URL:
<http://gna.org/bugs/?20469>
Summary: Failure in reading X-ray PDB files using the
ScientificPython parser.
Project: relax
Submitted by: bugman
Submitted on: Fri 01 Feb 2013 10:53:32 AM GMT
Category: relax's source code
Severity: 2 - Minor
Priority: 3 - Low
Status: None
Privacy: Public
Assigned to: bugman
Originator Name:
Originator Email:
Open/Closed: Open
Discussion Lock: Any
Release: 2.2.0
Operating System: All systems
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Details:
The presence of PDB crystallographic unit cell records triggers the following
bug:
Scientific Python PDB parser.
Traceback (most recent call last):
File "test_suite/system_tests/structure.py", line 63, in
test_bug_sr_2998_broken_conect_records
self.interpreter.structure.read_pdb('1RTE_trunc.pdb', dir=path,
parser='scientific')
File "prompt/uf_objects.py", line 219, in __call__
self._backend(*new_args, **uf_kargs)
File "generic_fns/structure/main.py", line 504, in read_pdb
cdp.structure.load_pdb(file_path, read_mol=read_mol,
set_mol_name=set_mol_name, read_model=read_model, set_model_num=set_model_num,
verbosity=verbosity)
File "generic_fns/structure/scientific.py", line 602, in load_pdb
model = PDB.Structure(file_path, model_num)
File "extern/scientific_python/IO/PDB.py", line 1160, in __init__
self.parseFile(PDBFile(file_or_filename))
File "extern/scientific_python/IO/PDB.py", line 1381, in parseFile
from extern.scientific_python.Geometry.Transformation \
ImportError: No module named Transformation
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