From: Roel Janssen <roel@gnu.org>
To: 27181@debbugs.gnu.org
Subject: bug#27181: [PATCH] gnu: Add kaiju.
Date: Thu, 01 Jun 2017 15:19:41 +0200 [thread overview]
Message-ID: <rbu37bjetg2.fsf@gnu.org> (raw)
In-Reply-To: <rbu60gfeu5d.fsf@gnu.org>
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Dear Guix,
Here's a patch for kaiju. A C++ program without any dependencies, plus
some additional scripts that need perl.
Kind regards,
Roel Janssen
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From ed45f47f7514faf10710b41a7d5e9cdaa8217c70 Mon Sep 17 00:00:00 2001
From: Roel Janssen <roel@gnu.org>
Date: Thu, 1 Jun 2017 15:01:51 +0200
Subject: [PATCH] gnu: Add kaiju.
* gnu/packages/bioinformatics (kaiju): New variable.
---
gnu/packages/bioinformatics.scm | 37 +++++++++++++++++++++++++++++++++++++
1 file changed, 37 insertions(+)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index ec69f50..a8ad424 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -3214,6 +3214,43 @@ data.")
(supported-systems '("x86_64-linux"))
(license license:bsd-3)))
+(define-public kaiju
+ (package
+ (name "kaiju")
+ (version "1.5.0")
+ (source (origin
+ (method url-fetch)
+ (uri (string-append
+ "https://github.com/bioinformatics-centre/kaiju/archive/v"
+ version ".tar.gz"))
+ (file-name (string-append name "-" version ".tar.gz"))
+ (sha256
+ (base32
+ "0afbfalfw9y39bkwnqjrh9bghs118ws1pzj5h8l0nblgn3mbjdks"))))
+ (build-system gnu-build-system)
+ (arguments
+ `(#:tests? #f ; There are no tests.
+ #:phases
+ (modify-phases %standard-phases
+ (delete 'configure)
+ (add-before 'build 'move-to-src-dir
+ (lambda _ (chdir "src") #t))
+ (replace 'install
+ (lambda* (#:key inputs outputs #:allow-other-keys)
+ (let ((bin (string-append (assoc-ref outputs "out") "/bin")))
+ (mkdir-p bin)
+ (chdir "..")
+ (copy-recursively "bin" bin)
+ (copy-recursively "util" bin)))))))
+ (inputs
+ `(("perl" ,perl)))
+ (home-page "http://kaiju.binf.ku.dk/")
+ (synopsis "Fast and sensitive taxonomic classification for metagenomics")
+ (description "Kaiju is a program for sensitive taxonomic classification
+of high-throughput sequencing reads from metagenomic whole genome sequencing
+experiments.")
+ (license license:gpl3+)))
+
(define-public macs
(package
(name "macs")
--
2.7.4
next parent reply other threads:[~2017-06-01 13:20 UTC|newest]
Thread overview: 3+ messages / expand[flat|nested] mbox.gz Atom feed top
[not found] <rbu60gfeu5d.fsf@gnu.org>
2017-06-01 13:19 ` Roel Janssen [this message]
2017-06-01 15:23 ` bug#27181: [PATCH] gnu: Add kaiju Ludovic Courtès
2017-06-02 11:42 ` Roel Janssen
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