro before.pdb title: Crystal structure of etub from clostridium kluyveri [more info...] Chain information for before.pdb #2 --- Chain | Description A | predicted microcompartment protein before.pdb title: Crystal structure of etub from clostridium kluyveri [more info...] Chain information for before.pdb --- Chain | Description 2.1/A | predicted microcompartment protein WARNING: multiple experimental reflection datasets found: (dataset) FOBS, SIGFOBS, (dataset) IOBS, SIGIOBS, (dataset) DANO, SIGDANO, (dataset) F(+), SIGF(+), F(-), SIGF(-), (dataset) I(+), SIGI(+), I(-), SIGI(-) Automatically choosing ""(dataset) IOBS, SIGIOBS"". Reflection data provided as intensities. Performing French & Wilson scaling to convert to amplitudes... Loaded crystallographic demo: PDB ID 3io0 Traceback (most recent call last): File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/core/triggerset.py"", line 130, in invoke return self._func(self._name, data) File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/delayed_reaction.py"", line 52, in callback self.ff(*self.ff_args) File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/maps/map_handler_base.py"", line 165, in _use_fast_thread_result self._set_surface(va, na, ta, hidden_edges) File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/map/volume.py"", line 2106, in _set_surface self.set_geometry(va, na, ta) File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/core/graphics/drawing.py"", line 653, in set_geometry art() File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/maps/mask_handler.py"", line 268, in __call__ self.set_surface_mask() File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/maps/mask_handler.py"", line 279, in set_surface_mask indices = numpy.where(self.mgr.get_vertex_mask(v))[0] File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/maps/mask_handler.py"", line 168, in get_vertex_mask self._update_mask() File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/maps/mask_handler.py"", line 163, in _update_mask self.triggers.activate_trigger('mask updated', None) File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/core/triggerset.py"", line 325, in activate_trigger trigger.activate(data) File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/core/triggerset.py"", line 188, in activate self._pending_del.append(handler) AttributeError: 'set' object has no attribute 'append' Error processing trigger ""new frame"": AttributeError: 'set' object has no attribute 'append' File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/core/triggerset.py"", line 188, in activate self._pending_del.append(handler) See log for complete Python traceback. Traceback (most recent call last): File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/core/triggerset.py"", line 130, in invoke return self._func(self._name, data) File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/delayed_reaction.py"", line 52, in callback self.ff(*self.ff_args) File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/maps/map_handler_base.py"", line 165, in _use_fast_thread_result self._set_surface(va, na, ta, hidden_edges) File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/map/volume.py"", line 2106, in _set_surface self.set_geometry(va, na, ta) File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/core/graphics/drawing.py"", line 653, in set_geometry art() File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/maps/mask_handler.py"", line 268, in __call__ self.set_surface_mask() File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/maps/mask_handler.py"", line 279, in set_surface_mask indices = numpy.where(self.mgr.get_vertex_mask(v))[0] File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/maps/mask_handler.py"", line 168, in get_vertex_mask self._update_mask() File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/maps/mask_handler.py"", line 163, in _update_mask self.triggers.activate_trigger('mask updated', None) File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/core/triggerset.py"", line 325, in activate_trigger trigger.activate(data) File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/core/triggerset.py"", line 188, in activate self._pending_del.append(handler) AttributeError: 'set' object has no attribute 'append' Error processing trigger ""new frame"": AttributeError: 'set' object has no attribute 'append' File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/core/triggerset.py"", line 188, in activate self._pending_del.append(handler) See log for complete Python traceback. Traceback (most recent call last): File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/core/triggerset.py"", line 130, in invoke return self._func(self._name, data) File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/delayed_reaction.py"", line 52, in callback self.ff(*self.ff_args) File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/maps/map_handler_base.py"", line 165, in _use_fast_thread_result self._set_surface(va, na, ta, hidden_edges) File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/map/volume.py"", line 2106, in _set_surface self.set_geometry(va, na, ta) File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/core/graphics/drawing.py"", line 653, in set_geometry art() File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/maps/mask_handler.py"", line 268, in __call__ self.set_surface_mask() File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/maps/mask_handler.py"", line 279, in set_surface_mask indices = numpy.where(self.mgr.get_vertex_mask(v))[0] File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/maps/mask_handler.py"", line 168, in get_vertex_mask self._update_mask() File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/maps/mask_handler.py"", line 163, in _update_mask self.triggers.activate_trigger('mask updated', None) File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/core/triggerset.py"", line 325, in activate_trigger trigger.activate(data) File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/core/triggerset.py"", line 188, in activate self._pending_del.append(handler) AttributeError: 'set' object has no attribute 'append' Error processing trigger ""new frame"": AttributeError: 'set' object has no attribute 'append' File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/core/triggerset.py"", line 188, in activate self._pending_del.append(handler) See log for complete Python traceback. Traceback (most recent call last): File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/core/triggerset.py"", line 130, in invoke return self._func(self._name, data) File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/delayed_reaction.py"", line 52, in callback self.ff(*self.ff_args) File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/maps/map_handler_base.py"", line 165, in _use_fast_thread_result self._set_surface(va, na, ta, hidden_edges) File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/map/volume.py"", line 2106, in _set_surface self.set_geometry(va, na, ta) File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/core/graphics/drawing.py"", line 653, in set_geometry art() File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/maps/mask_handler.py"", line 268, in __call__ self.set_surface_mask() File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/maps/mask_handler.py"", line 279, in set_surface_mask indices = numpy.where(self.mgr.get_vertex_mask(v))[0] File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/maps/mask_handler.py"", line 168, in get_vertex_mask self._update_mask() File ""/home/tic20/.local/share/ChimeraX/0.91/site- packages/chimerax/clipper/maps/mask_handler.py"", line 163, in _update_mask self.triggers.activate_trigger('mask updated', None) File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/core/triggerset.py"", line 325, in activate_trigger trigger.activate(data) File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/core/triggerset.py"", line 188, in activate self._pending_del.append(handler) AttributeError: 'set' object has no attribute 'append' Error processing trigger ""new frame"": AttributeError: 'set' object has no attribute 'append' File ""/opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/chimerax/core/triggerset.py"", line 188, in activate self._pending_del.append(handler) See log for complete Python traceback. > toolshed show Shell /opt/UCSF/ChimeraX-daily/lib/python3.7/site- packages/IPython/core/history.py:226: UserWarning: IPython History requires SQLite, your history will not be saved warn(""IPython History requires SQLite, your history will not be saved"") OpenGL version: 3.3.0 NVIDIA 418.87.01 OpenGL renderer: TITAN Xp/PCIe/SSE2 OpenGL vendor: NVIDIA Corporation }}} " defect closed normal Core fixed all ChimeraX