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2020-06-13gnu: r-variantannotation: Update to 1.34.0.•••* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.34.0. Ricardo Wurmus
2020-06-13gnu: r-edger: Update to 3.30.3.•••* gnu/packages/bioinformatics.scm (r-edger): Update to 3.30.3. Ricardo Wurmus
2020-06-13gnu: r-genomeinfodb: Update to 1.24.0.•••* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.24.0. Ricardo Wurmus
2020-06-13gnu: r-iranges: Update to 2.22.2.•••* gnu/packages/bioinformatics.scm (r-iranges): Update to 2.22.2. Ricardo Wurmus
2020-06-13gnu: r-s4vectors: Update to 0.26.1.•••* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.26.1. Ricardo Wurmus
2020-06-13gnu: r-bioccheck: Update to 1.24.0.•••* gnu/packages/bioinformatics.scm (r-bioccheck): Update to 1.24.0. [native-inputs]: Add r-knitr. Ricardo Wurmus
2020-06-13gnu: r-biocstyle: Update to 2.16.0.•••* gnu/packages/bioinformatics.scm (r-biocstyle): Update to 2.16.0. [native-inputs]: Add r-knitr. Ricardo Wurmus
2020-06-13gnu: r-biocviews: Update to 1.56.0.•••* gnu/packages/bioinformatics.scm (r-biocviews): Update to 1.56.0. Ricardo Wurmus
2020-06-13gnu: r-grohmm: Update to 1.22.0.•••* gnu/packages/bioinformatics.scm (r-grohmm): Update to 1.22.0. Ricardo Wurmus
2020-06-13gnu: r-systempiper: Update to 1.22.0.•••* gnu/packages/bioinformatics.scm (r-systempiper): Update to 1.22.0. [propagated-inputs]: Add r-assertthat, r-magrittr, r-rsvg, r-dot, and r-stringr; remove r-biocgenerics. [native-inputs]: Add r-knitr. Ricardo Wurmus
2020-06-13gnu: r-shortread: Update to 1.46.0.•••* gnu/packages/bioinformatics.scm (r-shortread): Update to 1.46.0. Ricardo Wurmus
2020-06-13gnu: r-gostats: Update to 2.54.0.•••* gnu/packages/bioinformatics.scm (r-gostats): Update to 2.54.0. Ricardo Wurmus
2020-06-13gnu: r-category: Update to 2.54.0.•••* gnu/packages/bioinformatics.scm (r-category): Update to 2.54.0. Ricardo Wurmus
2020-06-13gnu: r-gseabase: Update to 1.50.1.•••* gnu/packages/bioinformatics.scm (r-gseabase): Update to 1.50.1. [native-inputs]: Add r-knitr. Ricardo Wurmus
2020-06-13gnu: r-rbgl: Update to 1.64.0.•••* gnu/packages/bioinformatics.scm (r-rbgl): Update to 1.64.0. Ricardo Wurmus
2020-06-13gnu: r-annotationforge: Update to 1.30.1.•••* gnu/packages/bioinformatics.scm (r-annotationforge): Update to 1.30.1. [native-inputs]: Add r-knitr. Ricardo Wurmus
2020-06-13gnu: r-dexseq: Update to 1.34.0.•••* gnu/packages/bioinformatics.scm (r-dexseq): Update to 1.34.0. [native-inputs]: Add r-knitr. Ricardo Wurmus
2020-06-13gnu: r-deseq2: Update to 1.28.1.•••* gnu/packages/bioinformatics.scm (r-deseq2): Update to 1.28.1. [propagated-inputs]: Remove r-hmisc. [native-inputs]: Add r-knitr. Ricardo Wurmus
2020-06-13gnu: r-genefilter: Update to 1.70.0.•••* gnu/packages/bioinformatics.scm (r-genefilter): Update to 1.70.0. [native-inputs]: Add r-knitr. Ricardo Wurmus
2020-06-13gnu: r-rgraphviz: Update to 2.32.0.•••* gnu/packages/graph.scm (r-rgraphviz): Update to 2.32.0. Ricardo Wurmus
2020-06-13gnu: r-preprocesscore: Update to 1.50.0.•••* gnu/packages/statistics.scm (r-preprocesscore): Update to 1.50.0. Ricardo Wurmus
2020-06-13gnu: Add r-dot.•••* gnu/packages/cran.scm (r-dot): New variable. Ricardo Wurmus
2020-06-13gnu: Add r-v8.•••* gnu/packages/cran.scm (r-v8): New variable. Ricardo Wurmus
2020-06-13gnu: Add r-scatterpie.•••* gnu/packages/cran.scm (r-scatterpie): New variable. Ricardo Wurmus
2020-06-13gnu: Add r-gprofiler2.•••* gnu/packages/cran.scm (r-gprofiler2): New variable. Ricardo Wurmus
2020-06-13gnu: node: Build shared library.•••* gnu/packages/node.scm (node)[arguments]: Build shared library. Ricardo Wurmus
2020-06-13gnu: r-gprofiler: Move to (gnu packages cran).•••* gnu/packages/bioinformatics.scm (r-gprofiler): Move this variable from here... * gnu/packages/cran.scm (r-gprofiler): ...to here. Ricardo Wurmus
2020-06-12gnu: guile-sqlite3: Update to 0.1.1.•••* gnu/packages/guile.scm (guile-sqlite3): Update to 0.1.1. [source]: Remove 'patches', 'modules', and 'snippet'. * gnu/packages/patches/guile-sqlite3-fix-cross-compilation.patch: Remove. * gnu/local.mk (dist_patch_DATA): Adjust accordingly. Ludovic Courtès
2020-06-12gnu: Add liblogging.•••* gnu/packages/c.scm (liblogging): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Katherine Cox-Buday
