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* gnu: r-rtracklayer: Update to 1.42.1.•••* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.42.1. Ricardo Wurmus2019-01-12
* gnu: r-scater: Update to 1.10.1.•••* gnu/packages/bioinformatics.scm (r-scater): Update to 1.10.1. Ricardo Wurmus2019-01-12
* gnu: r-singlecellexperiment: Update to 1.4.1.•••* gnu/packages/bioinformatics.scm (r-singlecellexperiment): Update to 1.4.1. Ricardo Wurmus2019-01-12
* gnu: r-rhdf5lib: Update to 1.4.2.•••* gnu/packages/bioinformatics.scm (r-rhdf5lib): Update to 1.4.2. Ricardo Wurmus2019-01-12
* gnu: r-hdf5array: Update to 1.10.1.•••* gnu/packages/bioinformatics.scm (r-hdf5array): Update to 1.10.1. Ricardo Wurmus2019-01-12
* gnu: r-qvalue: Update to 2.14.1.•••* gnu/packages/bioinformatics.scm (r-qvalue): Update to 2.14.1. Ricardo Wurmus2019-01-12
* gnu: r-gviz: Update to 1.26.4.•••* gnu/packages/bioinformatics.scm (r-gviz): Update to 1.26.4. Ricardo Wurmus2019-01-12
* gnu: r-biovizbase: Update to 1.30.1.•••* gnu/packages/bioinformatics.scm (r-biovizbase): Update to 1.30.1. Ricardo Wurmus2019-01-12
* gnu: r-ensembldb: Update to 2.6.3.•••* gnu/packages/bioinformatics.scm (r-ensembldb): Update to 2.6.3. Ricardo Wurmus2019-01-12
* gnu: r-dirichletmultinomial: Update to 1.24.1.•••* gnu/packages/bioinformatics.scm (r-dirichletmultinomial): Update to 1.24.1. Ricardo Wurmus2019-01-12
* gnu: r-gage: Update to 2.32.1.•••* gnu/packages/bioinformatics.scm (r-gage): Update to 2.32.1. Ricardo Wurmus2019-01-12
* gnu: r-annotationhub: Update to 2.14.2.•••* gnu/packages/bioinformatics.scm (r-annotationhub): Update to 2.14.2. Ricardo Wurmus2019-01-12
* gnu: r-edaseq: Update to 2.16.3.•••* gnu/packages/bioinformatics.scm (r-edaseq): Update to 2.16.3. [propagated-inputs]: Add r-biocmanager. Ricardo Wurmus2019-01-12
* gnu: r-deseq: Update to 1.34.1.•••* gnu/packages/bioinformatics.scm (r-deseq): Update to 1.34.1. Ricardo Wurmus2019-01-12
* gnu: r-msnid: Update to 1.16.1.•••* gnu/packages/bioinformatics.scm (r-msnid): Update to 1.16.1. Ricardo Wurmus2019-01-12
* gnu: r-msnbase: Update to 2.8.3.•••* gnu/packages/bioinformatics.scm (r-msnbase): Update to 2.8.3. Ricardo Wurmus2019-01-12
* gnu: r-mzid: Update to 1.20.1.•••* gnu/packages/bioinformatics.scm (r-mzid): Update to 1.20.1. Ricardo Wurmus2019-01-12
* gnu: r-mzr: Update to 2.16.1.•••* gnu/packages/bioinformatics.scm (r-mzr): Update to 2.16.1. Ricardo Wurmus2019-01-12
* gnu: r-sva: Update to 3.30.1.•••* gnu/packages/bioinformatics.scm (r-sva): Update to 3.30.1. Ricardo Wurmus2019-01-12
* gnu: r-methylkit: Update to 1.8.1.•••* gnu/packages/bioinformatics.scm (r-methylkit): Update to 1.8.1. Ricardo Wurmus2019-01-12
* gnu: r-copywriter: Update to 2.14.1.•••* gnu/packages/bioinformatics.scm (r-copywriter): Update to 2.14.1. Ricardo Wurmus2019-01-12
* gnu: r-rhdf5: Update to 2.26.2.•••* gnu/packages/bioinformatics.scm (r-rhdf5): Update to 2.26.2. Ricardo Wurmus2019-01-12
* gnu: r-tximport: Update to 1.10.1.•••* gnu/packages/bioinformatics.scm (r-tximport): Update to 1.10.1. Ricardo Wurmus2019-01-12
* gnu: r-genomicalignments: Update to 1.18.1.•••* gnu/packages/bioinformatics.scm (r-genomicalignments): Update to 1.18.1. Ricardo Wurmus2019-01-12
* gnu: r-biostrings: Update to 2.50.2.•••* gnu/packages/bioinformatics.scm (r-biostrings): Update to 2.50.2. Ricardo Wurmus2019-01-12
* gnu: r-biocparallel: Update to 1.16.5.•••* gnu/packages/bioinformatics.scm (r-biocparallel): Update to 1.16.5. Ricardo Wurmus2019-01-12
* gnu: r-limma: Update to 3.38.3.•••* gnu/packages/bioinformatics.scm (r-limma): Update to 3.38.3. Ricardo Wurmus2019-01-12
* gnu: r-variantannotation: Update to 1.28.8.•••* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.28.8. Ricardo Wurmus2019-01-12
