id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 1729 OpenGL buffer was not deleted before core.graphics.Buffer chimerax-bug-report@… Tom Goddard "{{{ The following bug report has been submitted: Platform: Darwin-18.2.0-x86_64-i386-64bit ChimeraX Version: 0.9 (2019-01-26) Description (Describe the actions that caused this problem to occur here) Log: UCSF ChimeraX version: 0.9 (2019-01-26) © 2016-2019 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open /Users/achatter/Desktop/ATPSynthase_StdColors.cxs format session opened ChimeraX session > open /Users/achatter/Desktop/ATPSynthase_StdColors.cxs format session opened ChimeraX session > show #1 target m > show #1 target m > select #1.5 3748 atoms selected > select #1.4 3748 atoms selected Exception ignored in: Traceback (most recent call last): File ""/private/var/folders/80/kqdgppkx28ncvjbr2s6mksqc0000gn/T/AppTranslocation/C951F5E7-09D4-4048-B50B-6B2D9FED2917/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/graphics/opengl.py"", line 2176, in __del__ raise RuntimeError('OpenGL buffer was not deleted before core.graphics.Buffer destroyed') RuntimeError: OpenGL buffer was not deleted before core.graphics.Buffer destroyed > select #1.3 3748 atoms selected Exception ignored in: Traceback (most recent call last): File ""/private/var/folders/80/kqdgppkx28ncvjbr2s6mksqc0000gn/T/AppTranslocation/C951F5E7-09D4-4048-B50B-6B2D9FED2917/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/graphics/opengl.py"", line 2176, in __del__ raise RuntimeError('OpenGL buffer was not deleted before core.graphics.Buffer destroyed') RuntimeError: OpenGL buffer was not deleted before core.graphics.Buffer destroyed > select #1 26318 atoms, 25776 bonds, 29 pseudobonds, 2 models selected Exception ignored in: Traceback (most recent call last): File ""/private/var/folders/80/kqdgppkx28ncvjbr2s6mksqc0000gn/T/AppTranslocation/C951F5E7-09D4-4048-B50B-6B2D9FED2917/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/graphics/opengl.py"", line 2176, in __del__ raise RuntimeError('OpenGL buffer was not deleted before core.graphics.Buffer destroyed') RuntimeError: OpenGL buffer was not deleted before core.graphics.Buffer destroyed Exception ignored in: Traceback (most recent call last): File ""/private/var/folders/80/kqdgppkx28ncvjbr2s6mksqc0000gn/T/AppTranslocation/C951F5E7-09D4-4048-B50B-6B2D9FED2917/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/graphics/opengl.py"", line 2176, in __del__ raise RuntimeError('OpenGL buffer was not deleted before core.graphics.Buffer destroyed') RuntimeError: OpenGL buffer was not deleted before core.graphics.Buffer destroyed Exception ignored in: Traceback (most recent call last): File ""/private/var/folders/80/kqdgppkx28ncvjbr2s6mksqc0000gn/T/AppTranslocation/C951F5E7-09D4-4048-B50B-6B2D9FED2917/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/graphics/opengl.py"", line 2176, in __del__ raise RuntimeError('OpenGL buffer was not deleted before core.graphics.Buffer destroyed') RuntimeError: OpenGL buffer was not deleted before core.graphics.Buffer destroyed Exception ignored in: Traceback (most recent call last): File ""/private/var/folders/80/kqdgppkx28ncvjbr2s6mksqc0000gn/T/AppTranslocation/C951F5E7-09D4-4048-B50B-6B2D9FED2917/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/graphics/opengl.py"", line 2176, in __del__ raise RuntimeError('OpenGL buffer was not deleted before core.graphics.Buffer destroyed') RuntimeError: OpenGL buffer was not deleted before core.graphics.Buffer destroyed > ~select #1 Nothing selected > select sequence KRTGAIVDVPVGEELLGR 399 atoms, 399 bonds selected > colour sel hotpink > hide selAtoms surfaces > ui mousemode rightMode rotate > select sequence KRTGAIVDVPVGEELLGR 399 atoms, 399 bonds selected > select sequence PIGSKTRRR Nothing selected > select sequence IGSKTRRR Nothing selected > select sequence KTRRR Nothing selected > select 26318 atoms, 25776 bonds, 29 pseudobonds, 2 models selected Expected an objects specifieror a keyword sequence chain Missing or invalid ""chains"" argument: invalid atoms specifier sequence chain Missing or invalid ""chains"" argument: invalid atoms specifier sequence chain Missing or invalid ""chains"" argument: invalid atoms specifier Unknown command: sequence chainA Unknown command: sequence chain/A sequence chain Missing or invalid ""chains"" argument: invalid atoms specifier > show #1 target m > sequence chain #1/A-C Alignment identifier is 1 > colour sel hotpink > hide selAtoms surfaces > colour sel hotpink > hide selAtoms surfaces > colour sel hotpink > hide selAtoms surfaces > colour sel hotpink > show selAtoms surfaces > undo > colour sel hotpink > hide selAtoms surfaces > show selAtoms surfaces > select :ADP 81 atoms, 87 bonds selected > colour sel green > style selAtoms ball Changed 81 atom styles > show selAtoms surfaces > ui mousemode rightMode zoom > select :DCW 16 atoms, 17 bonds selected > style selAtoms ball Changed 16 atom styles > colour sel white > select :ADP 81 atoms, 87 bonds selected > hide selAtoms surfaces > colour sel white > colour sel white > lighting simple > lighting full > select :DCW 16 atoms, 17 bonds selected > colour sel green > colour sel lightgreen > colour sel red > select :ADP 81 atoms, 87 bonds selected > colour sel orange > colour sel lightorange Expected a coloror one of 'byatom', 'bychain', 