commit: 4a01263f019d66b8e42c4caa45f33a4fae99fb2e Author: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net> AuthorDate: Tue Jan 26 21:19:37 2021 +0000 Commit: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net> CommitDate: Tue Jan 26 21:19:37 2021 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=4a01263f
sci-biology/somatic-sniper: remove pack, archived upstream does not build, needs static libs of samtools Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> riseup.net> sci-biology/somatic-sniper/metadata.xml | 15 ------------ .../somatic-sniper/somatic-sniper-1.0.4.ebuild | 28 ---------------------- 2 files changed, 43 deletions(-) diff --git a/sci-biology/somatic-sniper/metadata.xml b/sci-biology/somatic-sniper/metadata.xml deleted file mode 100644 index ff905cc3e..000000000 --- a/sci-biology/somatic-sniper/metadata.xml +++ /dev/null @@ -1,15 +0,0 @@ -<?xml version="1.0" encoding="UTF-8"?> -<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd";> -<pkgmetadata> - <maintainer type="person"> - <email>[email protected]</email> - <name>Martin Mokrejs</name> - </maintainer> - <maintainer type="project"> - <email>[email protected]</email> - <name>Gentoo Biology Project</name> - </maintainer> - <upstream> - <remote-id type="github">genome/somatic-sniper</remote-id> - </upstream> -</pkgmetadata> diff --git a/sci-biology/somatic-sniper/somatic-sniper-1.0.4.ebuild b/sci-biology/somatic-sniper/somatic-sniper-1.0.4.ebuild deleted file mode 100644 index 51a4b9db8..000000000 --- a/sci-biology/somatic-sniper/somatic-sniper-1.0.4.ebuild +++ /dev/null @@ -1,28 +0,0 @@ -# Copyright 1999-2018 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 - -EAPI=5 - -inherit cmake-utils - -DESCRIPTION="Compare BAM files from normal and tumor samples and report somatic SNPs" -HOMEPAGE="http://gmt.genome.wustl.edu"; -SRC_URI="https://github.com/genome/somatic-sniper/archive/v${PV}.tar.gz -> ${P}.tar.gz" -# git clone https://github.com/genome/somatic-sniper.git - -LICENSE="MIT" -SLOT="0" -KEYWORDS="~amd64" -IUSE="" - -DEPEND=" - sys-libs/zlib - sys-libs/ncurses:* - sci-biology/samtools:0.1-legacy" -RDEPEND="${DEPEND}" - -# contains bundled copy of samtools-0.1.6 but links using a static version -# cd /var/tmp/portage/sci-biology/somatic-sniper-1.0.4/work/somatic-sniper-1.0.4_build/build/src/exe/bam-somaticsniper && /usr/bin/cmake -E cmake_link_script CMakeFiles/bam-somaticsniper.dir/link.txt --verbose=1 -# /usr/bin/x86_64-pc-linux-gnu-gcc -Wall -Wl,-O1 -Wl,--as-needed CMakeFiles/bam-somaticsniper.dir/main.c.o -o ../../../../bin/bam-somaticsniper -rdynamic -lpthread -lpthread ../../lib/sniper/libsniper.a -lpthread -lm ../../../../vendor/samtools/libbam.a -lz - -# contains build-common from git tree
