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| author |   Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> | 2018-04-01 17:04:25 +0200 |
|---|---|---|
| committer | Martin Mokrejs <mmokrejs@fold.natur.cuni.cz> | 2018-04-01 17:04:25 +0200 |
| commit | 4efdba16fdc718fde4b8679fb805cb382df46fef (patch) | |
| tree | c0d4a7d0e42bfa6aa282a8dc5a6f6718a85a1ab5 | |
| parent | sci-biology/augustus: update file checksum (diff) | |
| download | sci-4efdba16.tar.gz sci-4efdba16.tar.bz2 sci-4efdba16.zip | |
sci-biology/seq_crumbs: new package
The fix to setup.py to respect DESTDIR is probably not ideal.
Needs a fix to avoid file collisions.
Package-Manager: Portage-2.3.27, Repoman-2.3.9
| -rw-r--r-- | sci-biology/seq_crumbs/Manifest | 1 | ||||
| -rw-r--r-- | sci-biology/seq_crumbs/metadata.xml | 12 | ||||
| -rw-r--r-- | sci-biology/seq_crumbs/seq_crumbs-0.1.9.ebuild | 46 |
3 files changed, 59 insertions, 0 deletions
diff --git a/sci-biology/seq_crumbs/Manifest b/sci-biology/seq_crumbs/Manifest new file mode 100644 index 000000000..192c5b2f4 --- /dev/null +++ b/sci-biology/seq_crumbs/Manifest @@ -0,0 +1 @@ +DIST v0.1.9.tar.gz 2172379 BLAKE2B 121055a96181b5a94ef847965f4cf4be9b5e429765981d733781eb454f2f539577decf2be6923496cd8da5e8a4e3dd5cca630dbb742b940091bd0d67e0ed41d6 SHA512 075be693ce712e9b5bd6e72b02a5a0822ace9ee0363696f8fca6d07f266c99c81b5d9d099db3ad5f70548b5a98e4f2d85cc6cd4dc2fd7c06dece6c6e50d287d5 diff --git a/sci-biology/seq_crumbs/metadata.xml b/sci-biology/seq_crumbs/metadata.xml new file mode 100644 index 000000000..f68a1b6fa --- /dev/null +++ b/sci-biology/seq_crumbs/metadata.xml @@ -0,0 +1,12 @@ +<?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> +</pkgmetadata> diff --git a/sci-biology/seq_crumbs/seq_crumbs-0.1.9.ebuild b/sci-biology/seq_crumbs/seq_crumbs-0.1.9.ebuild new file mode 100644 index 000000000..94ce00a94 --- /dev/null +++ b/sci-biology/seq_crumbs/seq_crumbs-0.1.9.ebuild @@ -0,0 +1,46 @@ +# Copyright 1999-2018 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 + +EAPI=6 + +PYTHON_COMPAT=( python2_7 ) + +inherit distutils-r1 eutils + +DESCRIPTION="Filter, split and trim NGS sequence data" +HOMEPAGE="https://github.com/JoseBlanca/seq_crumbs" +SRC_URI="https://github.com/JoseBlanca/"${PN}"/archive/v"${PV}".tar.gz" + +LICENSE="GPL-3" +SLOT="0" +KEYWORDS="" +IUSE="" + +DEPEND=" + >=sci-biology/biopython-1.60 + >=sci-biology/pysam-0.8 + >=dev-python/rpy-2 + dev-python/matplotlib + dev-python/configobj + dev-python/toolz" +RDEPEND="${DEPEND}" + +# TODO fix file collisions +# * Detected file collision(s): +# * +# * /usr/share/man/man1/index.1.bz2 +# * /usr/share/man/man1/install.1.bz2 +# * +# * Searching all installed packages for file collisions... +# * +# * Press Ctrl-C to Stop +# * +# * sys-apps/coreutils-8.29:0::gentoo +# * /usr/share/man/man1/install.1.bz2 +# * +# * media-libs/netpbm-10.76.00:0::gentoo +# * /usr/share/man/man1/index.1.bz2 +src_prepare(){ + sed -e "s#sys.prefix#os.getenv('ED')+'/usr/'#" -i setup.py || die + default +} |