[Biojava-dev] Scop page seems to be gone, build is broken.

[Spencer Bliven]

It looks like MRC SCOP is back up, so the tests should pass again.

1.75C should be accessible by passing a custom version to the
BerkeleyScopInstallation class, but I haven't done any tests on it.

BTW, I've been slowly working on a more complete set of tests for the scop
package. There's still a bit of stubbed out functionality in
RemoteScopInstallation that needs to get finished before they all pass and
I can check them in.

-Spencer


On Mon, Oct 14, 2013 at 1:27 PM, Andreas Prlic <andreas at sdsc.edu> wrote:

> Hi Steve,
>
> I have not tried it yet, is anything broken for you? The last few times
> they kept the files exactly the same, so it was easy to switch between
> versions...
>
> Andreas
>
>
> On Mon, Oct 14, 2013 at 1:18 PM, Steve Darnell <darnells at dnastar.com>
> wrote:
>
> > Greetings,
> >
> > I read in the PDB mailing list that SCOP and ASTRAL were updated to
> > version 1.75C last Thursday (10/10/2013). Did they make any changes to
> > break to Scop services in Biojava?
> >
> > ~Steve
> >
> > -----Original Message-----
> > From: biojava-dev-bounces at lists.open-bio.org [mailto:
> > biojava-dev-bounces at lists.open-bio.org] On Behalf Of Andreas Prlic
> > Sent: Sunday, October 13, 2013 11:28 PM
> > To: John Chilton
> > Cc: biojava-dev at lists.open-bio.org
> > Subject: Re: [Biojava-dev] Scop page seems to be gone, build is broken.
> >
> > Hi John,
> >
> > yes, you are right, it looks as if SCOP is currently down. Uncommenting
> > the junit test is prob a good temporary fix, until they are back online
> > again.
> >
> > Andreas
> >
> >
> > On Sun, Oct 13, 2013 at 9:05 PM, John Chilton <jchilton22 at gmail.com>
> > wrote:
> >
> > > ATTN Andreas Prlic, you are listed as an author on ScopInstallation.
> > >
> > > I'm trying to do a "mvn install" to run tests and generate a working
> > > jar but getting the following:
> > >
> > > Tests in error:
> > >   ScopInstallationTest.testComments:41 ? NullPointer
> > >
> > > Debugging the test found that the Scop file download location seems to
> > > be down (the ScopInstallation class tries to download "
> > > http://scop.mrc-lmb.cam.ac.uk/scop/parse/dir.com.scop.txt_1.75").
> > >
> > > Indeed, even the link to the homepage from Google is down. I will keep
> > > trying through the week, but in case the page is actually gone, how
> > > would you like to proceed?
> > >
> > > I will comment out this test for now.
> > >
> > > John Chilton
> > > _______________________________________________
> > > biojava-dev mailing list
> > > biojava-dev at lists.open-bio.org
> > > http://lists.open-bio.org/mailman/listinfo/biojava-dev
> > >
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