From: "Mădălin Ionel Patrașcu" <madalinionel.patrascu@mdc-berlin.de>
To: <63448@debbugs.gnu.org>
Cc: rekado@elephly.net
Subject: [bug#63448] [PATCH 2/2] gnu: Add python-mgatk.
Date: Thu, 11 May 2023 20:34:12 +0200 [thread overview]
Message-ID: <20230511183412.27180-2-madalinionel.patrascu@mdc-berlin.de> (raw)
In-Reply-To: <20230511183412.27180-1-madalinionel.patrascu@mdc-berlin.de>
* gnu/packages/bioinformatics.scm (python-mgatk): New variable.
---
gnu/packages/bioinformatics.scm | 35 +++++++++++++++++++++++++++++++++
1 file changed, 35 insertions(+)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index afca5ab93b..92017b3a07 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -12628,6 +12628,41 @@ (define-public python-biothings-client
API services.")
(license license:bsd-3)))
+(define-public python-mgatk
+ (package
+ (name "python-mgatk")
+ (version "0.6.7")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (pypi-uri "mgatk" version))
+ (sha256
+ (base32 "0bxxk3v8lmqcdnm97468p7p3kzb59i5bpgayx7kqzl2p8lfwzi9h"))))
+ (build-system pyproject-build-system)
+ (arguments
+ (list #:tests? #f)) ; There are no tests in the pypi archive.
+ (propagated-inputs
+ (list python-biopython
+ python-click
+ python-numpy
+ python-optparse-pretty
+ python-pandas
+ python-pysam
+ python-regex
+ python-ruamel.yaml
+ snakemake))
+ (native-inputs
+ (list python-pytest))
+ (home-page "https://github.com/caleblareau/mgatk")
+ (synopsis "Mitochondrial genome analysis toolkit.")
+ (description "This package is a python-based command line interface for
+processing .bam files with mitochondrial reads and generating high-quality
+heteroplasmy estimation from sequencing data. The mgatk package places a
+special emphasis on mitochondrial genotypes generated from single-cell genomics
+data, primarily @acronym{mtscATAC-seq, mitochondrial single-cell ATAC-sequence},
+but is generally applicable across other assays.")
+ (license license:expat)))
+
(define-public python-multivelo
(package
(name "python-multivelo")
--
2.39.2
next prev parent reply other threads:[~2023-05-11 18:35 UTC|newest]
Thread overview: 8+ messages / expand[flat|nested] mbox.gz Atom feed top
2023-05-11 18:31 [bug#63448] gnu: Add python-optparse-pretty and python-mgatk MadalinIonel.Patrascu
2023-05-11 18:34 ` [bug#63448] [PATCH 1/2] gnu: Add python-optparse-pretty Mădălin Ionel Patrașcu
2023-05-11 18:34 ` Mădălin Ionel Patrașcu [this message]
2023-05-12 7:37 ` [bug#63448] [PATCH 2/2] gnu: Add python-mgatk Ricardo Wurmus
2023-05-12 7:39 ` [bug#63448] [PATCH 1/2] gnu: Add python-optparse-pretty Ricardo Wurmus
2023-05-12 10:33 ` [bug#63448] [PATCH v2 2/2] gnu: Add python-mgatk Mădălin Ionel Patrașcu
2023-05-12 10:43 ` [bug#63448] [PATCH v3 " Mădălin Ionel Patrașcu
2023-05-12 14:07 ` bug#63448: gnu: Add python-optparse-pretty and python-mgatk Ricardo Wurmus
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