id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 1594 Eventually parsing of save-image keyword 'transparentBackground' goes south vikrambabuk@… Tom Goddard "{{{ The following bug report has been submitted: Platform: Darwin-18.0.0-x86_64-i386-64bit ChimeraX Version: 0.8 (2018-11-11) Description During the saving of high resolution image Log: UCSF ChimeraX version: 0.8 (2018-11-11) How to cite UCSF ChimeraX > open ""/Users/vikramkasaragod/Desktop/Manuscripts/Revision_Neuron/PDB_Resu bmission_Artemisinins/artesunate/ESRF20112017_CM132A1_combined_refine_113.pdb"" Summary of feedback from opening /Users/vikramkasaragod/Desktop/Manuscripts/Revision_Neuron/PDB_Resu bmission_Artemisinins/artesunate/ESRF20112017_CM132A1_combined_refine_113.pdb --- warnings | Ignored bad PDB record found on line 1 REMARK Date 2018-01-14 Time 17:42:21 CET +0100 (1515948141.57 s) Ignored bad PDB record found on line 2 REMARK PHENIX refinement Ignored bad PDB record found on line 4 REMARK ****************** INPUT FILES AND LABELS ****************************** Ignored bad PDB record found on line 5 REMARK Reflections: Ignored bad PDB record found on line 6 REMARK file name : /home/vikramkasaragod/Desktop/2017_11_20_ESRF/ccp4/combine_scaled_CM132A1_1.50A.mtz 65 messages similar to the above omitted Chain information for ESRF20112017_CM132A1_combined_refine_113.pdb #1 --- Chain | Description A | No description available > style selAtoms ball Changed 6925 atom styles > show selAtoms surfaces > lighting soft > hide selAtoms > select :DRG 54 atoms, 57 bonds selected > style selAtoms ball Changed 54 atom styles > show selAtoms > color selAtoms byhetero > color selAtoms bychain > color selAtoms byhetero > select H 3277 atoms selected > hide selAtoms > set bgColor black > set bgColor white > set bgColor gray > set bgColor white > set silhouettes true > set bgColor black > set bgColor white > save image filename format png transparentBackground true > save image filename format png transparentBackground true > save image filename format png transparentBackground true > save image filename format png transparentBackground true > ui mousemode rightMode translate > ui mousemode rightMode zoom > select :DRG 54 atoms, 57 bonds selected > color selAtoms byhetero > color selAtoms bychain > color selAtoms byhetero > save image filename format png transparentBackground true Expected a keyword Unknown command: transparentBackground true > save image filename format png transparentBackground true Expected a keyword Expected a keyword Expected a keyword Expected a keyword Invalid ""quality"" argument: Expected an integer > save image filename format png width 115 height 160 pixelSize 300 transparentBackground true Cannot specify width or height if pixel_size is given > save image filename format png pixelSize 300 transparentBackground true Traceback (most recent call last): File ""/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site- packages/chimerax/cmd_line/tool.py"", line 220, in execute cmd.run(cmd_text) File ""/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site- packages/chimerax/core/commands/cli.py"", line 2581, in run result = ci.function(session, **kw_args) File ""/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site- packages/chimerax/core/commands/save.py"", line 61, in save fmt.export(session, filename, fmt.nicknames[0], **kw) File ""/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site- packages/chimerax/core/io.py"", line 198, in export result = self.export_func(session, path, **kw) File ""/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site- packages/chimerax/core/image.py"", line 150, in save_image i.save(path, fmt.pil_name, **metadata) AttributeError: 'NoneType' object has no attribute 'save' AttributeError: 'NoneType' object has no attribute 'save' File ""/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site- packages/chimerax/core/image.py"", line 150, in save_image i.save(path, fmt.pil_name, **metadata) See log for complete Python traceback. > save image vikram format png pixelSize 300 transparentBackground true Traceback (most recent call last): File ""/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site- packages/chimerax/cmd_line/tool.py"", line 220, in execute cmd.run(cmd_text) File ""/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site- packages/chimerax/core/commands/cli.py"", line 2581, in run result = ci.function(session, **kw_args) File ""/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site- packages/chimerax/core/commands/save.py"", line 61, in save fmt.export(session, filename, fmt.nicknames[0], **kw) File ""/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site- packages/chimerax/core/io.py"", line 198, in export result = self.export_func(session, path, **kw) File ""/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site- packages/chimerax/core/image.py"", line 150, in save_image i.save(path, fmt.pil_name, **metadata) AttributeError: 'NoneType' object has no attribute 'save' AttributeError: 'NoneType' object has no attribute 'save' File ""/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site- packages/chimerax/core/image.py"", line 150, in save_image i.save(path, fmt.pil_name, **metadata) See log for complete Python traceback. OpenGL version: 4.1 INTEL-12.0.34 OpenGL renderer: Intel(R) Iris(TM) Graphics 650 OpenGL vendor: Intel Inc. }}} " defect closed normal Command Line 0.8 fixed Greg Couch all ChimeraX