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* gnu: jellyfish: Limit to x86_64.Efraim Flashner2016-09-21
| | | | | * gnu/packages/bioinformatics.scm (jellyfish)[supported-systems}: New field, limit support to x86_64.
* gnu: vsearch: Update to 2.1.0.Ben Woodcroft2016-09-21
| | | | * gnu/packages/bioinformatics.scm (vsearch): Update to 2.1.0.
* gnu: Add r-biocinstaller.Roel Janssen2016-09-19
| | | | * gnu/packages/bioinformatics.scm (r-biocinstaller): New variable.
* gnu: python-biom-format: Move inputs to propagated-inputs.Ben Woodcroft2016-09-19
| | | | | | * gnu/packages/bioinformatics.scm (python-biom-format, python2-biom-format) [inputs]: Move all from here ... [propagated-inputs]: ... to here.
* gnu: seqmagick: Use BioPython 1.66.Ben Woodcroft2016-09-19
| | | | | * gnu/packages/bioinformatics.scm (seqmagick)[inputs]: Use python2-biopython-1.66 instead of python2-biopython.
* gnu: Add python2-biopython-1.66.Ben Woodcroft2016-09-19
| | | | * gnu/packages/bioinformatics.scm (python2-biopython-1.66): New variable.
* gnu: python-biopython: Use 'python2-variant'.Ben Woodcroft2016-09-19
| | | | | | * gnu/packages/bioinformatics.scm (python-biopython)[properties]: New field. [native-inputs]: Remove field. (python-biopython): Use 'strip-python-variant'.
* gnu: python-biopython: Update to 1.68.Ben Woodcroft2016-09-19
| | | | | * gnu/packages/bioinformatics.scm (python-biopython): Update to 1.68. [arguments]: New field.
* gnu: Add seqtk.Ben J Woodcroft2016-09-13
| | | | * gnu/packages/bioinformatics.scm (seqtk): New variable.
* gnu: bowtie: Update to 2.2.9.Leo Famulari2016-09-12
| | | | * gnu/packages/bioinformatics.scm (bowtie): Update to 2.2.9.
* gnu: r-org-mm-eg-db: Update to 3.3.0.Ricardo Wurmus2016-09-12
| | | | * gnu/packages/bioinformatics.scm (r-org-mm-eg-db): Update to 3.3.0.
* gnu: r-org-dm-eg-db: Update to 3.3.0.Ricardo Wurmus2016-09-12
| | | | * gnu/packages/bioinformatics.scm (r-org-dm-eg-db): Update to 3.3.0.
* gnu: r-org-ce-eg-db: Update to 3.3.0.Ricardo Wurmus2016-09-12
| | | | * gnu/packages/bioinformatics.scm (r-org-ce-eg-db): Update to 3.3.0.
* gnu: r-org-hs-eg-db: Update to 3.3.0.Ricardo Wurmus2016-09-12
| | | | * gnu/packages/bioinformatics.scm (r-org-hs-eg-db): Update to 3.3.0.
* gnu: r-go-db: Update to 3.3.0.Ricardo Wurmus2016-09-12
| | | | * gnu/packages/bioinformatics.scm (r-go-db): Update to 3.3.0.
* gnu: r-biocparallel: Update to 1.6.6.Ricardo Wurmus2016-09-12
| | | | * gnu/packages/bioinformatics.scm (r-biocparallel): Update to 1.6.6.
* gnu: r-genomicranges: Update to 1.24.3.Ricardo Wurmus2016-09-12
| | | | * gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.24.3.
* gnu: r-limma: Update to 3.28.21.Ricardo Wurmus2016-09-12
| | | | * gnu/packages/bioinformatics.scm (r-limma): Update to 3.28.21.
* gnu: r-variantannotation: Update to 1.18.7.Ricardo Wurmus2016-09-12
| | | | * gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.18.7.
* gnu: r-genomeinfodb: Update to 1.8.7.Ricardo Wurmus2016-09-12
| | | | * gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.8.7.
* gnu: r-seqinr: Update to 3.3-1.Ricardo Wurmus2016-09-12
| | | | | * gnu/packages/bioinformatics.scm (r-seqinr): Update to 3.3-1. [propagated-inputs]: Add "r-segmented".
* gnu: r-s4vectors: Update to 0.10.3.Ricardo Wurmus2016-09-12
| | | | * gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.10.3.
* gnu: r-acsnminer: Update to 0.16.8.25.Ricardo Wurmus2016-09-12
| | | | * gnu/packages/bioinformatics.scm (r-acsnminer): Update to 0.16.8.25.
* gnu: r-vegan: Update to 2.4-1.Ricardo Wurmus2016-09-12
| | | | * gnu/packages/bioinformatics.scm (r-vegan): Update to 2.4-1.
