06/06: gnu: r-gkmsvm: Move to (gnu packages bioconductor).

[guix-commits]

rekado pushed a commit to branch master
in repository guix.

commit 80eb01c7763e99603dac6c1e4ad41f521fed5c26
Author: Ricardo Wurmus <address@hidden>
Date:   Mon Mar 25 14:34:41 2019 +0100

    gnu: r-gkmsvm: Move to (gnu packages bioconductor).
    
    * gnu/packages/bioinformatics.scm (r-gkmsvm): Move from here...
    * gnu/packages/bioconductor.scm (r-gkmsvm): ...to here.
---
 gnu/packages/bioconductor.scm   | 34 ++++++++++++++++++++++++++++++++++
 gnu/packages/bioinformatics.scm | 33 ---------------------------------
 2 files changed, 34 insertions(+), 33 deletions(-)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 710b9fd..f687a03 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -2521,3 +2521,37 @@ summaries of the read-types produced, it provides a 
number of plots for
 visualising metrics relative to experiment run time or spatially over the
 surface of a flowcell.")
     (license license:expat)))
+
+;; This is a CRAN package, but it depends on packages from Bioconductor.
+(define-public r-gkmsvm
+  (package
+    (name "r-gkmsvm")
+    (version "0.79.0")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (cran-uri "gkmSVM" version))
+       (sha256
+        (base32
+         "04dakbgfvfalz4rm4fvvybp506dn5fbj5g86ybfhrc6wywjllsz3"))))
+    (properties `((upstream-name . "gkmSVM")))
+    (build-system r-build-system)
+    (propagated-inputs
+     `(("r-biocgenerics" ,r-biocgenerics)
+       ("r-biostrings" ,r-biostrings)
+       ("r-genomeinfodb" ,r-genomeinfodb)
+       ("r-genomicranges" ,r-genomicranges)
+       ("r-iranges" ,r-iranges)
+       ("r-kernlab" ,r-kernlab)
+       ("r-rcpp" ,r-rcpp)
+       ("r-rocr" ,r-rocr)
+       ("r-rtracklayer" ,r-rtracklayer)
+       ("r-s4vectors" ,r-s4vectors)
+       ("r-seqinr" ,r-seqinr)))
+    (home-page "https://cran.r-project.org/web/packages/gkmSVM";)
+    (synopsis "Gapped-kmer support vector machine")
+    (description
+     "This R package provides tools for training gapped-kmer SVM classifiers
+for DNA and protein sequences.  This package supports several sequence
+kernels, including: gkmSVM, kmer-SVM, mismatch kernel and wildcard kernel.")
+    (license license:gpl2+)))
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 1a942b6..42c90ea 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -8533,39 +8533,6 @@ bound and non bound genomic regions to accurately 
identify transcription
 factors bound at the specific regions.")
     (license license:gpl2+)))
 
-(define-public r-gkmsvm
-  (package
-    (name "r-gkmsvm")
-    (version "0.79.0")
-    (source
-     (origin
-       (method url-fetch)
-       (uri (cran-uri "gkmSVM" version))
-       (sha256
-        (base32
-         "04dakbgfvfalz4rm4fvvybp506dn5fbj5g86ybfhrc6wywjllsz3"))))
-    (properties `((upstream-name . "gkmSVM")))
-    (build-system r-build-system)
-    (propagated-inputs
-     `(("r-biocgenerics" ,r-biocgenerics)
-       ("r-biostrings" ,r-biostrings)
-       ("r-genomeinfodb" ,r-genomeinfodb)
-       ("r-genomicranges" ,r-genomicranges)
-       ("r-iranges" ,r-iranges)
-       ("r-kernlab" ,r-kernlab)
-       ("r-rcpp" ,r-rcpp)
-       ("r-rocr" ,r-rocr)
-       ("r-rtracklayer" ,r-rtracklayer)
-       ("r-s4vectors" ,r-s4vectors)
-       ("r-seqinr" ,r-seqinr)))
-    (home-page "https://cran.r-project.org/web/packages/gkmSVM";)
-    (synopsis "Gapped-kmer support vector machine")
-    (description
-     "This R package provides tools for training gapped-kmer SVM classifiers
-for DNA and protein sequences.  This package supports several sequence
-kernels, including: gkmSVM, kmer-SVM, mismatch kernel and wildcard kernel.")
-    (license license:gpl2+)))
-
 (define-public r-tximport
   (package
     (name "r-tximport")