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2019-12-04gnu: r-survival: Update to 3.1-8.Ricardo Wurmus
* gnu/packages/statistics.scm (r-survival): Update to 3.1-8.
2019-12-04gnu: r-all: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-all)[source]: Use bioconductor-uri.
2019-12-04gnu: r-hsmmsinglecell: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-hsmmsinglecell)[source]: Use bioconductor-uri.
2019-12-04gnu: r-arrmdata: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-arrmdata)[source]: Use bioconductor-uri.
2019-12-04gnu: r-abadata: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-abadata)[source]: Use bioconductor-uri.
2019-12-04gnu: r-do-db: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-do-db)[source]: Use bioconductor-uri.
2019-12-04gnu: r-illuminahumanmethylationepicmanifest: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-illuminahumanmethylationepicmanifest)[source]: Use bioconductor-uri.
2019-12-04gnu: r-fdb-infiniummethylation-hg19: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-fdb-infiniummethylation-hg19)[source]: Use bioconductor-uri.
2019-12-04gnu: r-txdb-mmusculus-ucsc-mm10-knowngene: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-txdb-mmusculus-ucsc-mm10-knowngene)[source]: Use bioconductor-uri. [arguments]: Enable substitution.
2019-12-04gnu: r-txdb-mmusculus-ucsc-mm9-knowngene: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-txdb-mmusculus-ucsc-mm9-knowngene)[source]: Use bioconductor-uri.
2019-12-04gnu: r-txdb-hsapiens-ucsc-hg38-knowngene: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-txdb-hsapiens-ucsc-hg38-knowngene)[source]: Use bioconductor-uri.
2019-12-04gnu: r-txdb-hsapiens-ucsc-hg19-knowngene: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-txdb-hsapiens-ucsc-hg19-knowngene)[source]: Use bioconductor-uri. [arguments]: Enable substitution.
2019-12-04gnu: r-genelendatabase: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-genelendatabase)[source]: Use bioconductor-uri.
2019-12-04gnu: r-bsgenome-hsapiens-ucsc-hg19: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-bsgenome-hsapiens-ucsc-hg19)[source]: Use bioconductor-uri. [arguments]: Enable substitution.
2019-12-04gnu: r-org-mm-eg-db: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-org-mm-eg-db)[source]: Use bioconductor-uri.
2019-12-04gnu: r-org-hs-eg-db: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-org-hs-eg-db)[source]: Use bioconductor-uri.
2019-12-04gnu: r-org-dr-eg-db: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-org-dr-eg-db)[source]: Use bioconductor-uri.
2019-12-04gnu: r-org-dm-eg-db: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-org-dm-eg-db)[source]: Use bioconductor-uri.
2019-12-04gnu: r-org-ce-eg-db: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-org-ce-eg-db)[source]: Use bioconductor-uri.
2019-12-04gnu: r-bsgenome-mmusculus-ucsc-mm10: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-bsgenome-mmusculus-ucsc-mm10)[source]: Use bioconductor-uri. [arguments]: Enable substitution.
2019-12-04gnu: r-bsgenome-mmusculus-ucsc-mm9-masked: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-bsgenome-mmusculus-ucsc-mm9-masked)[source]: Use bioconductor-uri.
2019-12-04gnu: r-bsgenome-mmusculus-ucsc-mm9: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-bsgenome-mmusculus-ucsc-mm9)[source]: Use bioconductor-uri. [arguments]: Enable substitution.
2019-12-04gnu: r-bsgenome-hsapiens-ucsc-hg19-masked: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-bsgenome-hsapiens-ucsc-hg19-masked)[source]: Use bioconductor-uri.
2019-12-04gnu: r-bsgenome-hsapiens-1000genomes-hs37d5: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-bsgenome-hsapiens-1000genomes-hs37d5)[source]: Use bioconductor-uri. [arguments]: Enable substitution.
2019-12-04gnu: r-bsgenome-dmelanogaster-ucsc-dm3-masked: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-bsgenome-dmelanogaster-ucsc-dm3-masked)[source]: Use bioconductor-uri.
2019-12-04gnu: r-bsgenome-dmelanogaster-ucsc-dm3: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-bsgenome-dmelanogaster-ucsc-dm3)[source]: Use bioconductor-uri. [arguments]: Enable substitution.
2019-12-04gnu: r-bsgenome-dmelanogaster-ucsc-dm6: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-bsgenome-dmelanogaster-ucsc-dm6)[source]: Use bioconductor-uri. [arguments]: Permit substitution.
2019-12-04gnu: r-bsgenome-celegans-ucsc-ce10: Use bioconductor-uri.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-bsgenome-celegans-ucsc-ce10)[source]: Use bioconductor-uri. [arguments]: Permit substitution.
