[gentoo-commits] repo/gentoo:master commit in: sci-biology/samtools/

["David Seifert" <soap@gentoo.org>]

commit:     57d20d58a279d301722f1940125c7e216249dfd5
Author:     David Seifert <soap <AT> gentoo <DOT> org>
AuthorDate: Sat Mar 19 11:38:04 2022 +0000
Commit:     David Seifert <soap <AT> gentoo <DOT> org>
CommitDate: Sat Mar 19 11:38:04 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=57d20d58

sci-biology/samtools: add 1.15

Signed-off-by: David Seifert <soap <AT> gentoo.org>

 sci-biology/samtools/Manifest             |  1 +
 sci-biology/samtools/samtools-1.15.ebuild | 47 +++++++++++++++++++++++++++++++
 2 files changed, 48 insertions(+)

diff --git a/sci-biology/samtools/Manifest b/sci-biology/samtools/Manifest
index 6cee5d727e16..d83cc15952b0 100644
--- a/sci-biology/samtools/Manifest
+++ b/sci-biology/samtools/Manifest
@@ -1,2 +1,3 @@
 DIST samtools-0.1.20.tar.gz 566387 BLAKE2B a62d74c408877754af50f5e5fea0e2289ec1e0c9f25013ed0d039bfe8ef61108600d917f8c9d356e98aca632795b4eb0f01ea1b54526a652577fb74a38a433c2 SHA512 15bd8cf401d14c1ab4faa591b6054f5ea9731c4e966f37f71d33d9081a270cfeb91e8a3d80c631e0725b49da81387f824c206e8c21553ad554d0cfc5c238a6e5
 DIST samtools-1.13.tar.bz2 7984998 BLAKE2B e46161c43d4ea51c3ef1d9ed74c40c21b70aef80aa903a49b94b3d468f9211e9147281204eb61b9843c071f09ead08c924e3d624d4df76a1d02ba9ceb318399a SHA512 647fbad2935dfc3e4f85da257a6ee59af40078024a3b77f117dada5f55846e381a096db3cf62a63c04ae95dfc9fadb1d515b8d618e6388bc93f0b2ac85eaf6ea
+DIST samtools-1.15.tar.bz2 7832423 BLAKE2B 5bdfaec750faaa8d84eb601e75f513d726724d3f2f882d9e16edfe4802bd1ad8fee5f1208c93f450fff37125998cb50ff2247fce514d94e580d5d292555da930 SHA512 21ce4aff90514a393e685cbb6fa7833c88010b18846be0190d49e8da70995252c2e17b5108113d2313a752706618041c74680efc9ed5539b97ebc0589cb6c6e7

diff --git a/sci-biology/samtools/samtools-1.15.ebuild b/sci-biology/samtools/samtools-1.15.ebuild
new file mode 100644
index 000000000000..74aee5acaaa2
--- /dev/null
+++ b/sci-biology/samtools/samtools-1.15.ebuild
@@ -0,0 +1,47 @@
+# Copyright 1999-2022 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="mirror://sourceforge/${PN}/${P}.tar.bz2"
+
+LICENSE="MIT"
+SLOT="0"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux ~x64-macos"
+
+RDEPEND="
+	dev-lang/perl
+	=sci-libs/htslib-${PV}*:=
+	sys-libs/ncurses:=[unicode(+)]
+	sys-libs/zlib"
+DEPEND="${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
+}