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01/01: gnu: Add ataqv.
From: |
guix-commits |
Subject: |
01/01: gnu: Add ataqv. |
Date: |
Tue, 14 May 2019 10:16:40 -0400 (EDT) |
rekado pushed a commit to branch master
in repository guix.
commit 44323e63a34f31144b3af9cad900005745d47e87
Author: Ricardo Wurmus <address@hidden>
Date: Tue May 14 16:13:26 2019 +0200
gnu: Add ataqv.
* gnu/packages/bioinformatics.scm (ataqv): New variable.
---
gnu/packages/bioinformatics.scm | 42 +++++++++++++++++++++++++++++++++++++++++
1 file changed, 42 insertions(+)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index ce720f4..93418bf 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -57,6 +57,7 @@
#:use-module (gnu packages bioconductor)
#:use-module (gnu packages boost)
#:use-module (gnu packages check)
+ #:use-module (gnu packages code)
#:use-module (gnu packages compression)
#:use-module (gnu packages cpio)
#:use-module (gnu packages cran)
@@ -14788,3 +14789,44 @@ cell barcodes for alignment. The remaining commands,
@code{group},
duplicates using the UMIs and perform different levels of analysis depending
on the needs of the user.")
(license license:expat)))
+
+(define-public ataqv
+ (package
+ (name "ataqv")
+ (version "1.0.0")
+ (source
+ (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/ParkerLab/ataqv.git")
+ (commit version)))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32
+ "031xr6jx1aprh26y5b1lv3gzrlmzg4alfl73vvshymx8cq8asrqi"))))
+ (build-system gnu-build-system)
+ (arguments
+ `(#:make-flags
+ (list (string-append "prefix=" (assoc-ref %outputs "out"))
+ (string-append "BOOST_ROOT="
+ (assoc-ref %build-inputs "boost"))
+ (string-append "HTSLIB_ROOT="
+ (assoc-ref %build-inputs "htslib")))
+ #:test-target "test"
+ #:phases
+ (modify-phases %standard-phases
+ (delete 'configure))))
+ (inputs
+ `(("boost" ,boost)
+ ("htslib" ,htslib)
+ ("ncurses" ,ncurses)
+ ("zlib" ,zlib)))
+ (native-inputs
+ `(("lcov" ,lcov)))
+ (home-page "https://github.com/ParkerLab/ataqv")
+ (synopsis "Toolkit for quality control and visualization of ATAC-seq data")
+ (description "This package provides a toolkit for measuring and comparing
+ATAC-seq results. It was written to make it easier to spot differences that
+might be caused by ATAC-seq library prep or sequencing. The main program,
address@hidden, examines aligned reads and reports some basic metrics.")
+ (license license:gpl3+)))