[PATCH 1/2] gnu: Add r-rcas.

[Ricardo Wurmus]

* gnu/packages/bioinformatics.scm (r-rcas): New variable.
---
 gnu/packages/bioinformatics.scm | 49 +++++++++++++++++++++++++++++++++++++++++
 1 file changed, 49 insertions(+)

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 5fbfdf0..6d080d2 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -56,6 +56,7 @@
   #:use-module (gnu packages gtk)
   #:use-module (gnu packages glib)
   #:use-module (gnu packages groff)
+  #:use-module (gnu packages haskell)
   #:use-module (gnu packages image)
   #:use-module (gnu packages imagemagick)
   #:use-module (gnu packages java)
@@ -7137,6 +7138,54 @@ ranges and it computes reads profiles and coverage 
profiles.  It also handles
 paired-end data.")
     (license license:gpl2+)))
 
+(define-public r-rcas
+  (package
+    (name "r-rcas")
+    (version "0.99.6")
+    (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"))
+              (sha256
+               (base32
+                "1ljgl2b4r6w2n0i9i04d9xaphajsvhfkjdj2i2z830nha4m3w8f0"))))
+    (build-system r-build-system)
+    (native-inputs
+     `(("r-roxygen2" ,r-roxygen2)
+       ("r-knitr" ,r-knitr)
+       ("r-testthat" ,r-testthat)
+       ;; During vignette building knitr checks that "pandoc-citeproc"
+       ;; is in the PATH.
+       ("ghc-pandoc-citeproc" ,ghc-pandoc-citeproc)))
+    (propagated-inputs
+     `(("r-data-table" ,r-data-table)
+       ("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-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-dt" ,r-dt)
+       ("r-plotly" ,r-plotly)
+       ("r-doparallel" ,r-doparallel)
+       ("r-motifrg" ,r-motifrg)
+       ("r-genomation" ,r-genomation)
+       ("r-genomicfeatures" ,r-genomicfeatures)
+       ("r-rtracklayer" ,r-rtracklayer)
+       ("r-rmarkdown" ,r-rmarkdown)))
+    (synopsis "RNA-centric annotation system")
+    (description
+     "RCAS aims to be a standalone RNA-centric annotation system that provides
+intuitive reports and publication-ready graphics.  This package provides the R
+library implementing most of the pipeline's features.")
+    (home-page "https://github.com/BIMSBbioinfo/RCAS";)
+    (license license:expat)))
+
 (define-public emboss
   (package
     (name "emboss")
-- 
2.10.1