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authorRicardo Wurmus <ricardo.wurmus@mdc-berlin.de>2016-02-24 17:17:53 +0100
committerRicardo Wurmus <ricardo.wurmus@mdc-berlin.de>2016-02-25 11:43:44 +0100
commit1baee943caceca990bd346b682b85bdd500b9f8e (patch)
tree55f4521de548135c749a711cf8a44b72714b8423 /gnu
parent1644f0cd879b9df42f7cb6e92169a26c9a3fd8f4 (diff)
downloadpatches-1baee943caceca990bd346b682b85bdd500b9f8e.tar
patches-1baee943caceca990bd346b682b85bdd500b9f8e.tar.gz
gnu: Add libBigWig.
* gnu/packages/bioinformatics.scm (libbigwig): New variable.
Diffstat (limited to 'gnu')
-rw-r--r--gnu/packages/bioinformatics.scm47
1 files changed, 47 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index c502caf8ec..cf33e4200d 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -40,6 +40,7 @@
#:use-module (gnu packages boost)
#:use-module (gnu packages compression)
#:use-module (gnu packages cpio)
+ #:use-module (gnu packages curl)
#:use-module (gnu packages file)
#:use-module (gnu packages gawk)
#:use-module (gnu packages gcc)
@@ -1081,6 +1082,52 @@ preparation protocols.")
other types of unwanted sequence from high-throughput sequencing reads.")
(license license:expat)))
+(define-public libbigwig
+ (package
+ (name "libbigwig")
+ (version "0.1.4")
+ (source (origin
+ (method url-fetch)
+ (uri (string-append "https://github.com/dpryan79/libBigWig/"
+ "archive/" version ".tar.gz"))
+ (file-name (string-append name "-" version ".tar.gz"))
+ (sha256
+ (base32
+ "098rjh35pi4a9q83n8wiwvyzykjqj6l8q189p1xgfw4ghywdlvw1"))))
+ (build-system gnu-build-system)
+ (arguments
+ `(#:test-target "test"
+ #:make-flags
+ (list "CC=gcc"
+ (string-append "prefix=" (assoc-ref %outputs "out")))
+ #:phases
+ (modify-phases %standard-phases
+ (delete 'configure)
+ (add-before 'check 'disable-curl-test
+ (lambda _
+ (substitute* "Makefile"
+ (("./test/testRemote.*") ""))
+ #t))
+ ;; This has been fixed with the upstream commit 4ff6959cd8a0, but
+ ;; there has not yet been a release containing this change.
+ (add-before 'install 'create-target-dirs
+ (lambda* (#:key outputs #:allow-other-keys)
+ (let ((out (assoc-ref outputs "out")))
+ (mkdir-p (string-append out "/lib"))
+ (mkdir-p (string-append out "/include"))
+ #t))))))
+ (inputs
+ `(("zlib" ,zlib)
+ ("curl" ,curl)))
+ (native-inputs
+ `(("doxygen" ,doxygen)))
+ (home-page "https://github.com/dpryan79/libBigWig")
+ (synopsis "C library for handling bigWig files")
+ (description
+ "This package provides a C library for parsing local and remote BigWig
+files.")
+ (license license:expat)))
+
(define-public deeptools
(package
(name "deeptools")