[Owl-devel] Residue Interaction Graph generation

[Jose M. Duarte]

[I'm resending this that I posted earlier to Dan, so that it gets archived.
It might be helpful to someone]



Hi Dan

You can check out the script make-owl.sh with:

svn export svn://bioinformatics.org/svnroot/owl/trunk/scripts/make-owl.sh


Then run it in a temp dir:

./make-owl.sh svn://bioinformatics.org/svnroot/owl/trunk .

that should give you one jar file trunk.jar

after that get all the jar dependencies:

svn export svn://bioinformatics.org/svnroot/owl/trunk/jars

And this script should run then the genGraph program:

--------
#!/bin/sh

jarfiles=`ls jars/*.jar`
CLASSPATH="."
for jarfile in $jarfiles
do
    CLASSPATH="$jarfile:$
CLASSPATH"
done

CLASSPATH=trunk.jar:$CLASSPATH

java genGraph $@

--------

Jose






On 24 February 2010 12:34, Dan Bolser <dan.bolser at gmail.com> wrote:

> On 24 February 2010 11:30, Filippis, Ioannis <i.filippis at imperial.ac.uk>
> wrote:
> > Have a look at bioinformatics.org / Jose's mail about it.
> >
> > I will try to find an easy example how to generate graphs based on it
>
> Cheers Ioannis, just catching up.
>
> All the best,
> Dan.
>
>
> > Ioannis
> > ________________________________________
> > From: Dan Bolser [dan.bolser at gmail.com]
> > Sent: 24 February 2010 11:28
> > To: Filippis, Ioannis
> > Subject: Re: Random question about res-res contacts
> >
> > On 24 February 2010 11:22, Filippis, Ioannis <i.filippis at imperial.ac.uk>
> wrote:
> >> With graph generation code you mean creating a RIG or calculating graph
> properties? The first is in aglappe (now open-source) and the second is in
> one of the svn repositories in black. I can give you the second one if you
> want it.
> >
> > I'm after the former. Where can I get it?
> >
> >
> > Cheers,
> > Dan.
> >
>
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