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2018-06-02gnu: r-annotationdbi: Update to 1.42.1.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-annotationdbi): Update to 1.42.1.
2018-06-02gnu: r-biobase: Update to 2.40.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-biobase): Update to 2.40.0.
2018-06-02gnu: r-genomicranges: Update to 1.32.3.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.32.3.
2018-06-02gnu: r-xvector: Update to 0.20.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-xvector): Update to 0.20.0.
2018-06-02gnu: r-limma: Update to 3.36.1.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-limma): Update to 3.36.1.
2018-06-02gnu: r-variantannotation: Update to 1.26.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.26.0.
2018-06-02gnu: r-edger: Update to 3.22.2.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-edger): Update to 3.22.2.
2018-06-02gnu: r-genomeinfodb: Update to 1.16.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.16.0.
2018-06-02gnu: r-iranges: Update to 2.14.10.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-iranges): Update to 2.14.10.
2018-06-02gnu: r-s4vectors: Update to 0.18.2.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.18.2.
2018-06-02gnu: r-dnacopy: Update to 1.54.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-dnacopy): Update to 1.54.0.
2018-06-02gnu: r-bioccheck: Update to 1.16.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-bioccheck): Update to 1.16.0.
2018-06-02gnu: r-biocstyle: Update to 2.8.2.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-biocstyle): Update to 2.8.2.
2018-06-02gnu: r-biocviews: Update to 1.48.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-biocviews): Update to 1.48.0.
2018-06-02gnu: r-biocinstaller: Update to 1.30.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-biocinstaller): Update to 1.30.0.
2018-06-02gnu: r-biocgenerics: Update to 0.26.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-biocgenerics): Update to 0.26.0.
2018-06-02gnu: r-grohmm: Update to 1.14.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-grohmm): Update to 1.14.0.
2018-06-02gnu: r-systempiper: Update to 1.14.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-systempiper): Update to 1.14.0.
2018-06-02gnu: r-shortread: Update to 1.38.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-shortread): Update to 1.38.0.
2018-06-02gnu: r-gostats: Update to 2.46.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-gostats): Update to 2.46.0.
2018-06-02gnu: r-category: Update to 2.46.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-category): Update to 2.46.0.
2018-06-02gnu: r-gseabase: Update to 1.42.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-gseabase): Update to 1.42.0.
2018-06-02gnu: r-rbgl: Update to 1.56.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-rbgl): Update to 1.56.0.
2018-06-02gnu: r-annotationforge: Update to 1.22.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-annotationforge): Update to 1.22.0.
2018-06-02gnu: r-dexseq: Update to 1.26.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-dexseq): Update to 1.26.0.
2018-06-02gnu: r-deseq2: Update to 1.20.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-deseq2): Update to 1.20.0.
2018-06-02gnu: r-genefilter: Update to 1.62.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-genefilter): Update to 1.62.0.
2018-06-02gnu: r-geneplotter: Update to 1.58.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-geneplotter): Update to 1.58.0.
2018-06-02gnu: r-copynumber: Update to 1.20.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-copynumber): Update to 1.20.0.
2018-06-02gnu: r-annotate: Update to 1.58.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-annotate): Update to 1.58.0.
2018-06-02gnu: r-qdnaseq: Update to 1.16.0.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-qdnaseq): Update to 1.16.0. [propagated-inputs]: Add r-biocparallel.
2018-06-02gnu: r-cghcall: Update to 2.42.0.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-cghcall): Update to 2.42.0.
2018-06-02gnu: r-cghbase: Update to 1.40.0.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-cghbase): Update to 1.40.0.
2018-06-02gnu: r-marray: Update to 1.58.0.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-marray): Update to 1.58.0. [propagated-inputs]: Remove r-biobase.
2018-06-02gnu: r-chippeakanno: Update to 3.14.0.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.14.0. [propagated-inputs]: Add r-biostrings, r-delayedarray, r-genomicranges, r-iranges, and r-s4vectors.
2018-06-02gnu: r-ripseeker: Update to 1.20.0.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-ripseeker): Update to 1.20.0.
2018-06-02gnu: r-diffbind: Update to 2.8.0.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-diffbind): Update to 2.8.0. [propagated-inputs]: Add r-genomicranges, r-ggplot2, and r-summarizedexperiment.
2018-06-02gnu: r-regioner: Update to 1.12.0.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-regioner): Update to 1.12.0. [propagated-inputs]: Add r-s4vectors.
2018-06-02gnu: r-hpar: Update to 1.22.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-hpar): Update to 1.22.2.
2018-06-02gnu: r-minimal: Update to 3.5.0.Ricardo Wurmus
* gnu/packages/statistics.scm (r-with-tests): New variable derived from r-minimal; update to 3.5.0. [arguments]: Build recommended packages. (r-minimal): Inherit from r-with-tests. [arguments]: Disable recommended packages and tests.
2018-06-02gnu: emacs-elfeed: Update to 3.0.0.Clément Lassieur
* gnu/packages/emacs.scm (emacs-elfeed): Update to 3.0.0.
2018-06-01gnu: icecat: Add more fixes from upstream esr52.Mark H Weaver
* gnu/packages/gnuzilla.scm (icecat)[source]: Add selected fixes from the upstream mozilla-esr52 repository.
2018-06-01gnu: qtbase: Fix build on older kernels.Ricardo Wurmus
* gnu/packages/qt.scm (qtbase)[arguments]: Add configure flags "-no-feature-getentropy" and "-no-feature-renameat2".
2018-06-01vm: Use 'with-extensions'.Ludovic Courtès
* gnu/system/vm.scm (system-docker-image)[build]: Use 'with-extensions'. Remove 'add-to-load-path' calls.
2018-06-01bootloader: grub: Use 'with-extensions'.Ludovic Courtès
* gnu/bootloader/grub.scm (svg->png): Use 'with-extensions'. Remove 'add-to-load-path' calls. * gnu/build/svg.scm: Use (rsvg) and (cairo) the normal way. Remove 'module-autoload!' calls.
2018-06-01bootloader: grub: Simplify 'svg->png'.Ludovic Courtès
* gnu/bootloader/grub.scm (svg->png): Remove now unneeded #:guile-for-build argument.
2018-06-01tests: ssh: Use 'with-extensions'.Ludovic Courtès
* gnu/tests/ssh.scm (run-ssh-test)[test]: Wrap body in 'with-extensions'. Remove %load-path manipulation code.
2018-06-01gnu: rust: Add support for building 32-bit packages on 64-bit hosts.Robin Templeton
* gnu/packages/rust.scm (rust-bootstrap, rust-1.23): Use nix-system->gnu-triplet to determine the system type. (rust-1.19): Use readelf instead of nm in the atomic-lock-free test. (rust-1.23): Disable the cargo_test_env test. Disable parallel execution of tests. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-06-01gnu: Add git-annex.Timothy Sample
* gnu/packages/version-control.scm (git-annex): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-06-01gnu: Add ghc-disk-free-space.Timothy Sample
* gnu/packages/haskell.scm (ghc-disk-free-space): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
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