gnu: r-bsgenome-mmusculus-ucsc-mm9: Move to (gnu packages bioconductor).

[jackhill/guix/guix.git] / gnu / packages / bioconductor.scm

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index d66dec6..6a58391 100644 (file)
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -166,6 +166,37 @@ Repeats Finder (TRF mask).  Only the AGAPS and AMB masks are \"active\" by
 default.")
     (license license:artistic2.0)))
 
+(define-public r-bsgenome-mmusculus-ucsc-mm9
+  (package
+    (name "r-bsgenome-mmusculus-ucsc-mm9")
+    (version "1.4.0")
+    (source (origin
+              (method url-fetch)
+              ;; We cannot use bioconductor-uri here because this tarball is
+              ;; located under "data/annotation/" instead of "bioc/".
+              (uri (string-append "https://www.bioconductor.org/packages/"
+                                  "release/data/annotation/src/contrib/"
+                                  "BSgenome.Mmusculus.UCSC.mm9_"
+                                  version ".tar.gz"))
+              (sha256
+               (base32
+                "1birqw30g2azimxpnjfzmkphan7x131yy8b9h85lfz5fjdg7841i"))))
+    (properties
+     `((upstream-name . "BSgenome.Mmusculus.UCSC.mm9")))
+    (build-system r-build-system)
+    ;; As this package provides little more than a very large data file it
+    ;; doesn't make sense to build substitutes.
+    (arguments `(#:substitutable? #f))
+    (propagated-inputs
+     `(("r-bsgenome" ,r-bsgenome)))
+    (home-page
+     "https://www.bioconductor.org/packages/BSgenome.Mmusculus.UCSC.mm9/")
+    (synopsis "Full genome sequences for Mouse")
+    (description
+     "This package provides full genome sequences for Mus musculus (Mouse) as
+provided by UCSC (mm9, July 2007) and stored in Biostrings objects.")
+    (license license:artistic2.0)))
+
 (define-public r-bsgenome-mmusculus-ucsc-mm9-masked
   (package
     (name "r-bsgenome-mmusculus-ucsc-mm9-masked")