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* gnu: Add java-eclipse-jdt-compiler-apt.•••* gnu/packages/java.scm (java-eclipse-jdt-compiler-apt): New variable. Ricardo Wurmus2019-03-081-0/+27
* 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 Wurmus2019-03-083-19/+3
* gnu: Add texlive-latex-pdfx.•••* gnu/packages/tex.scm (texlive-latex-pdfx): New variable. Ricardo Wurmus2019-03-081-0/+52
* gnu: Add texlive-latex-xmpincl.•••* gnu/packages/tex.scm (texlive-latex-xmpincl): New variable. Ricardo Wurmus2019-03-081-0/+22
* gnu: Add translate2geda.•••* gnu/packages/engineering.scm (translate2geda): New variable. Ricardo Wurmus2019-03-081-0/+47
* gnu: Add rkrlv2.•••* gnu/packages/music.scm (rkrlv2): New variable. Ricardo Wurmus2019-03-081-0/+30
* gnu: fc-host-tools: Update to 10.•••* gnu/packages/embedded.scm (fc-host-tools): Update to 10. [arguments]<:make-flags>: Change INSTBIN to INSTALL_PREFIX. Danny Milosavljevic2019-03-081-3/+3
* gnu: crawl: Find all the included headers.•••* gnu/packages/games.scm (crawl)[arguments]: Add a custom phase to change the path for some headers. Efraim Flashner2019-03-081-0/+5
* gnu: crawl: Don't assume system architecture.•••This allows crawl to build on non-Intel architectures. * gnu/packages/games.scm (crawl)[arguments]: Add a custom phase to remove x86* specific CFLAGS. Efraim Flashner2019-03-081-0/+5
* gnu: crawl: Build with python3-wrapper.•••* gnu/packages/games.scm (crawl)[native-inputs replace python with python-wrapper. [arguments]: Remove custom 'patch-python phase. Efraim Flashner2019-03-081-6/+1
* gnu: u-boot: Remove openssl input.•••Fixes <https://bugs.gnu.org/34717>. * gnu/packages/bootloaders (u-boot): Remove openssl from native-inputs. (u-boot-tools): Disable FIT_SIGNATURES in tests. Signed-off-by: Ludovic Courtès <ludo@gnu.org> Vagrant Cascadian2019-03-081-2/+6
* gnu: flatpak: Add more dependencies.•••* gnu/packages/package-management.scm (flatpak)[propagated-inputs]: Add "glib-networking", "gnupg" and "gsettings-desktop-schemas". Rutger Helling2019-03-081-0/+4
* gnu: r-genelendatabase: Update to 1.18.0.•••* gnu/packages/bioconductor.scm (r-genelendatabase): Update to 1.18.0. Ricardo Wurmus2019-03-081-2/+2
* 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: man-pages: Update to 5.00.•••* gnu/packages/man.scm (man-pages): Update to 5.00. [source]: Re-format. Tobias Geerinckx-Rice2019-03-081-14/+11
* gnu: dovecot: Update to 2.3.5.•••* gnu/packages/mail.scm (dovecot): Update to 2.3.5. [arguments]: Patch more tests in ‘patch-file-names’ phase, renamed from ‘patch-other-file-names’. Tobias Geerinckx-Rice2019-03-081-4/+7
* gnu: dovecot: Don't use NAME in source URI.•••* gnu/packages/mail.scm (dovecot)[source]: Hard-code NAME. Tobias Geerinckx-Rice2019-03-081-1/+1
* gnu: Add mruby.•••* gnu/packages/ruby.scm (mruby): New variable. Ricardo Wurmus2019-03-081-0/+61
