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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.
This commit is contained in:
Ricardo Wurmus 2018-06-07 20:33:10 +02:00
parent e67acae706
commit bcc2e0ed2e
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1 changed files with 26 additions and 18 deletions
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@ -8529,43 +8529,51 @@ paired-end data.")
(define-public r-rcas (define-public r-rcas
(package (package
(name "r-rcas") (name "r-rcas")
(version "1.3.4") (version "1.6.0")
(source (origin (source (origin
(method url-fetch) (method url-fetch)
(uri (string-append "https://github.com/BIMSBbioinfo/RCAS/archive/v" (uri (bioconductor-uri "RCAS" version))
version ".tar.gz"))
(file-name (string-append name "-" version ".tar.gz"))
(sha256 (sha256
(base32 (base32
"1qgc7vi6fpzl440yg7jhiycg5q336kd4pxqzx10yx2zcq3bq3msg")))) "0vmn7a0rm2ban0kaxrf5danhss2r4hfhnwh5889fjcgqy300fdd5"))))
(build-system r-build-system) (build-system r-build-system)
(native-inputs (native-inputs
`(("r-knitr" ,r-knitr) `(("r-testthat" ,r-testthat)
("r-testthat" ,r-testthat)
;; During vignette building knitr checks that "pandoc-citeproc" ;; During vignette building knitr checks that "pandoc-citeproc"
;; is in the PATH. ;; is in the PATH.
("ghc-pandoc-citeproc" ,ghc-pandoc-citeproc-with-pandoc-1))) ("ghc-pandoc-citeproc" ,ghc-pandoc-citeproc-with-pandoc-1)))
(propagated-inputs (propagated-inputs
`(("r-data-table" ,r-data-table) `(("r-biocgenerics" ,r-biocgenerics)
("r-biomart" ,r-biomart) ("r-biomart" ,r-biomart)
("r-org-hs-eg-db" ,r-org-hs-eg-db) ("r-biostrings" ,r-biostrings)
("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-bsgenome-hsapiens-ucsc-hg19" ,r-bsgenome-hsapiens-ucsc-hg19) ("r-bsgenome-hsapiens-ucsc-hg19" ,r-bsgenome-hsapiens-ucsc-hg19)
("r-bsgenome-mmusculus-ucsc-mm9" ,r-bsgenome-mmusculus-ucsc-mm9) ("r-bsgenome-mmusculus-ucsc-mm9" ,r-bsgenome-mmusculus-ucsc-mm9)
("r-bsgenome-celegans-ucsc-ce10" ,r-bsgenome-celegans-ucsc-ce10) ("r-bsgenome-celegans-ucsc-ce10" ,r-bsgenome-celegans-ucsc-ce10)
("r-bsgenome-dmelanogaster-ucsc-dm3" ,r-bsgenome-dmelanogaster-ucsc-dm3) ("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-dt" ,r-dt)
("r-pbapply" ,r-pbapply)
("r-plotly" ,r-plotly)
("r-plotrix" ,r-plotrix)
("r-motifrg" ,r-motifrg)
("r-genomation" ,r-genomation) ("r-genomation" ,r-genomation)
("r-genomicfeatures" ,r-genomicfeatures) ("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-proxy" ,r-proxy)
("r-rsqlite" ,r-rsqlite)
("r-rtracklayer" ,r-rtracklayer) ("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") (synopsis "RNA-centric annotation system")
(description (description
"RCAS aims to be a standalone RNA-centric annotation system that provides "RCAS aims to be a standalone RNA-centric annotation system that provides