* gnu: r-edger: Update to 3.24.3.•••* gnu/packages/bioinformatics.scm (r-edger): Update to 3.24.3. Ricardo Wurmus2019-01-12
* gnu: r-biocviews: Update to 1.50.10.•••* gnu/packages/bioinformatics.scm (r-biocviews): Update to 1.50.10. Ricardo Wurmus2019-01-12
* gnu: r-systempiper: Update to 1.16.1.•••* gnu/packages/bioinformatics.scm (r-systempiper): Update to 1.16.1. Ricardo Wurmus2019-01-12
* gnu: r-rbgl: Update to 1.58.1.•••* gnu/packages/bioinformatics.scm (r-rbgl): Update to 1.58.1. Ricardo Wurmus2019-01-12
* gnu: r-dexseq: Update to 1.28.1.•••* gnu/packages/bioinformatics.scm (r-dexseq): Update to 1.28.1. Ricardo Wurmus2019-01-12
* gnu: r-deseq2: Update to 1.22.2.•••* gnu/packages/bioinformatics.scm (r-deseq2): Update to 1.22.2. Ricardo Wurmus2019-01-12
* gnu: r-scran: Update to 1.10.2.•••* gnu/packages/bioinformatics.scm (r-scran): Update to 1.10.2. Ricardo Wurmus2019-01-12
* gnu: r-seqminer: Update to 7.1.•••* gnu/packages/bioinformatics.scm (r-seqminer): Update to 7.1. Ricardo Wurmus2019-01-12
* gnu: r-bookdown: Update to 0.9.•••* gnu/packages/bioinformatics.scm (r-bookdown): Update to 0.9. Ricardo Wurmus2019-01-12
* gnu: Move Java compression packages to new module.•••* gnu/packages/compression.scm (bitshuffle-for-snappy): Export variable. (java-snappy, java-snappy-1, java-iq80-snappy, java-jbzip2, java-tukaani-xz): Move these variables from here... * gnu/packages/java-compression.scm: ...to this new file. * gnu/local.mk (GNU_SYSTEM_MODULES): Add it. * gnu/packages/java.scm, gnu/packages/bioinformatics.scm: Adjust module references. Ricardo Wurmus2019-01-12
* gnu: jamm: Remove broken "build" phase.•••* gnu/packages/bioinformatics.scm (jamm)[arguments]: Remove "build" phase. Ricardo Wurmus2019-01-11
* gnu: mantis: Limit to x86_64-linux.•••* gnu/packages/bioinformatics.scm (mantis)[supported-systems]: New field. Efraim Flashner2019-01-07
* gnu: Add mantis.•••* gnu/packages/bioinformatics.scm (mantis): New variable. Ricardo Wurmus2019-01-07
* gnu: discrover: Comment on attempt of minimal texlive-union.•••* gnu/packages/bioinformatics.scm (discrover): Comment on attempt of minimal texlive-union. Pierre Neidhardt2018-12-20
* gnu: gess: Don't hardcode python version.•••* gnu/packages/bioinformatics.scm (gess)[arguments]: Replace hardcoded python version with parameterized one. Efraim Flashner2018-12-17
* gnu: mash: Use C++ 14.•••I'm looking to upgrade capnproto, and mash fails to build with 0.7. Therefore, tweak the compilation to allow it to build with 0.7. The package also builds with the current version of capnproto. I got the idea of changing the c++ version from here [1]. 1: https://github.com/marbl/Mash/issues/98 * gnu/packages/bioinformatics.scm (mash)[arguments]: Add new use-c++14 phase. Christopher Baines2018-12-05
* gnu: pigx-rnaseq: Update to 0.0.5.•••* gnu/packages/bioinformatics.scm (pigx-rnaseq): Update to 0.0.5. [inputs]: Replace snakemake-4 with snakemake. Ricardo Wurmus2018-12-04
* gnu: bless: Adjust to zlib static output.•••* gnu/packages/bioinformatics.scm (bless)[inputs]: Add ZLIB:STATIC. [arguments]: Adjust #:make-flags accordingly. Marius Bakke2018-11-24
* gnu: mosaik: Fix FTBFS from b90289dadc8ee15848ce911a2bdcd3ae8302d58c.•••* gnu/packages/bioinformatics.scm (mosaik)[inputs]: Add ZLIB:STATIC. Marius Bakke2018-11-24
* gnu: pigx-scrnaseq: Use latest snakemake.•••* gnu/packages/bioinformatics.scm (pigx-scrnaseq)[inputs]: Replace snakemake-4 with snakemake. Ricardo Wurmus2018-11-23
* gnu: pigx-bsseq: Use latest snakemake.•••* gnu/packages/bioinformatics.scm (pigx-bsseq)[inputs]: Replace snakemake-4 with snakemake. Ricardo Wurmus2018-11-23
* gnu: pigx-chipseq: Use latest snakemake.•••* gnu/packages/bioinformatics.scm (pigx-chipseq)[inputs]: Replace snakemake-4 with snakemake. Ricardo Wurmus2018-11-23
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