13/54: gnu: r-genomationdata: Move to (gnu packages bioconductor).

[guix-commits]

rekado pushed a commit to branch master
in repository guix.

commit d7fa9c1ffdbd0ab4d4412020c925be39503ce9e8
Author: zimoun <zimon.toutoune@gmail.com>
AuthorDate: Fri May 21 22:25:45 2021 +0200

    gnu: r-genomationdata: Move to (gnu packages bioconductor).
    
    * gnu/packages/bioinformatics.scm (r-genomationdata): Move from here...
    * gnu/packages/bioconductor.scm (r-genomationdata): ...to here.
    [source]: Replace 'string-append' by 'bioconductor-uri' with 'experiment.
---
 gnu/packages/bioconductor.scm   | 26 ++++++++++++++++++++++++++
 gnu/packages/bioinformatics.scm | 28 ----------------------------
 2 files changed, 26 insertions(+), 28 deletions(-)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index b90e315..b25cc8e 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -1170,6 +1170,32 @@ genomes and gene ID formats, largely based on the UCSC 
table browser.")
 and visualize the results.")
     (license license:gpl3)))
 
+(define-public r-genomationdata
+  (package
+    (name "r-genomationdata")
+    (version "1.22.0")
+    (source (origin
+              (method url-fetch)
+              (uri (bioconductor-uri "genomationData" version 'experiment))
+              (sha256
+               (base32
+                "0igjsvfnws3498j65ifniw0kbxfqpfr59rcjddqvq4zsj453fx1g"))))
+    (properties
+     `((upstream-name . "genomationData")))
+    (build-system r-build-system)
+    ;; As this package provides little more than large data files, it doesn't
+    ;; make sense to build substitutes.
+    (arguments `(#:substitutable? #f))
+    (native-inputs
+     `(("r-knitr" ,r-knitr)))
+    (home-page "https://bioinformatics.mdc-berlin.de/genomation/";)
+    (synopsis "Experimental data for use with the genomation package")
+    (description
+     "This package contains experimental genetic data for use with the
+genomation package.  Included are Chip Seq, Methylation and Cage data,
+downloaded from Encode.")
+    (license license:gpl3+)))
+
 (define-public r-pasilla
   (package
     (name "r-pasilla")
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index cc6e1b1..1b94b62 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -8023,34 +8023,6 @@ used to obtain robust estimates of the predominant 
fragment length or
 characteristic tag shift values in these assays.")
     (license license:bsd-3)))
 
-(define-public r-genomationdata
-  (package
-    (name "r-genomationdata")
-    (version "1.22.0")
-    (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://bioconductor.org/packages/";
-                                  "release/data/experiment/src/contrib/"
-                                  "genomationData_" version ".tar.gz"))
-              (sha256
-               (base32
-                "0igjsvfnws3498j65ifniw0kbxfqpfr59rcjddqvq4zsj453fx1g"))))
-    (build-system r-build-system)
-    ;; As this package provides little more than large data files, it doesn't
-    ;; make sense to build substitutes.
-    (arguments `(#:substitutable? #f))
-    (native-inputs
-     `(("r-knitr" ,r-knitr)))
-    (home-page "https://bioinformatics.mdc-berlin.de/genomation/";)
-    (synopsis "Experimental data for use with the genomation package")
-    (description
-     "This package contains experimental genetic data for use with the
-genomation package.  Included are Chip Seq, Methylation and Cage data,
-downloaded from Encode.")
-    (license license:gpl3+)))
-
 (define-public r-seqlogo
   (package
     (name "r-seqlogo")