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2017-11-07hydra: Build hidden packages.Ludovic Courtès
* build-aux/hydra/gnu-system.scm (all-packages): Pass #:select? to 'fold-packages'.
2017-11-07hydra: Factorize package list creation.Ludovic Courtès
* build-aux/hydra/gnu-system.scm (all-packages): New procedure, with body taken from... (hydra-jobs): ... here. Use it.
2017-11-07gnu: expect: Change home-page to http://expect.sourceforge.net/.Oleg Pykhalov
* gnu/packages/tcl.scm (expect): Change home-page to http://expect.sourceforge.net/.
2017-11-07gnu: Add r-gage.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-gage): New variable.
2017-11-07gnu: Add r-keggrest.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-keggrest): New variable.
2017-11-07gnu: antlr3-3.3: Prettify build phases.Ricardo Wurmus
* gnu/packages/java.scm (antlr3-3.3)[arguments]: Prettify build phases "bin-install" and "generate-grammar".
2017-11-07gnu: r-servr: Update to 0.8.Ricardo Wurmus
* gnu/packages/web.scm (r-servr): Update to 0.8.
2017-11-07gnu: r-tidyselect: Update to 0.2.3.Ricardo Wurmus
* gnu/packages/statistics.scm (r-tidyselect): Update to 0.2.3.
2017-11-07gnu: r-msnbase: Update to 2.4.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-msnbase): Update to 2.4.0. [propagated-inputs]: Add r-lattice; remove r-reshape2.
2017-11-07gnu: r-mutationalpatterns: Update to 1.4.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-mutationalpatterns): Update to 1.4.0. [propagated-inputs]: Add r-cowplot, r-ggdendro, and r-s4vectors.
2017-11-07gnu: r-annotationhub: Update to 2.10.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-annotationhub): Update to 2.10.0. [propagated-inputs]: Add r-curl.
2017-11-07gnu: r-mzr: Remove bundled copy of boost.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-mzr)[source]: Remove boost source. [arguments]: Add build phase "use-system-boost" to link with our boost package and avoid building the bundled sources.
2017-11-07gnu: r-mzr: Update to 2.12.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-mzr): Update to 2.12.0.
2017-11-07gnu: r-mzid: Update to 1.16.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-mzid): Update to 1.16.0.
2017-11-07gnu: r-chipseq: Update to 1.28.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-chipseq): Update to 1.28.0. [propagated-inputs]: Add r-lattice.
2017-11-07gnu: r-genomicfeatures: Update to 1.30.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.30.0. [propagated-inputs]: Add r-rmysql.
2017-11-07gnu: Add r-rmysql.Ricardo Wurmus
* gnu/packages/databases.scm (r-rmysql): New variable.
2017-11-07gnu: r-rtracklayer: Update to 1.38.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.38.0. [arguments]: Adjust patch to use system zlib.
2017-11-07gnu: r-biocparallel: Update to 1.12.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-biocparallel): Update to 1.12.0. [propagated-inputs]: Add r-bh.
2017-11-07gnu: r-biomart: Update to 2.34.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-biomart): Update to 2.34.0. [propagated-inputs]: Add r-progress and r-stringr.
2017-11-07gnu: r-edger: Update to 3.20.1.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-edger): Update to 3.20.1. [propagated-inputs]: Add r-rcpp.
2017-11-07gnu: r-gostats: Update to 2.44.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-gostats): Update to 2.44.0. [propagated-inputs]: Add r-rgraphviz.
2017-11-07gnu: r-category: Update to 2.44.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-category): Update to 2.44.0. [propagated-inputs]: Remove r-rsqlite; add r-dbi.
2017-11-07gnu: r-lubridate: Update to 1.7.1.Ricardo Wurmus
* gnu/packages/statistics.scm (r-lubridate): Update to 1.7.1. [propagated-inputs]: Add r-rcpp.
2017-11-07gnu: r-preprocesscore: Update to 1.40.0.Ricardo Wurmus
* gnu/packages/statistics.scm (r-preprocesscore): Update to 1.40.0.
2017-11-07gnu: r-r-utils: Update to 2.6.0.Ricardo Wurmus
* gnu/packages/statistics.scm (r-r-utils): Update to 2.6.0.
2017-11-07gnu: r-openssl: Update to 0.9.8.Ricardo Wurmus
* gnu/packages/statistics.scm (r-openssl): Update to 0.9.8.
2017-11-07gnu: r-rlang: Update to 0.1.4.Ricardo Wurmus
* gnu/packages/statistics.scm (r-rlang): Update to 0.1.4.
2017-11-07gnu: r-vsn: Update to 3.46.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-vsn): Update to 3.46.0. [propagated-inputs]: Remove r-hexbin.
2017-11-07gnu: r-motifrg: Rename input label.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-motifrg)[propagated-inputs]: Rename label of r-bsgenome-hsapiens-ucsc-hg19.
2017-11-07gnu: r-motifrg: Update to 1.22.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-motifrg): Update to 1.22.0.
2017-11-07gnu: r-qvalue: Update to 2.10.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-qvalue): Update to 2.10.0.
2017-11-07gnu: r-fastseq: Update to 1.24.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-fastseq): Update to 1.24.0.
2017-11-07gnu: r-interactivedisplaybase: Update to 1.16.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-interactivedisplaybase): Update to 1.16.0.
2017-11-07gnu: r-edaseq: Update to 2.12.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-edaseq): Update to 2.12.0.
2017-11-07gnu: r-msnid: Update to 1.11.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-msnid): Update to 1.11.0.
2017-11-07gnu: r-deseq: Update to 1.30.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-deseq): Update to 1.30.0.
2017-11-07gnu: r-aroma-light: Update to 3.8.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-aroma-light): Update to 3.8.0.
2017-11-07gnu: r-pcamethods: Update to 1.70.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-pcamethods): Update to 1.70.0.
2017-11-07gnu: r-affyio: Update to 1.48.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-affyio): Update to 1.48.0.
2017-11-07gnu: r-affy: Update to 1.56.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-affy): Update to 1.56.0.
2017-11-07gnu: r-protgenerics: Update to 1.10.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-protgenerics): Update to 1.10.0.
2017-11-07gnu: r-seqlogo: Update to 1.44.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-seqlogo): Update to 1.44.0.
2017-11-07gnu: r-genomation: Update to 1.10.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-genomation): Update to 1.10.0. [propagated-inputs]: Remove r-rhtslib. [inputs]: Remove zlib.
2017-11-07gnu: r-impute: Update to 1.52.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-impute): Update to 1.52.0.
2017-11-07gnu: r-seqpattern: Update to 1.10.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-seqpattern): Update to 1.10.0.
2017-11-07gnu: r-bsgenome: Update to 1.46.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-bsgenome): Update to 1.46.0.
2017-11-07gnu: r-topgo: Update to 2.30.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-topgo): Update to 2.30.0.
2017-11-07gnu: r-graph: Update to 1.56.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-graph): Update to 1.56.0.
2017-11-07gnu: r-genomicalignments: Update to 1.14.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-genomicalignments): Update to 1.14.0.
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