id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 2865 Problem saving MRC/PDB: name 'model' is not defined doonam.kim@… Tom Goddard "{{{ The following bug report has been submitted: Platform: Darwin-18.7.0-x86_64-i386-64bit ChimeraX Version: 0.92 (2020-02-19) Description Just trying to save as a mrc resulted in an error. Of course, this is my fault (I opened pdb file). Log: Startup Messages --- warning | Populating font family aliases took 560 ms. Replace uses of missing font family ""Lucida Sans"" with one that exists to avoid this cost. UCSF ChimeraX version: 0.92 (2020-02-19) © 2016-2020 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open /Users/kimd999/Projects/AI/MARS/structures/PDX1_2/PDX1_2.pdb File not found: /Users/kimd999/Projects/AI/MARS/structures/PDX1_2/PDX1_2.pdb > open > /Users/kimd999/Projects/AI/MARS/structures/PDX1_2/rotated/PDX1_2_x_30_y_30.pdb Chain information for PDX1_2_x_30_y_30.pdb #1 --- Chain | Description A B C D E F G H I J K X | No description available > save data%dmodel.mrc models #1 Traceback (most recent call last): File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/cmd_line/tool.py"", line 258, in execute cmd.run(cmd_text) File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/commands/cli.py"", line 2837, in run result = ci.function(session, **kw_args) File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/commands/save.py"", line 61, in save fmt.export(session, filename, fmt.nicknames[0], **kw) File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/io.py"", line 229, in export result = self.export_func(session, path, **kw) File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/map/volume.py"", line 3560, in save_map mstring = ' (#%s)' % ','.join(model.id_string for m in models) if models else '' File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/map/volume.py"", line 3560, in mstring = ' (#%s)' % ','.join(model.id_string for m in models) if models else '' NameError: name 'model' is not defined NameError: name 'model' is not defined File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/map/volume.py"", line 3560, in mstring = ' (#%s)' % ','.join(model.id_string for m in models) if models else '' See log for complete Python traceback. > save data%dmodel.mrc models #1 Traceback (most recent call last): File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/cmd_line/tool.py"", line 258, in execute cmd.run(cmd_text) File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/commands/cli.py"", line 2837, in run result = ci.function(session, **kw_args) File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/commands/save.py"", line 61, in save fmt.export(session, filename, fmt.nicknames[0], **kw) File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/io.py"", line 229, in export result = self.export_func(session, path, **kw) File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/map/volume.py"", line 3560, in save_map mstring = ' (#%s)' % ','.join(model.id_string for m in models) if models else '' File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/map/volume.py"", line 3560, in mstring = ' (#%s)' % ','.join(model.id_string for m in models) if models else '' NameError: name 'model' is not defined NameError: name 'model' is not defined File ""/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/map/volume.py"", line 3560, in mstring = ' (#%s)' % ','.join(model.id_string for m in models) if models else '' See log for complete Python traceback. OpenGL version: 4.1 INTEL-12.10.14 OpenGL renderer: Intel(R) Iris(TM) Plus Graphics 655 OpenGL vendor: Intel Inc. }}} " defect closed normal Input/Output fixed all ChimeraX