[BioLib-dev] EMBOSS mapping in Biolib

[Pjotr Prins]

Hi Chris,

If you pull the emboss branch on github it should build with

  ./configure --with-perl --with-emboss
  make
  make test

Note you need the submodules - it should read

  git submodules
 713800c4aa08ddf70b87f245a524c1a0b30c0942 contrib/EMBOSS (heads/biolib)
 3f05266254664f08f6e4f11c6ee005b6a8e083b3 tools/cmake-support (heads/master)
 4016e6040efa2b09659ef034ebe3c127fe0137c0 tools/rubydoctest (REL-1.0-10-g4016e60)

perhaps with

  git submodule update --init

all three are on my github account. The submodules read

  cat .gitmodules 

[submodule "src/clibs/rqtl"]
        path = src/clibs/rqtl
        url = git://github.com/pjotrp/rqtl.git
[submodule "tools/cmake-support"]
        path = tools/cmake-support
        url = git://github.com/pjotrp/cmake-support.git
[submodule "tools/rubydoctest"]
        path = tools/rubydoctest
        url = git://github.com/pjotrp/rubydoctest.git
[submodule "contrib/libsequence-1.6.6"]
        path = contrib/libsequence-1.6.6
        url = git://github.com/pjotrp/libsequence.git
[submodule "contrib/boost"]
        path = contrib/boost
        url = git://gitorious.org/boost/svn.git
[submodule "contrib/EMBOSS"]
        path = contrib/EMBOSS
        url = git://github.com/pjotrp/EMBOSS.git



Pj.
 
On Tue, Dec 01, 2009 at 01:56:24PM -0600, Chris Fields wrote:
> Thanks Pjotr.  I'll pull it off github and test it out this week (Mac OS X and Ubuntu Feisty).
> 
> chris
> 
> On Nov 28, 2009, at 4:12 AM, Pjotr Prins wrote:
> 
> > I just executed the EMBOSS mapping for Perl (and Python). The writeup at:
> > 
> >  http://biolib.open-bio.org/wiki/Mapping_EMBOSS#Mapping_EMBOSS_Perl_and_Python
> > 
> > It took three hours, and was a bit harder than normal after a succesful
> > Ruby mapping.
> > 
> > Pj.
> > _______________________________________________
> > BioLib-dev mailing list
> > BioLib-dev at lists.open-bio.org
> > http://lists.open-bio.org/mailman/listinfo/biolib-dev
>