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2018-09-06gnu: libmpdclient: Update to 2.15....* gnu/packages/mpd.scm (libmpdclient): Update to 2.15. Tobias Geerinckx-Rice
2018-09-05git: Don't require users to specifiy "origin/" for branches....Fixes <https://bugs.gnu.org/32618>. Reported by Eric Brown <brown@fastmail.com>. * guix/git.scm (update-cached-checkout): Remove "origin/" from default REF. Define CANONICAL-REF and use it instead of REF. (latest-repository-commit): Remove "origin/" from default REF. * guix/channels.scm (%default-channels): Remove "origin/" from 'branch'. Ludovic Courtès
2018-09-05channels: Fix external channel builds....This fixes a regression introduced in ca719424455465fca4b872c371daf2a46de88b33 whereby external channels would fail to build due to the lack of (gcrypt …) modules. * guix/channels.scm (channel-instance-derivations): Add 'guile-gcrypt'. Pass it along CORE to 'build-channel-instance'. Ludovic Courtès
2018-09-05gnu: pigx-scrnaseq: Use latest version of Pandoc....* gnu/packages/bioinformatics.scm (pigx-scrnaseq)[inputs]: Replace "ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc", and "ghc-pandoc-1" with "ghc-pandoc". Ricardo Wurmus
2018-09-05gnu: pigx-bsseq: Use latest version of Pandoc....* gnu/packages/bioinformatics.scm (pigx-bsseq)[inputs]: Replace "ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc", and "ghc-pandoc-1" with "ghc-pandoc". Ricardo Wurmus
2018-09-05gnu: pigx-chipseq: Use latest version of Pandoc....* gnu/packages/bioinformatics.scm (pigx-chipseq)[inputs]: Replace "ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc", and "ghc-pandoc-1" with "ghc-pandoc". Ricardo Wurmus
2018-09-05gnu: pigx-rnaseq: Use latest version of Pandoc....* gnu/packages/bioinformatics.scm (pigx-rnaseq)[inputs]: Replace "ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc", and "ghc-pandoc-1" with "ghc-pandoc". Ricardo Wurmus
2018-09-05gnu: r-rcas: Use standard version of ghc-pandoc-citeproc....* gnu/packages/bioinformatics.scm (r-rcas)[native-inputs]: Replace "ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc". Ricardo Wurmus
2018-09-05gnu: r-modelmetrics: Update to 1.2.0....* gnu/packages/statistics.scm (r-modelmetrics): Update to 1.2.0. [propagated-inputs]: Add r-data-table. Ricardo Wurmus
2018-09-05gnu: r-robustbase: Update to 0.93-2....* gnu/packages/statistics.scm (r-robustbase): Update to 0.93-2. Ricardo Wurmus
2018-09-05gnu: r-rann: Update to 2.6....* gnu/packages/statistics.scm (r-rann): Update to 2.6. Ricardo Wurmus
2018-09-05gnu: r-ggthemes: Update to 4.0.1....* gnu/packages/statistics.scm (r-ggthemes): Update to 4.0.1. [propagated-inputs]: Remove r-assertthat and r-colorspace; add r-purrr, r-stringr, and r-tibble. Ricardo Wurmus
2018-09-05gnu: r-ztable: Update to 0.2.0....* gnu/packages/statistics.scm (r-ztable): Update to 0.2.0. [propagated-inputs]: Add r-flextable, r-magrittr, r-moonbook, r-officer, r-rcolorbrewer, r-scales, and r-stringr. Ricardo Wurmus
2018-09-05gnu: r-zoo: Update to 1.8-3....* gnu/packages/statistics.scm (r-zoo): Update to 1.8-3. Ricardo Wurmus
2018-09-05gnu: r-gtools: Update to 3.8.1....* gnu/packages/statistics.scm (r-gtools): Update to 3.8.1. Ricardo Wurmus
2018-09-05gnu: r-kernlab: Update to 0.9-27....* gnu/packages/machine-learning.scm (r-kernlab): Update to 0.9-27. Ricardo Wurmus
2018-09-05gnu: r-adaptivesparsity: Update to 1.6....* gnu/packages/machine-learning.scm (r-adaptivesparsity): Update to 1.6. [propagated-inputs]: Add r-mass and r-matrix. Ricardo Wurmus
2018-09-05gnu: r-codedepends: Move from cran to bioconductor....* gnu/packages/cran.scm (r-codedepends): Move from here... * gnu/packages/bioconductor.scm (r-codedepends): ...to here. Ricardo Wurmus
2018-09-05gnu: r-graph: Move from bioinformatics to bioconductor....* gnu/packages/bioinformatics.scm (r-graph): Move from here... * gnu/packages/bioconductor.scm (r-graph): ...to here. Ricardo Wurmus
2018-09-05gnu: r-ggpubr: Update to 0.1.8....* gnu/packages/cran.scm (r-ggpubr): Update to 0.1.8. [propagated-inputs]: Add r-glue and r-polynom. Ricardo Wurmus
