[Biojava-l] atomcache with a file

[Jay Vyas]

Thanks... but I have a directory of pdb files

/Users/jay/pdb/a1.pdb

Is it possible for atom cache to initially load the file from this directory
?

I don't care where it caches the data ...  Its just that my pdb file is not
at RCSB, and it appears that atomcache
is set up to go to RCSB by default to find a pdb file.

On Thu, Sep 15, 2011 at 11:52 PM, Andreas Prlic <andreas at sdsc.edu> wrote:

> Hi Jay,
>
> you can use it like this:
>
>                // by default PDB files will be stored in a temporary
> directory
>                // there are two ways of configuring a directory, that can
> get
> re-used multiple times:
>                // A) set the environment variable PDB_DIR
>                // B) call cache.setPath(path)
>                AtomCache cache = new AtomCache();
>
>                try {
>                        // alternative: try d4hhba_ 4hhb.A 4hhb.A:1-100
>                        Structure s = cache.getStructure("4hhb");
>                        System.out.println(s);
>                }  catch (Exception e) {
>
>                        e.printStackTrace();
>
>                }
>
> Hope that helps,
>
> Andreas
>
>
>
> On Thu, Sep 15, 2011 at 8:32 PM, Jay Vyas <jayunit100 at gmail.com> wrote:
> > Hi guys : Anyone want to share a code snippet to use AtomCache to load a
> PDB
> > File from disk ?
> >
> > --
> > Jay Vyas
> > MMSB/UCHC
> > _______________________________________________
> > Biojava-l mailing list  -  Biojava-l at lists.open-bio.org
> > http://lists.open-bio.org/mailman/listinfo/biojava-l
> >
>



-- 
Jay Vyas
MMSB/UCHC