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2016-09-13gnu: Add seqtk.Ben J Woodcroft
* gnu/packages/bioinformatics.scm (seqtk): New variable.
2016-09-12gnu: bowtie: Update to 2.2.9.Leo Famulari
* gnu/packages/bioinformatics.scm (bowtie): Update to 2.2.9.
2016-09-12gnu: r-org-mm-eg-db: Update to 3.3.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-org-mm-eg-db): Update to 3.3.0.
2016-09-12gnu: r-org-dm-eg-db: Update to 3.3.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-org-dm-eg-db): Update to 3.3.0.
2016-09-12gnu: r-org-ce-eg-db: Update to 3.3.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-org-ce-eg-db): Update to 3.3.0.
2016-09-12gnu: r-org-hs-eg-db: Update to 3.3.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-org-hs-eg-db): Update to 3.3.0.
2016-09-12gnu: r-go-db: Update to 3.3.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-go-db): Update to 3.3.0.
2016-09-12gnu: r-biocparallel: Update to 1.6.6.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-biocparallel): Update to 1.6.6.
2016-09-12gnu: r-genomicranges: Update to 1.24.3.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.24.3.
2016-09-12gnu: r-limma: Update to 3.28.21.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-limma): Update to 3.28.21.
2016-09-12gnu: r-variantannotation: Update to 1.18.7.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.18.7.
2016-09-12gnu: r-genomeinfodb: Update to 1.8.7.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.8.7.
2016-09-12gnu: r-seqinr: Update to 3.3-1.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-seqinr): Update to 3.3-1. [propagated-inputs]: Add "r-segmented".
2016-09-12gnu: r-s4vectors: Update to 0.10.3.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.10.3.
2016-09-12gnu: r-acsnminer: Update to 0.16.8.25.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-acsnminer): Update to 0.16.8.25.
2016-09-12gnu: r-vegan: Update to 2.4-1.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-vegan): Update to 2.4-1.
2016-09-10gnu: Add mash.Marius Bakke
* gnu/packages/bioinformatics.scm (mash): New variable. Signed-off-by: Leo Famulari <leo@famulari.name>
2016-09-10gnu: bamm: Update to 1.7.3.Ben Woodcroft
* gnu/packages/bioinformatics.scm (bamm): Update to 1.7.3.
2016-09-04gnu: infernal: Limit to i686 and x86_64 systems.Efraim Flashner
* gnu/packages/bioinformatics.scm (infernal)[supported-systems]: The package requires VMX or SSE capability for parallel instructions, so limit it to those supported systems.
2016-09-02gnu: Add Infernal.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (infernal): New variable.
2016-08-31gnu: subread: Update to 1.5.1.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (subread): Update to 1.5.1.
2016-08-31gnu: aragorn: Update to 1.2.37.Ben Woodcroft
* gnu/packages/bioinformatics.scm (aragorn): Update to 1.2.37.
2016-08-30gnu: diamond: Update to 0.8.20.Ben Woodcroft
* gnu/packages/bioinformatics.scm (diamond): Update to 0.8.20.
2016-08-22gnu: Add r-bamsignals.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-bamsignals): New variable.
2016-08-22gnu: Add r-rhtslib.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-rhtslib): New variable.
2016-08-17gnu: clipper: Update to 1.1.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (clipper): Update to 1.1. [source]: Delete pre-built libraries. [inputs]: Add python2-pandas.
2016-08-17gnu: Add minced.Marius Bakke
* gnu/packages/bioinformatics.scm (minced): New variable. Signed-off-by: Ben Woodcroft <donttrustben@gmail.com>
2016-08-16gnu: mafft: Update to 7.305.Ben Woodcroft
* gnu/packages/bioinformatics.scm (mafft): Update to 7.305. [inputs]: Add ruby.
2016-08-15gnu: mafft: Update to 7.304.Ben Woodcroft
* gnu/packages/bioinformatics.scm (mafft): Update to 7.304.
2016-08-15gnu: mafft: Wrap programs.Ben Woodcroft
* gnu/packages/bioinformatics.scm (mafft)[arguments]: Add 'wrap-programs' phase. [propagated-inputs]: Move coreutils from here ... [inputs]: ... to here.
2016-08-15gnu: mafft: Update to 7.300.Ben Woodcroft
* gnu/packages/bioinformatics.scm (mafft): Update to 7.300.
2016-08-14gnu: Add bamm.Ben Woodcroft
* gnu/packages/bioinformatics.scm (bamm): New variable.
2016-08-11gnu: snap-aligner: Limit to x86_64.Efraim Flashner
* gnu/packages/bioinformatics.scm (snap-aligner)[supported-systems]: Add note explaining why we build for x86_64 only.
2016-08-11gnu: diamond: Update to 0.8.18.Ben Woodcroft
* gnu/packages/bioinformatics.scm (diamond): Update to 0.8.18.
2016-08-08gnu: Add roary.Ben Woodcroft
* gnu/packages/bioinformatics.scm (roary): New variable.
2016-08-08gnu: Add raxml.Ben Woodcroft
* gnu/packages/bioinformatics.scm (raxml): New variable.
2016-08-08gnu: Add prank.Ben Woodcroft
* gnu/packages/bioinformatics.scm (prank): New variable.
2016-08-08gnu: Add exonerate.Ben Woodcroft
* gnu/packages/bioinformatics.scm (exonerate): New variable.
2016-08-08gnu: Add bppsuite.Ben Woodcroft
* gnu/packages/bioinformatics.scm (bppsuite): New variable.
2016-08-08gnu: Add bpp-popgen.Ben Woodcroft
* gnu/packages/bioinformatics.scm (bpp-popgen): New variable.
2016-08-08gnu: Add bpp-phyl.Ben Woodcroft
* gnu/packages/bioinformatics.scm (bpp-phyl): New variable.
2016-08-08gnu: Add bpp-seq.Ben Woodcroft
* gnu/packages/bioinformatics.scm (bpp-seq): New variable.
2016-08-08gnu: Add bpp-core.Ben Woodcroft
* gnu/packages/bioinformatics.scm (bpp-core): New variable.
2016-08-06gnu: Add python-biom-format.Ben Woodcroft
* gnu/packages/bioinformatics.scm (python-biom-format, python2-biom-format): New variables.
2016-08-03gnu: Add discrover.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (discrover): New variable.
2016-08-03gnu: fxtract: Restrict to x86_64-linux.Ben Woodcroft
* gnu/packages/bioinformatics.scm (fxtract)[supported-systems]: Restrict to x86_64-linux.
2016-08-02gnu: r-variantannotation: Update to 1.18.6.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.18.6.
2016-08-02gnu: r-genomationdata: Update to 1.4.2.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-genomationdata): Update to 1.4.2.
2016-07-30gnu: diamond: Update to 0.8.17.Ben Woodcroft
* gnu/packages/bioinformatics.scm (diamond): Update to 0.8.17.
2016-07-28gnu: r-genomicfeatures: Update to 1.24.5.Ben Woodcroft
* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.24.5.
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