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2016-08-17gnu: clipper: Update to 1.1....* gnu/packages/bioinformatics.scm (clipper): Update to 1.1. [source]: Delete pre-built libraries. [inputs]: Add python2-pandas. Ricardo Wurmus
2016-08-17gnu: Add minced....* gnu/packages/bioinformatics.scm (minced): New variable. Signed-off-by: Ben Woodcroft <donttrustben@gmail.com> Marius Bakke
2016-08-16gnu: mafft: Update to 7.305....* gnu/packages/bioinformatics.scm (mafft): Update to 7.305. [inputs]: Add ruby. Ben Woodcroft
2016-08-15gnu: mafft: Update to 7.304....* gnu/packages/bioinformatics.scm (mafft): Update to 7.304. Ben Woodcroft
2016-08-15gnu: mafft: Wrap programs....* gnu/packages/bioinformatics.scm (mafft)[arguments]: Add 'wrap-programs' phase. [propagated-inputs]: Move coreutils from here ... [inputs]: ... to here. Ben Woodcroft
2016-08-15gnu: mafft: Update to 7.300....* gnu/packages/bioinformatics.scm (mafft): Update to 7.300. Ben Woodcroft
2016-08-14gnu: Add bamm....* gnu/packages/bioinformatics.scm (bamm): New variable. Ben Woodcroft
2016-08-11gnu: snap-aligner: Limit to x86_64....* gnu/packages/bioinformatics.scm (snap-aligner)[supported-systems]: Add note explaining why we build for x86_64 only. Efraim Flashner
2016-08-11gnu: diamond: Update to 0.8.18....* gnu/packages/bioinformatics.scm (diamond): Update to 0.8.18. Ben Woodcroft
2016-08-08gnu: Add roary....* gnu/packages/bioinformatics.scm (roary): New variable. Ben Woodcroft
2016-08-08gnu: Add raxml....* gnu/packages/bioinformatics.scm (raxml): New variable. Ben Woodcroft
2016-08-08gnu: Add prank....* gnu/packages/bioinformatics.scm (prank): New variable. Ben Woodcroft
2016-08-08gnu: Add exonerate....* gnu/packages/bioinformatics.scm (exonerate): New variable. Ben Woodcroft
2016-08-08gnu: Add bppsuite....* gnu/packages/bioinformatics.scm (bppsuite): New variable. Ben Woodcroft
2016-08-08gnu: Add bpp-popgen....* gnu/packages/bioinformatics.scm (bpp-popgen): New variable. Ben Woodcroft
2016-08-08gnu: Add bpp-phyl....* gnu/packages/bioinformatics.scm (bpp-phyl): New variable. Ben Woodcroft
2016-08-08gnu: Add bpp-seq....* gnu/packages/bioinformatics.scm (bpp-seq): New variable. Ben Woodcroft
2016-08-08gnu: Add bpp-core....* gnu/packages/bioinformatics.scm (bpp-core): New variable. Ben Woodcroft
2016-08-06gnu: Add python-biom-format....* gnu/packages/bioinformatics.scm (python-biom-format, python2-biom-format): New variables. Ben Woodcroft
2016-08-03gnu: Add discrover....* gnu/packages/bioinformatics.scm (discrover): New variable. Ricardo Wurmus
2016-08-03gnu: fxtract: Restrict to x86_64-linux....* gnu/packages/bioinformatics.scm (fxtract)[supported-systems]: Restrict to x86_64-linux. Ben Woodcroft
2016-08-02gnu: r-variantannotation: Update to 1.18.6....* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.18.6. Ricardo Wurmus
2016-08-02gnu: r-genomationdata: Update to 1.4.2....* gnu/packages/bioinformatics.scm (r-genomationdata): Update to 1.4.2. Ricardo Wurmus
2016-07-30gnu: diamond: Update to 0.8.17....* gnu/packages/bioinformatics.scm (diamond): Update to 0.8.17. Ben Woodcroft
2016-07-28gnu: r-genomicfeatures: Update to 1.24.5....* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.24.5. Ben Woodcroft
2016-07-28gnu: r-bsgenome: Update to 1.40.1....* gnu/packages/bioinformatics.scm (r-bsgenome): Update to 1.40.1. Ben Woodcroft
2016-07-28gnu: r-iranges: Update to 2.6.1....* gnu/packages/bioinformatics.scm (r-iranges): Update to 2.6.1. Ben Woodcroft
2016-07-28gnu: r-limma: Update to 3.28.17....* gnu/packages/bioinformatics.scm (r-limma): Update to 3.28.17. Ben Woodcroft
2016-07-28gnu: r-xvector: Update to 0.12.1....* gnu/packages/bioinformatics.scm (r-xvector): Update to 0.12.1. Ben Woodcroft
2016-07-28gnu: r-genomicranges: Update to 1.24.2....* gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.24.2. Ben Woodcroft
2016-07-28gnu: r-annotationdbi: Update to 1.34.4....* gnu/packages/bioinformatics.scm (r-annotationdbi): Update to 1.34.4. Ben Woodcroft
2016-07-28gnu: r-biocparallel: Update to 1.6.3....* gnu/packages/bioinformatics.scm (r-biocparallel): Update to 1.6.3. Ben Woodcroft
2016-07-28gnu: r-biostrings: Update to 2.40.2....* gnu/packages/bioinformatics.scm (r-biostrings): Update to 2.40.2. Ben Woodcroft
