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* gnu: r-seqinr: Move to (gnu packages cran).•••* gnu/packages/bioinformatics.scm (r-seqinr): Move from here... * gnu/packages/cran.scm (r-seqinr): ...to here. Ricardo Wurmus2019-03-241-25/+0
* gnu: r-acsnminer: Move to (gnu packages cran).•••* gnu/packages/bioinformatics.scm (r-acsnminer): Move from here... * gnu/packages/cran.scm (r-acsnminer): ...to here. Ricardo Wurmus2019-03-241-26/+0
* gnu: r-phangorn: Update to 2.5.3.•••* gnu/packages/bioinformatics.scm (r-phangorn): Update to 2.5.3. Ricardo Wurmus2019-03-241-2/+2
* gnu: r-gqtlstats: Update to 1.14.1.•••* gnu/packages/bioinformatics.scm (r-gqtlstats): Update to 1.14.1. Ricardo Wurmus2019-03-241-2/+2
* gnu: r-rbgl: Update to 1.58.2.•••* gnu/packages/bioinformatics.scm (r-rbgl): Update to 1.58.2. Ricardo Wurmus2019-03-241-2/+2
* gnu: Add starlong.•••* gnu/packages/bioinformatics.scm (starlong): New variable. Ricardo Wurmus2019-03-221-0/+22
* gnu: r-diversitree: Update to 0.9-11.•••* gnu/packages/bioinformatics.scm (r-diversitree): Update to 0.9-11. Ricardo Wurmus2019-03-211-2/+2
* gnu: r-maldiquant: Update to 1.19.2.•••* gnu/packages/bioinformatics.scm (r-maldiquant): Update to 1.19.2. Ricardo Wurmus2019-03-211-2/+2
* gnu: r-diversitree: Fix typo.•••* gnu/packages/bioinformatics.scm (r-diversitree)[propagated-inputs]: Fix typo in package labels. Ricardo Wurmus2019-03-211-1/+1
* gnu: r-annotationhub: Update to 2.14.5.•••* gnu/packages/bioinformatics.scm (r-annotationhub): Update to 2.14.5. Ricardo Wurmus2019-03-201-2/+2
* gnu: r-genomicfeatures: Update to 1.34.6.•••* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.34.6. Ricardo Wurmus2019-03-201-2/+2
* gnu: r-variantannotation: Update to 1.28.13.•••* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.28.13. Ricardo Wurmus2019-03-201-2/+2
* gnu: r-category: Update to 2.48.1.•••* gnu/packages/bioinformatics.scm (r-category): Update to 2.48.1. Ricardo Wurmus2019-03-201-2/+2
* gnu: r-dexseq: Update to 1.28.3.•••* gnu/packages/bioinformatics.scm (r-dexseq): Update to 1.28.3. Ricardo Wurmus2019-03-201-2/+2
* gnu: Add adapterremoval.•••* gnu/packages/bioinformatics.scm (adapterremoval): New variable. Ricardo Wurmus2019-03-201-0/+37
* gnu: nanopolish: Use python-wrapper.•••* gnu/packages/bioinformatics.scm (nanopolish)[inputs]: Replace "python" with "python-wrapper" as scripts require "python" executable. Ricardo Wurmus2019-03-191-1/+1
* gnu: nanopolish: Remove bundled library sources.•••* gnu/packages/bioinformatics.scm (nanopolish)[source]: Add snippet to remove bundled htslib sources. Ricardo Wurmus2019-03-191-1/+6
* gnu: python-biom-format: Fix build.•••* gnu/packages/bioinformatics.scm (python-biom-format)[source]: Remove generated C files. [arguments]: Disable second broken test. Ricardo Wurmus2019-03-181-2/+12
* gnu: Add bbmap.•••* gnu/packages/bioinformatics.scm (bbmap): New variable. Ricardo Wurmus2019-03-181-0/+76
* gnu: blasr: Add home page.•••Reported by Efraim Flashner <efraim@flashner.co.il> on IRC. * gnu/packages/bioinformatics.scm (blasr)[home-page]: Add it. Ricardo Wurmus2019-03-181-1/+1
* gnu: Add arriba.•••* gnu/packages/bioinformatics.scm (arriba): New variable. Ricardo Wurmus2019-03-181-0/+66
* gnu: Add blasr.•••* gnu/packages/bioinformatics.scm (blasr): New variable. Ricardo Wurmus2019-03-181-0/+45
* gnu: Add blasr-libcpp.•••* gnu/packages/bioinformatics.scm (blasr-libcpp): New variable. Ricardo Wurmus2019-03-181-0/+62
* gnu: Add pbbam.•••* gnu/packages/bioinformatics.scm (pbbam): New variable. Ricardo Wurmus2019-03-181-0/+57
* gnu: Add bwa-meth.•••* gnu/packages/bioinformatics.scm (bwa-meth): New variable. Ricardo Wurmus2019-03-151-0/+41
* gnu: Add python-velocyto.•••* gnu/packages/bioinformatics.scm (python-velocyto): New variable. Ricardo Wurmus2019-03-131-0/+31
* gnu: python-loompy: Update to 2.0.17.•••* gnu/packages/bioinformatics.scm (python-loompy): Update to 2.0.17. [source]: Fetch via git. [arguments]: Enable tests, replace "check" phase. [propagated-inputs]: Add python-pandas. [native-inputs]: Add python-pytest. Ricardo Wurmus2019-03-131-10/+24
* gnu: Add tetoolkit.•••* gnu/packages/bioinformatics.scm (tetoolkit): New variable. Ricardo Wurmus2019-03-131-0/+66
