[Bioperl-l] Variation_IO.t [was: External dependencies]
Sun, 17 Dec 2000 10:35:18 +0000
We better move this discussion back to bioperl-l so that other can
help. I've never ran perl in a Mac.
It seems to me that either the XML modules are not installed properly
Variation_IO.t is not going through the motions as it should.
Todd Richmond wrote:
> On 12/15/00 1:30 AM, "Heikki Lehvaslaiho" <firstname.lastname@example.org> wrote:
> > I think I know what is going on. In perl distribution 5.004 and before
> > Text::Wrap (version 97.011701) was able to wrap only on word boundary.
> > The latest version (98.112902) has this fixed.
> This indeed fixes the problem - however, it appears that not all of the
> tests are run. It starts with "1..26", then runs through the first 17 tests
> successfully and then just stops. Two new files are created:
> "mutations.out.xml" and "polymorphism.out.xml", but they are both empty. In
> addition, to run the tests on a Mac, I had to remove the "t/" from in front
> of the file names within Variation_IO.t, because otherwise it couldn't find
> them. This is probably a problem with the calling directory and differences
> between Unix and MacOS in defining what that is. Moving Variation_IO.t up
> one level outside of the "t" directory failed to fix the problem (which is
> where I assume the "make test" would have been run from).
> Dr Todd Richmond http://cellwall.stanford.edu/todd
> Carnegie Institution email: email@example.com
> Department of Plant Biology fax: 1-650-325-6857
> 260 Panama Street phone: 1-650-325-1521 x431
> Stanford, CA 94305
______ _/ _/_____________________________________________________
_/ _/ http://www.ebi.ac.uk/mutations/
_/ _/ _/ Heikki Lehvaslaiho firstname.lastname@example.org
_/_/_/_/_/ EMBL Outstation, European Bioinformatics Institute
_/ _/ _/ Wellcome Trust Genome Campus, Hinxton
_/ _/ _/ Cambs. CB10 1SD, United Kingdom
_/ Phone: +44 (0)1223 494 644 FAX: +44 (0)1223 494 468