* gnu: r-ggmap: Update to 3.0.0.•••* gnu/packages/cran.scm (r-ggmap): Update to 3.0.0. [propagated-inputs]: Add r-bitops, r-dplyr, r-glue, r-httr, r-magrittr, r-purrr, r-stringr, r-tibble, and r-tidyr; remove r-geosphere, r-mapproj, r-proto, and r-reshape2. Ricardo Wurmus2019-03-071-8/+13
* gnu: r-readxl: Update to 1.3.0.•••* gnu/packages/cran.scm (r-readxl): Update to 1.3.0. Ricardo Wurmus2019-03-071-2/+2
* gnu: r-sys: Update to 3.0.•••* gnu/packages/cran.scm (r-sys): Update to 3.0. Ricardo Wurmus2019-03-071-2/+2
* gnu: r-servr: Update to 0.13.•••* gnu/packages/cran.scm (r-servr): Update to 0.13. Ricardo Wurmus2019-03-071-2/+2
* gnu: r-flextable: Update to 0.5.1.•••* gnu/packages/cran.scm (r-flextable): Update to 0.5.1. [propagated-inputs]: Add r-data-table, r-magick, and r-rlang; remove r-r6 and r-stringr. Ricardo Wurmus2019-03-071-5/+6
* gnu: r-proxy: Update to 0.4-23.•••* gnu/packages/cran.scm (r-proxy): Update to 0.4-23. Ricardo Wurmus2019-03-071-2/+2
* gnu: r-haven: Update to 2.1.0.•••* gnu/packages/cran.scm (r-haven): Update to 2.1.0. Ricardo Wurmus2019-03-071-2/+2
* gnu: r-emdbook: Update to 1.3.11.•••* gnu/packages/cran.scm (r-emdbook): Update to 1.3.11. Ricardo Wurmus2019-03-071-2/+2
* gnu: r-rmysql: Update to 0.10.17.•••* gnu/packages/cran.scm (r-rmysql): Update to 0.10.17. [native-inputs]: Remove pkg-config. Ricardo Wurmus2019-03-071-4/+2
* gnu: r-gower: Update to 0.2.0.•••* gnu/packages/cran.scm (r-gower): Update to 0.2.0. [native-inputs]: Remove r-knitr. Ricardo Wurmus2019-03-071-4/+2
* gnu: r-ggsignif: Update to 0.5.0.•••* gnu/packages/cran.scm (r-ggsignif): Update to 0.5.0. Ricardo Wurmus2019-03-071-2/+2
* gnu: r-jomo: Update to 2.6-7.•••* gnu/packages/cran.scm (r-jomo): Update to 2.6-7. Ricardo Wurmus2019-03-071-2/+2
* gnu: r-mice: Update to 3.4.0.•••* gnu/packages/cran.scm (r-mice): Update to 3.4.0. Ricardo Wurmus2019-03-071-2/+2
* gnu: r-xfun: Update to 0.5.•••* gnu/packages/cran.scm (r-xfun): Update to 0.5. Ricardo Wurmus2019-03-071-2/+2
* gnu: r-metap: Update to 1.1.•••* gnu/packages/cran.scm (r-metap): Update to 1.1. Ricardo Wurmus2019-03-071-2/+2
* gnu: r-ifultools: Update to 2.0-5.•••* gnu/packages/cran.scm (r-ifultools): Update to 2.0-5. Ricardo Wurmus2019-03-071-2/+2
* gnu: r-radiant-data: Update to 0.9.9.•••* gnu/packages/cran.scm (r-radiant-data): Update to 0.9.9. [propagated-inputs]: Add r-stringi; remove r-summarytools. Ricardo Wurmus2019-03-071-3/+3
* gnu: r-later: Update to 0.8.0.•••* gnu/packages/cran.scm (r-later): Update to 0.8.0. Ricardo Wurmus2019-03-071-2/+2
* gnu: r-vim: Update to 4.8.0.•••* gnu/packages/cran.scm (r-vim): Update to 4.8.0. [propagated-inputs]: Add r-ranger. Ricardo Wurmus2019-03-071-2/+3
* gnu: r-fnn: Update to 1.1.3.•••* gnu/packages/cran.scm (r-fnn): Update to 1.1.3. Ricardo Wurmus2019-03-071-2/+2
* gnu: r-arules: Update to 1.6-3.•••* gnu/packages/cran.scm (r-arules): Update to 1.6-3. Ricardo Wurmus2019-03-071-2/+2
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