commit: 0663dbd3daa9a4f9716f1238a3248e23a97767fa Author: David Seifert <soap <AT> gentoo <DOT> org> AuthorDate: Tue Mar 26 11:06:21 2024 +0000 Commit: David Seifert <soap <AT> gentoo <DOT> org> CommitDate: Tue Mar 26 11:06:21 2024 +0000 URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=0663dbd3
sci-biology/samtools: add 1.19.2 Signed-off-by: David Seifert <soap <AT> gentoo.org> sci-biology/samtools/Manifest | 1 + sci-biology/samtools/samtools-1.19.2.ebuild | 47 +++++++++++++++++++++++++++++ 2 files changed, 48 insertions(+) diff --git a/sci-biology/samtools/Manifest b/sci-biology/samtools/Manifest index 72408c9c9544..09cffe1bb5b0 100644 --- a/sci-biology/samtools/Manifest +++ b/sci-biology/samtools/Manifest @@ -1 +1,2 @@ DIST samtools-1.17.tar.bz2 8605080 BLAKE2B 09cb0bff7bf7113a77f57fdb879765b28b65461a574e4a1ab20ae2327af46e5616e04f03eb68706d42ba0643e887d7921974a3d78c5f87d296a4c3b691215260 SHA512 107a6df858c6bd2556ba4e86cc1922c3184df095f347039fa94bfd24e5ee21e1a4a9fba5a7cce248a06ad47f99978d9aae570efee7e30e165f33ea848a2cd3c3 +DIST samtools-1.19.2.tar.bz2 9150483 BLAKE2B fb845b2ccd61f1731ef4cdc180f4b9a4ac75e8c73c1ceaa9409b99e8052ca66b88c73fc71fd1067942aa24964f6df8dcb2d93631e5757e0cc200d7a3b9fad461 SHA512 c08d729fed21112855e0acc9cf7f29c7670d38a02ad6b0f2e9b9ef15a18f07e3e194cc4f6913481c98cd3e85dd4dc975dac96155b892da58bbe8ea3679a5270f diff --git a/sci-biology/samtools/samtools-1.19.2.ebuild b/sci-biology/samtools/samtools-1.19.2.ebuild new file mode 100644 index 000000000000..42879b0f8698 --- /dev/null +++ b/sci-biology/samtools/samtools-1.19.2.ebuild @@ -0,0 +1,47 @@ +# Copyright 1999-2024 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=8 + +inherit toolchain-funcs + +DESCRIPTION="Utilities for analysing and manipulating the SAM/BAM alignment formats" +HOMEPAGE="http://www.htslib.org/"; +SRC_URI="https://github.com/samtools/${PN}/releases/download/${PV}/${P}.tar.bz2"; + +LICENSE="MIT" +SLOT="0" +KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux ~x64-macos" + +RDEPEND=" + dev-lang/perl + =sci-libs/htslib-$(ver_cut 1-2)*:= + sys-libs/ncurses:=[unicode(+)] + sys-libs/zlib" +DEPEND="${RDEPEND}" +BDEPEND="virtual/pkgconfig" + +src_prepare() { + default + + # remove bundled htslib + rm -r htslib-* || die +} + +src_configure() { + econf \ + --with-ncurses \ + --with-htslib=system \ + CURSES_LIB="$($(tc-getPKG_CONFIG) --libs ncursesw || die)" +} + +src_compile() { + emake AR="$(tc-getAR)" +} + +src_install() { + default + + dodoc -r examples + docompress -x /usr/share/doc/${PF}/examples +}