2018-09-05gnu: r-codedepends: Update to 0.6.5....* gnu/packages/cran.scm (r-codedepends): Update to 0.6.5. [propagated-inputs]: Add r-graph. Ricardo Wurmus
2018-09-05gnu: r-later: Update to 0.7.4....* gnu/packages/cran.scm (r-later): Update to 0.7.4. Ricardo Wurmus
2018-09-05gnu: r-maptools: Update to 0.9-3....* gnu/packages/cran.scm (r-maptools): Update to 0.9-3. Ricardo Wurmus
2018-09-05gnu: r-fnn: Update to 1.1.2.1....* gnu/packages/cran.scm (r-fnn): Update to 1.1.2.1. Ricardo Wurmus
2018-09-05gnu: r-heatmaply: Update to 0.15.2....* gnu/packages/cran.scm (r-heatmaply): Update to 0.15.2. Ricardo Wurmus
2018-09-05gnu: r-tsa: Update to 1.2....* gnu/packages/cran.scm (r-tsa): Update to 1.2. [propagated-inputs]: Remove r-tseries. Ricardo Wurmus
2018-09-05gnu: r-statnet-common: Update to 4.1.4....* gnu/packages/cran.scm (r-statnet-common): Update to 4.1.4. Ricardo Wurmus
2018-09-05gnu: r-metap: Update to 1.0....* gnu/packages/cran.scm (r-metap): Update to 1.0. [propagated-inputs]: Add r-rdpack. Ricardo Wurmus
2018-09-05gnu: r-tinytex: Update to 0.8....* gnu/packages/cran.scm (r-tinytex): Update to 0.8. Ricardo Wurmus
2018-09-05gnu: r-pillar: Update to 1.3.0....* gnu/packages/cran.scm (r-pillar): Update to 1.3.0. [propagated-inputs]: Add r-fansi. Ricardo Wurmus
2018-09-05gnu: r-xts: Update to 0.11-0....* gnu/packages/cran.scm (r-xts): Update to 0.11-0. [native-inputs]: Remove. Ricardo Wurmus
2018-09-05gnu: r-mice: Update to 3.3.0....* gnu/packages/cran.scm (r-mice): Update to 3.3.0. Ricardo Wurmus
2018-09-05gnu: r-pan: Update to 1.6....* gnu/packages/cran.scm (r-pan): Update to 1.6. Ricardo Wurmus
2018-09-05gnu: r-jomo: Update to 2.6-4....* gnu/packages/cran.scm (r-jomo): Update to 2.6-4. [propagated-inputs]: Add r-ordinal. Ricardo Wurmus
2018-09-05gnu: Add r-ordinal....* gnu/packages/cran.scm (r-ordinal): New variable. Ricardo Wurmus
2018-09-05gnu: Add r-ucminf....* gnu/packages/cran.scm (r-ucminf): New variable. Ricardo Wurmus
2018-09-05gnu: r-broom: Update to 0.5.0....* gnu/packages/cran.scm (r-broom): Update to 0.5.0. [propagated-inputs]: Add r-backports, r-dplyr, r-purrr, and r-tibble; remove r-plyr and r-psych. Ricardo Wurmus
2018-09-05gnu: r-ipred: Update to 0.9-7....* gnu/packages/cran.scm (r-ipred): Update to 0.9-7. Ricardo Wurmus
2018-09-05gnu: r-pls: Update to 2.7-0....* gnu/packages/cran.scm (r-pls): Update to 2.7-0. Ricardo Wurmus
2018-09-05gnu: r-glue: Update to 1.3.0....* gnu/packages/cran.scm (r-glue): Update to 1.3.0. Ricardo Wurmus
2018-09-05gnu: r-callr: Update to 3.0.0....* gnu/packages/cran.scm (r-callr): Update to 3.0.0. [propagated-inputs]: Add r-base64enc. Ricardo Wurmus
2018-09-05gnu: r-reprex: Update to 0.2.0....* gnu/packages/cran.scm (r-reprex): Update to 0.2.0. [propagated-inputs]: Add r-clipr, r-rlang, and r-withr. Ricardo Wurmus
2018-09-05gnu: r-reticulate: Update to 1.10....* gnu/packages/cran.scm (r-reticulate): Update to 1.10. Ricardo Wurmus
2018-09-05gnu: r-doby: Update to 4.6-2....* gnu/packages/cran.scm (r-doby): Update to 4.6-2. Ricardo Wurmus
2018-09-05gnu: Add r-flextable....* gnu/packages/cran.scm (r-flextable): New variable. Ricardo Wurmus
2018-09-05gnu: r-rmarkdown: Use latest version of Pandoc....* gnu/packages/statistics.scm (r-rmarkdown)[propagated-inputs]: Replace "ghc-pandoc-1" with "ghc-pandoc". Ricardo Wurmus
2018-09-05Revert "gnu: ghc-tasty: Update to 1.1.0.3."...This reverts commit 3ad6b8909025a8f4d3e1f1f5ea16bcd0cace557c. Ricardo Wurmus
2018-09-05Revert "gnu: ghc-base-compat: Update to 0.10.4."...This reverts commit 0fa2c552fcd5176b0484b77b7f7c94d82d46415e. We may not upgrade base-compat at this point because we haven't upgraded the default GHC yet. Ricardo Wurmus
2018-09-05gnu: Add r-moonbook....* gnu/packages/cran.scm (r-moonbook): New variable. Ricardo Wurmus
2018-09-05gnu: Add r-nortest....* gnu/packages/cran.scm (r-nortest): New variable. Ricardo Wurmus
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