id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 516 Associating structure with sequence alignment leads to crash Tom Goddard Eric Pettersen "Opening the nup84.ihm file (attached), and then expanding the ""Sequence alignments"" model in model panel and clicking the show checkbutton for nup84_3ikoC_3jroC_3f3fG.fa (#1.3.1) causes the fasta file to be loaded and the 3 PDB models to be loaded and associated with the sequence. ChimeraX Jan 6 2017 nightly build then crashes, while ChimeraX Dec 22 2016 works correctly. If I comment out the ihm code (bundles/ihm/ihm.py) that forces the association of the structures (this also prevents aligning the structures) then no crash occurs. The crash gives a Python traceback to the shell indicating it is drawing ribbons. Fatal Python error: Segmentation fault Thread 0x000070000fbdd000 (most recent call first): File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/threading.py"", line 297 in wait File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/threading.py"", line 549 in wait File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/threading.py"", line 1178 in run File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/threading.py"", line 914 in _bootstrap_inner File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/threading.py"", line 882 in _bootstrap Current thread 0x00007fffd3c213c0 (most recent call first): File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/atomic/molc.py"", line 37 in get_prop File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/atomic/structure.py"", line 800 in _create_ribbon_graphics File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/atomic/structure.py"", line 272 in _update_graphics_if_needed File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/atomic/structure.py"", line 1883 in _update_graphics_if_needed File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/triggerset.py"", line 126 in invoke File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/triggerset.py"", line 186 in activate File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/triggerset.py"", line 321 in activate_trigger File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/graphics/view.py"", line 220 in check_for_drawing_change File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/updateloop.py"", line 39 in draw_new_frame File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/ui/graphics.py"", line 83 in _redraw_timer_callback File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/chimerax/core/ui/gui.py"", line 166 in event_loop File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/ChimeraX_main.py"", line 547 in init File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/site-packages/ChimeraX_main.py"", line 638 in File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/runpy.py"", line 85 in _run_code File ""/Users/goddard/ucsf/chimerax/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.5/lib/python3.5/runpy.py"", line 170 in _run_module_as_main Segmentation fault: 11 " defect closed major Sequence fixed all ChimeraX