GNU bug report logs - #47156
[PATCH 00/10] Move some Bioconductor packages to (gnu packages bioconductor).

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Message #26 received at 47156 <at> debbugs.gnu.org (full text, mbox):

From: zimoun <zimon.toutoune <at> gmail.com>
To: 47156 <at> debbugs.gnu.org
Cc: zimoun <zimon.toutoune <at> gmail.com>
Subject: [PATCH 06/10] gnu: r-iranges: Move to (gnu packages bioconductor).
Date: Mon, 15 Mar 2021 14:01:31 +0100

* gnu/packages/bioinformatics.scm (r-iranges): Move from here...
* gnu/packages/bioconductor.scm (r-iranges): ...to here.
---
 gnu/packages/bioconductor.scm   | 30 ++++++++++++++++++++++++++++++
 gnu/packages/bioinformatics.scm | 29 -----------------------------
 2 files changed, 30 insertions(+), 29 deletions(-)

diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index ed34a9308a..68c5ed7768 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -2,6 +2,7 @@
 ;;; Copyright © 2016, 2017, 2018, 2019, 2020 Ricardo Wurmus <rekado <at> elephly.net>
 ;;; Copyright © 2016, 2017, 2018, 2020 Roel Janssen <roel <at> gnu.org>
 ;;; Copyright © 2016 Pjotr Prins <pjotr.guix <at> thebird.nl>
+;;; Copyright © 2016 Ben Woodcroft <donttrustben <at> gmail.com>
 ;;; Copyright © 2017, 2018, 2019 Tobias Geerinckx-Rice <me <at> tobias.gr>
 ;;; Copyright © 2019, 2020, 2021 Simon Tournier <zimon.toutoune <at> gmail.com>
 ;;; Copyright © 2020 Peter Lo <peterloleungyau <at> gmail.com>
@@ -1244,6 +1245,35 @@ and evaluate clustering results.")
 arbitrary genomic intervals along chromosomal ideogram.")
     (license license:gpl2)))
 
+(define-public r-iranges
+  (package
+    (name "r-iranges")
+    (version "2.24.1")
+    (source (origin
+              (method url-fetch)
+              (uri (bioconductor-uri "IRanges" version))
+              (sha256
+               (base32
+                "01mx46a82vd3gz705pj0kk4wpxg683s8jqxchzjia3gz00b4qw52"))))
+    (properties
+     `((upstream-name . "IRanges")))
+    (build-system r-build-system)
+    (propagated-inputs
+     `(("r-biocgenerics" ,r-biocgenerics)
+       ("r-s4vectors" ,r-s4vectors)))
+    (home-page "https://bioconductor.org/packages/IRanges")
+    (synopsis "Infrastructure for manipulating intervals on sequences")
+    (description
+     "This package provides efficient low-level and highly reusable S4 classes
+for storing ranges of integers, RLE vectors (Run-Length Encoding), and, more
+generally, data that can be organized sequentially (formally defined as
+@code{Vector} objects), as well as views on these @code{Vector} objects.
+Efficient list-like classes are also provided for storing big collections of
+instances of the basic classes.  All classes in the package use consistent
+naming and share the same rich and consistent \"Vector API\" as much as
+possible.")
+    (license license:artistic2.0)))
+
 ;; This is a CRAN package, but it depends on r-bsgenome-hsapiens-ucsc-hg19
 ;; from Bioconductor.
 (define-public r-deconstructsigs
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 1fcb436f0d..36ecf47467 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -7691,35 +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-iranges
-  (package
-    (name "r-iranges")
-    (version "2.24.1")
-    (source (origin
-              (method url-fetch)
-              (uri (bioconductor-uri "IRanges" version))
-              (sha256
-               (base32
-                "01mx46a82vd3gz705pj0kk4wpxg683s8jqxchzjia3gz00b4qw52"))))
-    (properties
-     `((upstream-name . "IRanges")))
-    (build-system r-build-system)
-    (propagated-inputs
-     `(("r-biocgenerics" ,r-biocgenerics)
-       ("r-s4vectors" ,r-s4vectors)))
-    (home-page "https://bioconductor.org/packages/IRanges")
-    (synopsis "Infrastructure for manipulating intervals on sequences")
-    (description
-     "This package provides efficient low-level and highly reusable S4 classes
-for storing ranges of integers, RLE vectors (Run-Length Encoding), and, more
-generally, data that can be organized sequentially (formally defined as
-@code{Vector} objects), as well as views on these @code{Vector} objects.
-Efficient list-like classes are also provided for storing big collections of
-instances of the basic classes.  All classes in the package use consistent
-naming and share the same rich and consistent \"Vector API\" as much as
-possible.")
-    (license license:artistic2.0)))
-
 (define-public r-genomeinfodbdata
   (package
     (name "r-genomeinfodbdata")
-- 
2.30.1

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