2020-06-12gnu: Add libfastjson.•••* gnu/packages/c.scm (libfastjson): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Katherine Cox-Buday
2020-06-12gnu: Add libestr.•••* gnu/packages/c.scm (libestr): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Katherine Cox-Buday
2020-06-12gnu: Add emacs-shell-pop.•••* gnu/packages/emacs-xyz.scm (emacs-shell-pop): New variable Signed-off-by: Ludovic Courtès <ludo@gnu.org> Ryan Desfosses
2020-06-12gnu: Fix apache mirror URIs.•••* gnu/packages/web.scm (serf)[source]: Remove redundant part of URI. * gnu/packages/java.scm (ant-bootstrap, java-commons-httpclient, java-jakarta-oro)[source]: Same. * gnu/packages/maven.scm (maven-shared-utils, maven-plugin-annotations, maven-wagon-provider-api, maven-artifact)[source]: Same. Efraim Flashner
2020-06-12gnu: xf86-input-libinput: Reduce closure size.•••* gnu/packages/xorg.scm (xf86-input-libinput)[inputs]: Replace libinput by libinput-minimal. Pierre Neidhardt
2020-06-12gnu: icecat: Fix WebGL support.•••* gnu/packages/gnuzilla.scm (icecat): Wrap mesa. Signed-off-by: Julien Lepiller <julien@lepiller.eu> Ekaitz Zarraga
2020-06-11gnu: Add exercism and dependencies.•••* gnu/packages/education.scm (exercism): New variable. * gnu/packages/patches/exercism-disable-self-update.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/golang.scm (go-github-com-spf13-afero) (go-github-com-spf13-cast) (go-github-com-spf13-cobra) (go-github-com-spf13-jwalterweatherman) (go-github-com-spf13-viper) (go-github-com-fsnotify-fsnotify) (go-github-com-magiconair-properties) (go-github-com-pelletier-go-toml) (go-github-com-subosito-gotenv) (go-gopkg-in-ini-v1) (go-github-com-mitchellh-mapstructure): New variables. Jakub Kądziołka
2020-06-11gnu: linux-libre: Update to 5.4.46.•••* gnu/packages/linux.scm (linux-libre-5.4-version): Update to 5.4.46. (linux-libre-5.4-pristine-source): Update hash. Mark H Weaver
2020-06-11gnu: linux-libre@5.7: Update to 5.7.2.•••* gnu/packages/linux.scm (linux-libre-5.7-version): Update to 5.7.128. (linux-libre-5.7-pristine-source): Update hash. Mark H Weaver
2020-06-11gnu: linux-libre@5.6: Remove.•••Users of linux-libre-5.6 should migrate to version 5.7. * gnu/packages/linux.scm (deblob-scripts-5.6, linux-libre-5.6-version) (linux-libre-5.6-pristine-source, linux-libre-5.6-source) (linux-libre-headers-5.6, linux-libre-arm-generic-5.6) (linux-libre-arm64-generic-5.6): Remove variables. Mark H Weaver
2020-06-11gnu: linux-libre@4.19: Update to 4.19.128.•••* gnu/packages/linux.scm (linux-libre-4.19-version): Update to 4.19.128. (linux-libre-4.19-pristine-source): Update hash. Mark H Weaver
2020-06-11gnu: linux-libre@4.14: Update to 4.14.184.•••* gnu/packages/linux.scm (linux-libre-4.14-version): Update to 4.14.184. (linux-libre-4.14-pristine-source): Update hash. Mark H Weaver
2020-06-11gnu: linux-libre@4.9: Update to 4.9.227.•••* gnu/packages/linux.scm (linux-libre-4.9-version): Update to 4.9.227. (linux-libre-4.9-pristine-source): Update hash. Mark H Weaver
2020-06-11gnu: linux-libre@4.4: Update to 4.4.227.•••* gnu/packages/linux.scm (linux-libre-4.4-version): Update to 4.4.227. (linux-libre-4.4-pristine-source): Update hash. Mark H Weaver
2020-06-11gnu: adns: Update to 1.6.0.•••* gnu/packages/adns.scm (adns): Update to 1.6.0. [source]: Use https. [native-inputs]: Add m4. Efraim Flashner
2020-06-11gnu: subversion: Update to 1.14.0.•••* gnu/packages/version-control.scm (subversion): Update to 1.14.0. [source]: Update source URI. Efraim Flashner
2020-06-11gnu: nghttp2: Replace with version 1.41 [fixes CVE-2020-11080].•••* gnu/packages/web.scm (nghttp2-1.41): New variable. (nghttp2)[replacement]: New field. Ludovic Courtès
2020-06-11gnu: r-with-tests, r-minimal: Update to 4.0.1.•••* gnu/packages/statistics.scm (r-with-tests, r-minimal): Update to 4.0.1. Ricardo Wurmus
2020-06-11gnu: r-brms: Update to 2.13.0.•••* gnu/packages/cran.scm (r-brms): Update to 2.13.0. Ricardo Wurmus
2020-06-11gnu: r-crochet: Update to 2.3.0.•••* gnu/packages/cran.scm (r-crochet): Update to 2.3.0. [native-inputs]: Add r-knitr. Ricardo Wurmus
2020-06-11gnu: r-openmx: Update to 2.17.4.•••* gnu/packages/cran.scm (r-openmx): Update to 2.17.4. Ricardo Wurmus
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