2019-12-04gnu: emacs-olivetti: Update to 1.8.1.Brett Gilio
* gnu/packages/emacs-xyz.scm (emacs-olivetti): Update to 1.8.1. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2019-12-04gnu: emacs-irony-mode: Update to 1.4.0.Brett Gilio
* gnu/packages/emacs-xyz.scm (emacs-irony-mode): Update to 1.4.0. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2019-12-04gnu: emacs-elisp-demos: Update to 2019.12.01.Brett Gilio
* gnu/packages/emacs-xyz.scm (emacs-elisp-demos): Update to 2019.12.01. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2019-12-04gnu: emacs-doom-modeline: Update to 2.8.0.Brett Gilio
* gnu/packages/emacs-xyz.scm (emacs-doom-modeline): Update to 2.8.0. Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2019-12-04gnu: python-pandas: Move to (gnu packages python-science).Ricardo Wurmus
* gnu/packages/python-xyz.scm (python-pandas, python2-pandas): Move from here... * gnu/packages/python-science.scm (python-pandas, python2-pandas): ...to here. * gnu/packages/benchmark.scm, gnu/packages/databases.scm, gnu/packages/graph.scm, gnu/packages/parallel.scm, gnu/packages/serialization.scm: Import (gnu packages python-science).
2019-12-03gnu: handbrake: Upgrade to 1.3.0.Eric Bavier
* gnu/packages/patches/handbrake-opt-in-nvenc.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. * gnu/packages/video.scm (handbrake)[source]: Upgrade to 1.3.0. Remove patch. [native-inputs]: Remove cmake and curl. [inputs]: Add dav1d and numactl. [arguments]: Add "--disable-nvenc" to configure flags in place of patch. Adjust "bootstrap" phase in response to upstream changes. Add "patch-SHELL" and "relax-reqs" phases.
2019-12-04guix-install.sh: Use a deterministic umask.Tobias Geerinckx-Rice
Users with strict umasks (e.g. 0077) would end up with an unreadable /gnu (mode 0700) and no way to run guix. Reported by A. <@aaap:matrix.org> on #guix. * etc/guix-install.sh (main): Set umask before installing anything.
2019-12-03gnu: tcc: Add search paths and drop the wrapper.Andreas Enge
* gnu/packages/c.scm (tcc): Add native search paths. (tcc-wrapper): Remove variable.
2019-12-03gnu: cmocka: Update to 1.1.5.Tobias Geerinckx-Rice
* gnu/packages/check.scm (cmocka): Update to 1.1.5.
2019-12-03gnu: girara: Update to 0.3.3.Tobias Geerinckx-Rice
* gnu/packages/gtk.scm (girara): Update to 0.3.3.
2019-12-03gnu: libcdio: Update to 2.1.0.Tobias Geerinckx-Rice
* gnu/packages/cdrom.scm (libcdio): Update to 2.1.0.
2019-12-03gnu: libcdio-paranoia: Update to 10.2+2.0.0.Tobias Geerinckx-Rice
* gnu/packages/cdrom.scm (libcdio-paranoia): Update to 10.2+2.0.0.
2019-12-03gnu: libburn: Update to 1.5.2.Tobias Geerinckx-Rice
* gnu/packages/cdrom.scm (libburn): Update to 1.5.2.
2019-12-03gnu: r-rsqlite: Update to 2.1.3.Ricardo Wurmus
* gnu/packages/statistics.scm (r-rsqlite): Update to 2.1.3.
2019-12-03gnu: r-roxygen2: Update to 7.0.2.Ricardo Wurmus
* gnu/packages/statistics.scm (r-roxygen2): Update to 7.0.2.
2019-12-03gnu: r-testthat: Update to 2.3.1.Ricardo Wurmus
* gnu/packages/statistics.scm (r-testthat): Update to 2.3.1.
2019-12-03gnu: r-rspectra: Update to 0.16-0.Ricardo Wurmus
* gnu/packages/cran.scm (r-rspectra): Update to 0.16-0.
2019-12-03gnu: r-sjplot: Update to 2.8.1.Ricardo Wurmus
* gnu/packages/cran.scm (r-sjplot): Update to 2.8.1.
2019-12-03gnu: r-bayesplot: Update to 1.7.1.Ricardo Wurmus
* gnu/packages/cran.scm (r-bayesplot): Update to 1.7.1.
2019-12-03gnu: r-maptools: Update to 0.9-9.Ricardo Wurmus
* gnu/packages/cran.scm (r-maptools): Update to 0.9-9.
2019-12-03gnu: r-network: Update to 1.16.0.Ricardo Wurmus
* gnu/packages/cran.scm (r-network): Update to 1.16.0.
2019-12-03gnu: r-dendextend: Update to 1.13.2.Ricardo Wurmus
* gnu/packages/cran.scm (r-dendextend): Update to 1.13.2.
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