* gnu: Add mash.Marius Bakke2016-09-10
| | | | | | * gnu/packages/bioinformatics.scm (mash): New variable. Signed-off-by: Leo Famulari <leo@famulari.name>
* gnu: bamm: Update to 1.7.3.Ben Woodcroft2016-09-10
| | | | * gnu/packages/bioinformatics.scm (bamm): Update to 1.7.3.
* gnu: infernal: Limit to i686 and x86_64 systems.Efraim Flashner2016-09-04
| | | | | | * gnu/packages/bioinformatics.scm (infernal)[supported-systems]: The package requires VMX or SSE capability for parallel instructions, so limit it to those supported systems.
* gnu: Add Infernal.Ricardo Wurmus2016-09-02
| | | | * gnu/packages/bioinformatics.scm (infernal): New variable.
* gnu: subread: Update to 1.5.1.Ricardo Wurmus2016-08-31
| | | | * gnu/packages/bioinformatics.scm (subread): Update to 1.5.1.
* gnu: aragorn: Update to 1.2.37.Ben Woodcroft2016-08-31
| | | | * gnu/packages/bioinformatics.scm (aragorn): Update to 1.2.37.
* gnu: diamond: Update to 0.8.20.Ben Woodcroft2016-08-30
| | | | * gnu/packages/bioinformatics.scm (diamond): Update to 0.8.20.
* gnu: Add r-bamsignals.Ricardo Wurmus2016-08-22
| | | | * gnu/packages/bioinformatics.scm (r-bamsignals): New variable.
* gnu: Add r-rhtslib.Ricardo Wurmus2016-08-22
| | | | * gnu/packages/bioinformatics.scm (r-rhtslib): New variable.
* gnu: clipper: Update to 1.1.Ricardo Wurmus2016-08-17
| | | | | | * gnu/packages/bioinformatics.scm (clipper): Update to 1.1. [source]: Delete pre-built libraries. [inputs]: Add python2-pandas.
* gnu: Add minced.Marius Bakke2016-08-17
| | | | | | * gnu/packages/bioinformatics.scm (minced): New variable. Signed-off-by: Ben Woodcroft <donttrustben@gmail.com>
* gnu: mafft: Update to 7.305.Ben Woodcroft2016-08-16
| | | | | * gnu/packages/bioinformatics.scm (mafft): Update to 7.305. [inputs]: Add ruby.
* gnu: mafft: Update to 7.304.Ben Woodcroft2016-08-15
| | | | * gnu/packages/bioinformatics.scm (mafft): Update to 7.304.
* gnu: mafft: Wrap programs.Ben Woodcroft2016-08-15
| | | | | | | * gnu/packages/bioinformatics.scm (mafft)[arguments]: Add 'wrap-programs' phase. [propagated-inputs]: Move coreutils from here ... [inputs]: ... to here.
* gnu: mafft: Update to 7.300.Ben Woodcroft2016-08-15
| | | | * gnu/packages/bioinformatics.scm (mafft): Update to 7.300.
* gnu: Add bamm.Ben Woodcroft2016-08-14
| | | | * gnu/packages/bioinformatics.scm (bamm): New variable.
* gnu: snap-aligner: Limit to x86_64.Efraim Flashner2016-08-11
| | | | | * gnu/packages/bioinformatics.scm (snap-aligner)[supported-systems]: Add note explaining why we build for x86_64 only.
* gnu: diamond: Update to 0.8.18.Ben Woodcroft2016-08-11
| | | | * gnu/packages/bioinformatics.scm (diamond): Update to 0.8.18.
* gnu: Add roary.Ben Woodcroft2016-08-08
| | | | * gnu/packages/bioinformatics.scm (roary): New variable.
* gnu: Add raxml.Ben Woodcroft2016-08-08
| | | | * gnu/packages/bioinformatics.scm (raxml): New variable.
* gnu: Add prank.Ben Woodcroft2016-08-08
| | | | * gnu/packages/bioinformatics.scm (prank): New variable.
* gnu: Add exonerate.Ben Woodcroft2016-08-08
| | | | * gnu/packages/bioinformatics.scm (exonerate): New variable.
* gnu: Add bppsuite.Ben Woodcroft2016-08-08
| | | | * gnu/packages/bioinformatics.scm (bppsuite): New variable.
* gnu: Add bpp-popgen.Ben Woodcroft2016-08-08
| | | | * gnu/packages/bioinformatics.scm (bpp-popgen): New variable.
* gnu: Add bpp-phyl.Ben Woodcroft2016-08-08
| | | | * gnu/packages/bioinformatics.scm (bpp-phyl): New variable.
* gnu: Add bpp-seq.Ben Woodcroft2016-08-08
| | | | * gnu/packages/bioinformatics.scm (bpp-seq): New variable.
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