'byelement', 'byhetero', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random'or a keyword > colour sel light orange Expected a collection of one of 'All', 'atoms', 'bonds', 'cartoons', 'pseudobonds', 'ribbons', 'rings', or 'surfaces'or a keyword > select :ADP 81 atoms, 87 bonds selected > colour sel light purple Expected a collection of one of 'All', 'atoms', 'bonds', 'cartoons', 'pseudobonds', 'ribbons', 'rings', or 'surfaces'or a keyword > colour sel light aubergine Expected a collection of one of 'All', 'atoms', 'bonds', 'cartoons', 'pseudobonds', 'ribbons', 'rings', or 'surfaces'or a keyword > colour sel rainbow Expected a coloror one of 'byatom', 'bychain', 'byelement', 'byhetero', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms', or 'random'or a keyword > colour sel medium violet > lighting soft > lighting simple > set bgColor black > set bgColor black > lighting flat > set silhouettes false > lighting flat > lighting full > lighting soft > lighting simple > lighting simple > lighting shadows true > lighting soft > lighting full > lighting shadows false > set bgColor white > select :ATP 62 atoms, 66 bonds selected > colour sel orange > style selAtoms ball Changed 62 atom styles > colour sel purple > colour sel blue > ui mousemode rightMode move label > ui mousemode rightMode label > label #1/C:143 > ui mousemode rightMode move label > ui mousemode rightMode move label > undo > undo > undo > undo > label Expected one of 'atoms', 'bonds', 'pseudobonds', or 'residues'or a keyword Expected one of 'atoms', 'bonds', 'pseudobonds', or 'residues'or a keyword Expected one of 'atoms', 'bonds', 'pseudobonds', or 'residues'or a keyword > undo > undo > undo > undo > label delete > redo > redo > colour sel red > colour sel red > ui mousemode rightMode zoom > colour sel red > hide selAtoms surfaces > show selAtoms surfaces > hide /B target s > hide /B target c > hide /B target abp > hide /F target abp > hide /F target c > hide /F target s > hide /D target abp > hide /D target c > hide /D target s > hide /D target s > show /A target s > show /B target s > hide /E target s > hide /E target c > hide /E target abp > colour sel red > save session /Users/achatter/Desktop/ATP5A1-RBD.cxs Session file format is not finalized, and thus might not be restorable in other versions of ChimeraX. > colour sel red > colour sel red > set bgColor black > movie record > turn y 2 180 > wait 180 > movie encode /Users/achatter/Desktop/movie1.mp4 Movie saved to /Users/achatter/Desktop/movie1.mp4 > hide selAtoms surfaces > show selAtoms ribbons > style selAtoms stick Changed 195 atom styles > show selAtoms > style selAtoms stick Changed 195 atom styles > show /B target abp > save session /Users/achatter/Desktop/ATP5A1-RBD.cxs Session file format is not finalized, and thus might not be restorable in other versions of ChimeraX. Unknown command: Sequence Chain #1/D-F Unknown command: Sequence Chain#1/D-F Unknown command: SequenceChain#1/D-F Unknown command: Sequence chain#1/D-F Unknown command: Sequence chain #1/D-F Unknown command: Sequence chain #1/D Unknown command: Sequence chain #1 /D Unknown command: Sequence chain #1/D Unknown command: Sequence chain #1/D Unknown command: Seq chain #1/D sequence chain Missing or invalid ""chains"" argument: invalid atoms specifier > sequence chain #1/D Alignment identifier is 1.D > sequence chain #1/D-F Alignment identifier is 1 Traceback (most recent call last): File ""/private/var/folders/80/kqdgppkx28ncvjbr2s6mksqc0000gn/T/AppTranslocation/C951F5E7-09D4-4048-B50B-6B2D9FED2917/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/ui/gui.py"", line 530, in customEvent func(*args, **kw) File ""/private/var/folders/80/kqdgppkx28ncvjbr2s6mksqc0000gn/T/AppTranslocation/C951F5E7-09D4-4048-B50B-6B2D9FED2917/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/ui/gui.py"", line 1284, in status StatusLogger.status(self, *args, **kw) File ""/private/var/folders/80/kqdgppkx28ncvjbr2s6mksqc0000gn/T/AppTranslocation/C951F5E7-09D4-4048-B50B-6B2D9FED2917/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/logger.py"", line 196, in status if l.status(msg, color, secondary) and getattr(l, ""excludes_other_logs"", True): File ""/private/var/folders/80/kqdgppkx28ncvjbr2s6mksqc0000gn/T/AppTranslocation/C951F5E7-09D4-4048-B50B-6B2D9FED2917/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/ui/statusbar.py"", line 126, in status r.draw_background() File ""/private/var/folders/80/kqdgppkx28ncvjbr2s6mksqc0000gn/T/AppTranslocation/C951F5E7-09D4-4048-B50B-6B2D9FED2917/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/graphics/opengl.py"", line 964, in draw_background GL.glClear(flags) File ""src/errorchecker.pyx"", line 53, in OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError OpenGL.error.GLError: GLError( err = 1286, description = b'invalid framebuffer operation', baseOperation = glClear, cArguments = (16640,) ) OpenGL.error.GLError: GLError( err = 1286, description = b'invalid framebuffer operation', baseOperation = glClear, cArguments = (16640,) ) File ""src/errorchecker.pyx"", line 53, in OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError See log for complete Python traceback. OpenGL version: 4.1 ATI-2.4.10 OpenGL renderer: AMD Radeon Pro 560 OpenGL Engine OpenGL vendor: ATI Technologies Inc. }}} " defect closed normal Graphics 0.9 can't reproduce all ChimeraX