gnu: vsearch: Restrict supported systems to x86_64-linux.
* gnu/packages/bioinformatics.scm (vsearch)[supported-systems]: Restrict
to x86_64-linux.
Signed-off-by: Andreas Enge <andreas@enge.fr>
gnu: clipper: Add 'file-name' field to source origin.
* gnu/packages/bioinformatics.scm (clipper)[source]: Add file-name.
gnu: Add vsearch.
* gnu/packages/bioinformatics.scm (vsearch): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
gnu: Add bio-blastxmlparser.
* gnu/packages/bioinformatics.scm (bio-blastxmlparser): New variable.
Merge branch 'core-updates'
gnu: Add seqmagick.
* gnu/packages/bioinformatics.scm (seqmagick): New variable.
Merge branch 'master' into core-updates
gnu: Add R/qtl.
* gnu/packages/bioinformatics.scm (r-qtl): New variable.
Co-authored-by: Pjotr Prins <pjotr.guix@thebird.nl>
gnu: Add bioruby.
* gnu/packages/bioinformatics.scm (bioruby): New variable.
gnu: Add mafft.
* gnu/packages/bioinformatics.scm (mafft): New variable.
gnu: Add bio-locus.
* gnu/packages/bioinformatics.scm (bio-locus): New variable.
gnu: Add bio-locus.
* gnu/packages/bioinformatics.scm (bio-locus): New variable.
Merge branch 'master' into core-updates
gnu: Add deeptools.
* gnu/packages/bioinformatics.scm (deeptools): New variable.
gnu: Use 'install-file' instead of 'mkdir-p' and 'copy-file' in obvious cases.
* gnu/packages/bioinformatics.scm (bedtools, bowtie, bwa, hisat, samtools,
plink, star): Use 'install-file' instead of 'mkdir-p' + 'copy-file'.
* gnu/packages/check.scm (catch-framework): Likewise.
* gnu/packages/code.scm (global): Likewise.
* gnu/packages/emacs.scm (magit-svn, haskell-mode, emacs-pdf-tools):
Likewise.
* gnu/packages/engineering.scm (fastcap, fasthenry): Likewise.
* gnu/packages/gnuzilla.scm (nss): Likewise.
* gnu/packages/guile.scm (guile-minikanren): Likewise.
* gnu/packages/java.scm (swt): Likewise.
* gnu/packages/make-bootstrap.scm (%static-binaries): Likewise.
* gnu/packages/maths.scm (lpsolve): Likewise.
* gnu/packages/mp3.scm (mpc123): Likewise.
* gnu/packages/ninja.scm (ninja): Likewise.
* gnu/packages/python.scm (python-numpy, python-pyparsing): Likewise.
* gnu/packages/screen.scm (dtach): Likewise.
* gnu/packages/synergy.scm (synergy): Likewise.
* gnu/packages/textutils.scm (utf8proc): Likewise.
* gnu/packages/version-control.scm (git-test-sequence): Likewise.
* gnu/packages/wicd.scm (wicd): Likewise.
gnu: Add BioPerl.
* gnu/packages/bioinformatics.scm (bioperl-minimal): New variable.
gnu: shogun: Move package to machine-learning.scm.
* gnu/packages/bioinformatics.scm (shogun): Move from here...
* gnu/packages/machine-learning.scm (shogun): ...to here.
gnu: bedtools: Add patch to fix compilation on 32 bit systems.
* gnu/packages/patches/bedtools-32bit-compilation.patch: New file.
* gnu/packages/bioinformatics.scm (bedtools)[source]: Add patch.
* gnu-system.am (dist_patch_DATA): Register patch.
Signed-off-by: Andreas Enge <andreas@enge.fr>
gnu: bedtools: Update to 2.24.0.
* gnu/packages/bioinformatics.scm (bedtools): Update to 2.24.0.