GNU bug report logs - #47171
[PATCH 00/10] Move some Bioconductor packages to (gnu packages bioconductor).

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Message #11 received at 47171 <at> debbugs.gnu.org (full text, mbox):

From: zimoun <zimon.toutoune <at> gmail.com>
To: 47171 <at> debbugs.gnu.org
Cc: zimoun <zimon.toutoune <at> gmail.com>
Subject: [PATCH 02/10] gnu: r-xvector: Move to (gnu packages bioconductor).
Date: Mon, 15 Mar 2021 19:08:56 +0100

* gnu/packages/bioinformatics.scm (r-xvector): Move from here...
* gnu/packages/bioconductor.scm (r-xvector): ...to here.
---
 gnu/packages/bioconductor.scm   | 36 +++++++++++++++++++++++++++++++++
 gnu/packages/bioinformatics.scm | 36 ---------------------------------
 2 files changed, 36 insertions(+), 36 deletions(-)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 379b6c30c0..fdb2f7c7ac 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -2108,6 +2108,42 @@ annotation infrastructure.")
 coding changes and predict coding outcomes.")
     (license license:artistic2.0)))
 
+(define-public r-xvector
+  (package
+    (name "r-xvector")
+    (version "0.30.0")
+    (source (origin
+              (method url-fetch)
+              (uri (bioconductor-uri "XVector" version))
+              (sha256
+               (base32
+                "1pqljikg4f6jb7wgm5537zwgq5b013nyz1agjrwfq2cljb0ym6lq"))))
+    (properties
+     `((upstream-name . "XVector")))
+    (build-system r-build-system)
+    (arguments
+     `(#:phases
+       (modify-phases %standard-phases
+         (add-after 'unpack 'use-system-zlib
+           (lambda _
+             (substitute* "DESCRIPTION"
+               (("zlibbioc, ") ""))
+             (substitute* "NAMESPACE"
+               (("import\\(zlibbioc\\)") ""))
+             #t)))))
+    (inputs
+     `(("zlib" ,zlib)))
+    (propagated-inputs
+     `(("r-biocgenerics" ,r-biocgenerics)
+       ("r-iranges" ,r-iranges)
+       ("r-s4vectors" ,r-s4vectors)))
+    (home-page "https://bioconductor.org/packages/XVector")
+    (synopsis "Representation and manpulation of external sequences")
+    (description
+     "This package provides memory efficient S4 classes for storing sequences
+\"externally\" (behind an R external pointer, or on disk).")
+    (license license:artistic2.0)))
+
 (define-public r-geneplotter
   (package
     (name "r-geneplotter")
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 9774b442a3..65db983461 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -7691,42 +7691,6 @@ including VCF header and contents in RDF and JSON.")
     (home-page "https://github.com/vcflib/bio-vcf")
     (license license:expat)))
 
-(define-public r-xvector
-  (package
-    (name "r-xvector")
-    (version "0.30.0")
-    (source (origin
-              (method url-fetch)
-              (uri (bioconductor-uri "XVector" version))
-              (sha256
-               (base32
-                "1pqljikg4f6jb7wgm5537zwgq5b013nyz1agjrwfq2cljb0ym6lq"))))
-    (properties
-     `((upstream-name . "XVector")))
-    (build-system r-build-system)
-    (arguments
-     `(#:phases
-       (modify-phases %standard-phases
-         (add-after 'unpack 'use-system-zlib
-           (lambda _
-             (substitute* "DESCRIPTION"
-               (("zlibbioc, ") ""))
-             (substitute* "NAMESPACE"
-               (("import\\(zlibbioc\\)") ""))
-             #t)))))
-    (inputs
-     `(("zlib" ,zlib)))
-    (propagated-inputs
-     `(("r-biocgenerics" ,r-biocgenerics)
-       ("r-iranges" ,r-iranges)
-       ("r-s4vectors" ,r-s4vectors)))
-    (home-page "https://bioconductor.org/packages/XVector")
-    (synopsis "Representation and manpulation of external sequences")
-    (description
-     "This package provides memory efficient S4 classes for storing sequences
-\"externally\" (behind an R external pointer, or on disk).")
-    (license license:artistic2.0)))
-
 (define-public r-genomicranges
   (package
     (name "r-genomicranges")
-- 
2.30.1

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