* gnu: r-qvalue: Move to (gnu packages bioconductor).•••* gnu/packages/bioinformatics.scm (r-qvalue): Move from here... * gnu/packages/bioconductor.scm (r-qvalue): ...to here. Ricardo Wurmus2019-03-121-29/+0
* gnu: blast+: Update to 2.7.1.•••* gnu/packages/bioinformatics.scm (blast+): Update to 2.7.1. [inputs]: Add lmdb. [source]: Remove obsolete patch. * gnu/package/patches/blast+-fix-makefile.patch: Remove patch. * gnu/local.mk (dist_patch_DATA): Remove it. Ricardo Wurmus2019-03-081-3/+3
* gnu: r-mzr: Update to 2.16.2.•••* gnu/packages/bioinformatics.scm (r-mzr): Update to 2.16.2. [inputs]: Replace "boost" with "boost-for-mysql". Ricardo Wurmus2019-03-081-3/+4
* gnu: r-gviz: Update to 1.26.5.•••* gnu/packages/bioinformatics.scm (r-gviz): Update to 1.26.5. Ricardo Wurmus2019-03-081-2/+2
* gnu: r-ensembldb: Update to 2.6.7.•••* gnu/packages/bioinformatics.scm (r-ensembldb): Update to 2.6.7. Ricardo Wurmus2019-03-081-2/+2
* gnu: r-annotationhub: Update to 2.14.4.•••* gnu/packages/bioinformatics.scm (r-annotationhub): Update to 2.14.4. Ricardo Wurmus2019-03-081-2/+2
* gnu: r-rhtslib: Update to 1.14.1.•••* gnu/packages/bioinformatics.scm (r-rhtslib): Update to 1.14.1. Ricardo Wurmus2019-03-081-2/+2
* gnu: r-genomicfeatures: Update to 1.34.4.•••* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.34.4. Ricardo Wurmus2019-03-081-2/+2
* gnu: r-rtracklayer: Update to 1.42.2.•••* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.42.2. Ricardo Wurmus2019-03-081-2/+2
* gnu: r-rsamtools: Update to 1.34.1.•••* gnu/packages/bioinformatics.scm (r-rsamtools): Update to 1.34.1. Ricardo Wurmus2019-03-081-2/+2
* gnu: r-biocparallel: Update to 1.16.6.•••* gnu/packages/bioinformatics.scm (r-biocparallel): Update to 1.16.6. Ricardo Wurmus2019-03-081-2/+2
* gnu: r-variantannotation: Update to 1.28.11.•••* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.28.11. Ricardo Wurmus2019-03-081-2/+2
* gnu: r-genomeinfodb: Update to 1.18.2.•••* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.18.2. Ricardo Wurmus2019-03-081-2/+2
* gnu: r-dexseq: Update to 1.28.2.•••* gnu/packages/bioinformatics.scm (r-dexseq): Update to 1.28.2. Ricardo Wurmus2019-03-081-2/+2
* gnu: cd-hit: Support longer sequences.•••* gnu/packages/bioinformatics.scm (cd-hit)[arguments]: Pass MAX_SEQ to make flags. Ricardo Wurmus2019-03-071-1/+3
* gnu: r-org-mm-eg-db: Move to (gnu packages bioconductor).•••* gnu/packages/bioinformatics.scm (r-org-mm-eg-db): Move from here... * gnu/packages/bioconductor.scm (r-org-mm-eg-db): ...to here. Ricardo Wurmus2019-03-061-26/+0
* gnu: r-org-hs-eg-db: Move to (gnu packages bioconductor).•••* gnu/packages/bioinformatics.scm (r-org-hs-eg-db): Move from here... * gnu/packages/bioconductor.scm (r-org-hs-eg-db): ...to here. Ricardo Wurmus2019-03-061-26/+0
* gnu: r-org-dm-eg-db: Move to (gnu packages bioconductor).•••* gnu/packages/bioinformatics.scm (r-org-dm-eg-db): Move from here... * gnu/packages/bioconductor.scm (r-org-dm-eg-db): ...to here. Ricardo Wurmus2019-03-061-26/+0
* gnu: r-org-ce-eg-db: Move to (gnu packages bioconductor).•••* gnu/packages/bioinformatics.scm (r-org-ce-eg-db): Move from here... * gnu/packages/bioconductor.scm (r-org-ce-eg-db): ...to here. Ricardo Wurmus2019-03-061-26/+0
* gnu: r-txdb-mmusculus-ucsc-mm10-knowngene: Move to (gnu packages bioconductor).•••* gnu/packages/bioinformatics.scm (r-txdb-mmusculus-ucsc-mm10-knowngene): Move from here... * gnu/packages/bioconductor.scm (r-txdb-mmusculus-ucsc-mm10-knowngene): ...to here. Ricardo Wurmus2019-03-061-35/+0
* gnu: r-bsgenome-dmelanogaster-ucsc-dm3: Move to (gnu packages bioconductor).•••* gnu/packages/bioinformatics.scm (r-bsgenome-dmelanogaster-ucsc-dm3): Move from here... * gnu/packages/bioconductor.scm (r-bsgenome-dmelanogaster-ucsc-dm3): ...to here. Ricardo Wurmus2019-03-061-32/+0
* gnu: r-bsgenome-celegans-ucsc-ce10: Move to (gnu packages bioconductor).•••* gnu/packages/bioinformatics.scm (r-bsgenome-celegans-ucsc-ce10): Move from here... * gnu/packages/bioconductor.scm (r-bsgenome-celegans-ucsc-ce10): ...to here. Ricardo Wurmus2019-03-061-32/+0
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