diff options
Diffstat (limited to 'sci-biology/ngs')
| -rw-r--r-- | sci-biology/ngs/Manifest | 1 | ||||
| -rw-r--r-- | sci-biology/ngs/metadata.xml | 15 | ||||
| -rw-r--r-- | sci-biology/ngs/ngs-2.11.2.ebuild | 43 |
3 files changed, 59 insertions, 0 deletions
diff --git a/sci-biology/ngs/Manifest b/sci-biology/ngs/Manifest new file mode 100644 index 000000000..1941b3421 --- /dev/null +++ b/sci-biology/ngs/Manifest @@ -0,0 +1 @@ +DIST ngs-2.11.2.tar.gz 1101119 BLAKE2B efa877540b8df1fbaad5550ba17ee17bd01a692a30536bd4d172b8189f7e35a88d3cd55050b676653531d1bf4655950a25a3c65a8555ef89fbcb6b503a0d3b21 SHA512 708d3b20d4aa26f44a04e103dc4fd0621acda3c07ff70911aba406e869285612879329ffb06f4f7fa69d5216c503d4118114247c9d5e851a2c400b79a01c5921 diff --git a/sci-biology/ngs/metadata.xml b/sci-biology/ngs/metadata.xml new file mode 100644 index 000000000..f165e6cbc --- /dev/null +++ b/sci-biology/ngs/metadata.xml @@ -0,0 +1,15 @@ +<?xml version="1.0" encoding="UTF-8"?> +<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> +<pkgmetadata> + <maintainer type="person"> + <email>mmokrejs@fold.natur.cuni.cz</email> + <name>Martin Mokrejs</name> + </maintainer> + <maintainer type="project"> + <email>sci-biology@gentoo.org</email> + <name>Gentoo Biology Project</name> + </maintainer> + <upstream> + <remote-id type="github">ncbi/ngs</remote-id> + </upstream> +</pkgmetadata> diff --git a/sci-biology/ngs/ngs-2.11.2.ebuild b/sci-biology/ngs/ngs-2.11.2.ebuild new file mode 100644 index 000000000..0574c5076 --- /dev/null +++ b/sci-biology/ngs/ngs-2.11.2.ebuild @@ -0,0 +1,43 @@ +# Copyright 1999-2022 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +PYTHON_COMPAT=( python3_10 ) +inherit python-single-r1 java-pkg-2 + +DESCRIPTION="NGS Language Bindings " +HOMEPAGE="https://github.com/ncbi/ngs" +SRC_URI="https://github.com/ncbi/ngs/archive/${PV}.tar.gz -> ${P}.tar.gz" + +LICENSE="public-domain" +SLOT="0" +KEYWORDS="~amd64" +REQUIRED_USE="${PYTHON_REQUIRED_USE}" + +DEPEND="${PYTHON_DEPS} + sci-biology/bamtools + virtual/jdk:1.8 +" +RDEPEND="${DEPEND} + virtual/jre:1.8 +" + +src_configure() { + # this is some non-standard configure script + ./configure || die +} + +src_install() { + dodir /usr/include + dodir /etc/profile.d + # Hard way around hard coded paths + find . -type f -exec sed -i \ + -e "s:/usr/local:${ED}/usr:g" \ + -e "s:/etc:${ED}/etc:g" \ + -e "s:/usr/lib:${ED}/usr/lib:g" \ + -e "s:/usr/include:${ED}/usr/include:g" \ + -e "s:setup.py -q install:setup.py install --root="${D}":g" \ + {} \; || die + default +} |