id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 3090 open2 not handling TIFF stack correctly goddard@… Eric Pettersen "{{{ The following bug report has been submitted: Platform: Darwin-19.4.0-x86_64-i386-64bit ChimeraX Version: 0.94 (2020-04-20) Description open2 does not seem to open tif files while open works correctly. Log: UCSF ChimeraX version: 0.94.dev202004200102 (2020-04-20) © 2016-2020 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open /Users/goddard/bennu/global_mosaic_4x.tif Opened global_mosaic_4x.tif, grid size 12675,6338,1, pixel 1, shown at step 4, values uint8 > open2 /Users/goddard/bennu/global_mosaic_4x.tif Traceback (most recent call last): File ""/Users/goddard/Desktop/ChimeraX Apr 20 2020.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 ""/Users/goddard/Desktop/ChimeraX Apr 20 2020.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/commands/cli.py"", line 2848, in run result = ci.function(session, **kw_args) File ""/Users/goddard/Desktop/ChimeraX Apr 20 2020.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/open_command/cmd.py"", line 86, in cmd_open Command(session, registry=registry).run(provider_cmd_text, log=log) File ""/Users/goddard/Desktop/ChimeraX Apr 20 2020.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/core/commands/cli.py"", line 2848, in run result = ci.function(session, **kw_args) File ""/Users/goddard/Desktop/ChimeraX Apr 20 2020.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/open_command/cmd.py"", line 124, in provider_open opener_info.open, (session, paths, name), provider_kw) File ""/Users/goddard/Desktop/ChimeraX Apr 20 2020.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/open_command/cmd.py"", line 355, in collated_open return func(*func_args, **func_kw) File ""/Users/goddard/Desktop/ChimeraX Apr 20 2020.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/map/__init__.py"", line 147, in open return open_map(session, path, format=_name, **kw) File ""/Users/goddard/Desktop/ChimeraX Apr 20 2020.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/map/volume.py"", line 3283, in open_map grids = data.open_file(path, file_type = format, log = session.logger, **kw) File ""/Users/goddard/Desktop/ChimeraX Apr 20 2020.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/map/data/fileformats.py"", line 144, in open_file fmt = file_format_by_name(file_type) File ""/Users/goddard/Desktop/ChimeraX Apr 20 2020.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/map/data/fileformats.py"", line 202, in file_format_by_name raise ValueError('Unknown map file format %s' % name) ValueError: Unknown map file format images ValueError: Unknown map file format images File ""/Users/goddard/Desktop/ChimeraX Apr 20 2020.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site- packages/chimerax/map/data/fileformats.py"", line 202, in file_format_by_name raise ValueError('Unknown map file format %s' % name) See log for complete Python traceback. OpenGL version: 4.1 ATI-3.8.24 OpenGL renderer: AMD Radeon Pro Vega 20 OpenGL Engine OpenGL vendor: ATI Technologies Inc. }}} " defect closed normal Input/Output fixed all ChimeraX