2016-07-28gnu: r-summarizedexperiment: Update to 1.2.3....* gnu/packages/bioinformatics.scm (r-summarizedexperiment): Update to 1.2.3. Ben Woodcroft
2016-07-28gnu: r-genomicalignments: Update to 1.8.4....* gnu/packages/bioinformatics.scm (r-genomicalignments): Update to 1.8.4. Ben Woodcroft
2016-07-28gnu: r-rtracklayer: Update to 1.32.2....* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.32.2. Ben Woodcroft
2016-07-28gnu: r-genomeinfodb: Update to 1.8.3....* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.8.3. Ben Woodcroft
2016-07-28gnu: r-s4vectors: Update to 0.10.2....* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.10.2. Ben Woodcroft
2016-07-27gnu: diamond: Update to 0.8.16....* gnu/packages/bioinformatics.scm (diamond): Update to 0.8.16. Ben Woodcroft
2016-07-23gnu: fasttree: Update to 2.1.9....* gnu/packages/bioinformatics.scm (fasttree): Update to 2.1.9. Ben Woodcroft
2016-07-21gnu: Update URLs for sourceforge.net....* gnu/packages/admin.scm: Update URLs pointing to sourceforge.net. * gnu/packages/audacity.scm: Likewise. * gnu/packages/audio.scm: Likewise. * gnu/packages/bioinformatics.scm: Likewise. * gnu/packages/boost.scm: Likewise. * gnu/packages/cdrom.scm: Likewise. * gnu/packages/code.scm: Likewise. * gnu/packages/compression.scm: Likewise. * gnu/packages/cups.scm: Likewise. * gnu/packages/djvu.scm: Likewise. * gnu/packages/docbook.scm: Likewise. * gnu/packages/documentation.scm: Likewise. * gnu/packages/flashing-tools.scm: Likewise. * gnu/packages/fonts.scm: Likewise. * gnu/packages/fontutils.scm: Likewise. * gnu/packages/games.scm: Likewise. * gnu/packages/ghostscript.scm: Likewise. * gnu/packages/gl.scm: Likewise. * gnu/packages/gnucash.scm: Likewise. * gnu/packages/graphviz.scm: Likewise. * gnu/packages/image.scm: Likewise. * gnu/packages/libreoffice.scm: Likewise. * gnu/packages/libusb.scm: Likewise. * gnu/packages/linux.scm: Likewise. * gnu/packages/lirc.scm: Likewise. * gnu/packages/maths.scm: Likewise. * gnu/packages/mcrypt.scm: Likewise. * gnu/packages/mp3.scm: Likewise. * gnu/packages/music.scm: Likewise. * gnu/packages/networking.scm: Likewise. * gnu/packages/onc-rpc.scm: Likewise. * gnu/packages/password-utils.scm: Likewise. * gnu/packages/pdf.scm: Likewise. * gnu/packages/perl.scm: Likewise. * gnu/packages/photo.scm: Likewise. * gnu/packages/popt.scm: Likewise. * gnu/packages/python.scm: Likewise. * gnu/packages/rdesktop.scm: Likewise. * gnu/packages/screen.scm: Likewise. * gnu/packages/swig.scm: Likewise. * gnu/packages/tcl.scm: Likewise. * gnu/packages/version-control.scm: Likewise. * gnu/packages/video.scm: Likewise. * gnu/packages/w3m.scm: Likewise. * gnu/packages/web.scm: Likewise. * gnu/packages/wm.scm: Likewise. * gnu/packages/xdisorg.scm: Likewise. * gnu/packages/xml.scm: Likewise. Leo Famulari
2016-07-18gnu: diamond: Update to 0.8.15....* gnu/packages/bioinformatics.scm (diamond): Update to 0.8.15. Ben Woodcroft
2016-07-17gnu: eigensoft: Do not refer to "lapacke" output....* gnu/packages/bioinformatics.scm (eigensoft)[inputs]: Remove reference to non-existing "lapacke" output. Ricardo Wurmus
2016-07-14gnu: Add eigensoft....* gnu/packages/bioinformatics.scm (eigensoft): New variable. Ricardo Wurmus
2016-07-12gnu: Add Ribotaper....* gnu/packages/bioinformatics.scm (ribotaper): New variable. Ricardo Wurmus
2016-07-12gnu: Add bedtools-2.18....* gnu/packages/bioinformatics.scm (bedtools-2.18): New variable. Ricardo Wurmus
2016-07-10gnu: diamond: Update to 0.8.12....* gnu/packages/bioinformatics.scm (diamond): Update to 0.8.12. Ben Woodcroft
2016-07-09gnu: Add python-dendropy....* gnu/packages/bioinformatics.scm (python-dendropy, python2-dendropy): New variables. * gnu/packages/patches/python-dendropy-exclude-failing-tests.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. Ben Woodcroft
2016-07-08gnu: star: Restrict supported systems to 64-bit systems....* gnu/packages/bioinformatics.scm (star)[supported-systems]: Restrict to x86_64-linux and mips64el-linux. Ben Woodcroft
2016-07-07gnu: bedtools: Update to 2.26.0....* gnu/packages/bioinformatics.scm (bedtools): Update to 2.26.0. Ben Woodcroft
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