[Biopython-dev] Is Bio.Crystal obsolete?
Peter
biopython-dev at maubp.freeserve.co.uk
Mon Jul 16 14:50:49 EDT 2007
I just had a look at the Bio.Crystal module by Katharine Lindner (2002),
consisting of the single file Bio/Crystal/__init__.py whose preamble states:
> Hetero, Crystal and Chain exist to represent the NDB Atlas
> structure. Atlas is a minimal subset of the PDB format. Heteo
> supports a 3 alphameric code. The NDB web interface is located at
> ...
The old link should probably be updated as it doesn't work, perhaps:
http://ndbserver.rutgers.edu/atlas/index.html
As far as I can see, they now provide their downloads in PDB, CIF and an
XML file format - and the PDB files look like full thing to me at first
glance rather than a minimal subset.
There is a unit test, Tests/test_Crystal.py but no example input files.
This module looks obsolete to me - can we mark it as deprecated after
checking on the main list no one uses it (as done for Bio.Kabat back in
March 2007)?
Peter
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