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| author | Ricardo Wurmus <rekado@elephly.net> | 2018-06-07 20:33:10 +0200 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2018-06-07 22:51:00 +0200 |
| commit | bcc2e0ed2e0849f64de970877c75350ca96510af (patch) | |
| tree | a621a2a874913f224bf7c64c22ecb99cb8b2d9ac /gnu | |
| parent | e67acae7060063fa6251a72f04e476d9dbcc633d (diff) | |
| download | patches-bcc2e0ed2e0849f64de970877c75350ca96510af.tar patches-bcc2e0ed2e0849f64de970877c75350ca96510af.tar.gz | |
gnu: r-rcas: Update to 1.6.0.
* gnu/packages/bioinformatics.scm (r-rcas): Update to 1.6.0.
[source]: Fetch from bioconductor.
[native-inputs]: Remove r-knitr.
[propagated-inputs]: Add r-biocgenerics, r-biostrings, r-cowplot, r-dbi,
r-ggseqlogo, r-knitr, r-pheatmap, r-proxy, r-rsqlite, and r-s4vectors.
Diffstat (limited to 'gnu')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 42 |
1 files changed, 25 insertions, 17 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 828e965989..18b787b704 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -8529,43 +8529,51 @@ paired-end data.") (define-public r-rcas (package (name "r-rcas") - (version "1.3.4") + (version "1.6.0") (source (origin (method url-fetch) - (uri (string-append "https://github.com/BIMSBbioinfo/RCAS/archive/v" - version ".tar.gz")) - (file-name (string-append name "-" version ".tar.gz")) + (uri (bioconductor-uri "RCAS" version)) (sha256 (base32 - "1qgc7vi6fpzl440yg7jhiycg5q336kd4pxqzx10yx2zcq3bq3msg")))) + "0vmn7a0rm2ban0kaxrf5danhss2r4hfhnwh5889fjcgqy300fdd5")))) (build-system r-build-system) (native-inputs - `(("r-knitr" ,r-knitr) - ("r-testthat" ,r-testthat) + `(("r-testthat" ,r-testthat) ;; During vignette building knitr checks that "pandoc-citeproc" ;; is in the PATH. ("ghc-pandoc-citeproc" ,ghc-pandoc-citeproc-with-pandoc-1))) (propagated-inputs - `(("r-data-table" ,r-data-table) + `(("r-biocgenerics" ,r-biocgenerics) ("r-biomart" ,r-biomart) - ("r-org-hs-eg-db" ,r-org-hs-eg-db) - ("r-org-ce-eg-db" ,r-org-ce-eg-db) - ("r-org-dm-eg-db" ,r-org-dm-eg-db) - ("r-org-mm-eg-db" ,r-org-mm-eg-db) + ("r-biostrings" ,r-biostrings) ("r-bsgenome-hsapiens-ucsc-hg19" ,r-bsgenome-hsapiens-ucsc-hg19) ("r-bsgenome-mmusculus-ucsc-mm9" ,r-bsgenome-mmusculus-ucsc-mm9) ("r-bsgenome-celegans-ucsc-ce10" ,r-bsgenome-celegans-ucsc-ce10) ("r-bsgenome-dmelanogaster-ucsc-dm3" ,r-bsgenome-dmelanogaster-ucsc-dm3) - ("r-topgo" ,r-topgo) + ("r-cowplot" ,r-cowplot) + ("r-data-table" ,r-data-table) + ("r-dbi" ,r-dbi) ("r-dt" ,r-dt) + ("r-genomation" ,r-genomation) + ("r-genomicfeatures" ,r-genomicfeatures) + ("r-ggplot2" ,r-ggplot2) + ("r-ggseqlogo" ,r-ggseqlogo) + ("r-knitr" ,r-knitr) + ("r-motifrg" ,r-motifrg) + ("r-org-hs-eg-db" ,r-org-hs-eg-db) + ("r-org-ce-eg-db" ,r-org-ce-eg-db) + ("r-org-dm-eg-db" ,r-org-dm-eg-db) + ("r-org-mm-eg-db" ,r-org-mm-eg-db) ("r-pbapply" ,r-pbapply) + ("r-pheatmap" ,r-pheatmap) ("r-plotly" ,r-plotly) ("r-plotrix" ,r-plotrix) - ("r-motifrg" ,r-motifrg) - ("r-genomation" ,r-genomation) - ("r-genomicfeatures" ,r-genomicfeatures) + ("r-proxy" ,r-proxy) + ("r-rsqlite" ,r-rsqlite) ("r-rtracklayer" ,r-rtracklayer) - ("r-rmarkdown" ,r-rmarkdown))) + ("r-rmarkdown" ,r-rmarkdown) + ("r-s4vectors" ,r-s4vectors) + ("r-topgo" ,r-topgo))) (synopsis "RNA-centric annotation system") (description "RCAS aims to be a standalone RNA-centric annotation system that provides |