id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 2393 open 0069 fromDatabase emdb: MRC file is truncated maria.anastasina@… Tom Goddard "{{{ The following bug report has been submitted: Platform: Windows-10-10.0.15063 ChimeraX Version: 0.91 (2019-09-07) Description (Describe the actions that caused this problem to occur here) Log: UCSF ChimeraX version: 0.91 (2019-09-07) © 2016-2019 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open 0069 fromDatabase emdb Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\data\fileformats.py"", line 151, in open_file data = open_func(apath, **kw) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\data\ccp4\\__init__.py"", line 18, in open return [CCP4Grid(path)] File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\data\ccp4\ccp4_grid.py"", line 21, in __init__ MRCGrid.__init__(self, path, file_type = 'ccp4') File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\data\mrc\mrc_grid.py"", line 24, in __init__ d = mrc_format.MRC_Data(path, file_type) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\data\mrc\mrc_format.py"", line 39, in __init__ nc = self.read_values(file, int32, 1) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\data\mrc\mrc_format.py"", line 256, in read_values % (count, etype.__name__))) File """", line None SyntaxError: MRC file is truncated. Failed reading 1 values, type int32 During handling of the above exception, another exception occurred: Traceback (most recent call last): File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\cmd_line\tool.py"", line 254, in execute cmd.run(cmd_text) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\commands\cli.py"", line 2688, in run result = ci.function(session, **kw_args) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\commands\open.py"", line 44, in open db_models, status = _fetch_from_database(session, db_id, db_name, db_format, name, ignore_cache, **kw) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\core\commands\open.py"", line 148, in _fetch_from_database ignore_cache=ignore_cache, **kw) File ""C:\Program Files\ChimeraX\bin\lib\site-packages\chimerax\core\fetch.py"", line 434, in fetch_from_database models, status = df.fetch(session, id, format=format, ignore_cache=ignore_cache, **kw) File ""C:\Program Files\ChimeraX\bin\lib\site-packages\chimerax\core\fetch.py"", line 497, in fetch return fetch(session, database_id, ignore_cache=ignore_cache, **kw) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\emdb_fetch.py"", line 48, in fetch_emdb models, status = io.open_data(session, filename, format = 'ccp4', name = emdb_id, **kw) File ""C:\Program Files\ChimeraX\bin\lib\site-packages\chimerax\core\io.py"", line 435, in open_data models, status = open_func(*args, **kw) File ""C:\Program Files\ChimeraX\bin\lib\site-packages\chimerax\map\volume.py"", line 3598, in open_map_format return open_map(session, path, name=name, format=format, **kw) File ""C:\Program Files\ChimeraX\bin\lib\site-packages\chimerax\map\volume.py"", line 3197, in open_map verbose = kw.get('verbose')) File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\data\fileformats.py"", line 157, in open_file raise FileFormatError(value) chimerax.map.data.fileformats.FileFormatError: MRC file is truncated. Failed reading 1 values, type int32 chimerax.map.data.fileformats.FileFormatError: MRC file is truncated. Failed reading 1 values, type int32 File ""C:\Program Files\ChimeraX\bin\lib\site- packages\chimerax\map\data\fileformats.py"", line 157, in open_file raise FileFormatError(value) See log for complete Python traceback. OpenGL version: 3.3.0 NVIDIA 417.71 OpenGL renderer: Quadro P4000/PCIe/SSE2 OpenGL vendor: NVIDIA Corporation }}} " defect closed normal Volume Data not a bug all ChimeraX