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

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

commit:     65bf4360727a6bceed339106305247eb0962f654
Author:     David Seifert <soap <AT> gentoo <DOT> org>
AuthorDate: Sat Mar 19 11:38:05 2022 +0000
Commit:     David Seifert <soap <AT> gentoo <DOT> org>
CommitDate: Sat Mar 19 11:38:05 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=65bf4360

sci-biology/bcftools: add 1.15

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

 sci-biology/bcftools/Manifest             |  1 +
 sci-biology/bcftools/bcftools-1.15.ebuild | 44 +++++++++++++++++++++++++++++++
 2 files changed, 45 insertions(+)

diff --git a/sci-biology/bcftools/Manifest b/sci-biology/bcftools/Manifest
index bfc2b78ed049..32704684a3cf 100644
--- a/sci-biology/bcftools/Manifest
+++ b/sci-biology/bcftools/Manifest
@@ -1 +1,2 @@
 DIST bcftools-1.13.tar.bz2 6906796 BLAKE2B 4c02d65733d28684f9a976e082913d79dbac4463c9471fc26d8ee0cbe7ad25af429cf7d01b9771bc34309386ccd2d77ebd54fbf64ed4183d1c2ebfbc0e727afb SHA512 aa533233dd2fec2279859204be39430c4fc630137a91d57fe917fd7a220044d5202ddc3d44bcffc3bd5bd5bb64f6ea4c8ec3c31e5e1ec72399998f1e6f23a55a
+DIST bcftools-1.15.tar.bz2 6899394 BLAKE2B 44d11f5d594c547c0e3dfdcc9b2d8b55d837d17cf98465c4ce153ad0a8dce3db172276bdd24ad3dcecb3c9a064c649f3cbcc13e09194c2f655796e9a478cb27f SHA512 43fd7414c93175c6a8d69c8f8ba681a8c1f6b934ce0834dc130ff367825e60aa57736e36d379e5bdee84a01d018ee36eeeedebdbce85161745a5a063abdbca44

diff --git a/sci-biology/bcftools/bcftools-1.15.ebuild b/sci-biology/bcftools/bcftools-1.15.ebuild
new file mode 100644
index 000000000000..4ec6b0a7e097
--- /dev/null
+++ b/sci-biology/bcftools/bcftools-1.15.ebuild
@@ -0,0 +1,44 @@
+# Copyright 1999-2022 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=8
+
+PYTHON_COMPAT=( python3_{8..10} )
+
+inherit python-single-r1
+
+DESCRIPTION="Utilities for variant calling and manipulating VCF and BCF files"
+HOMEPAGE="http://www.htslib.org"
+SRC_URI="https://github.com/samtools/${PN}/releases/download/${PV}/${P}.tar.bz2"
+
+LICENSE="MIT"
+SLOT="0"
+KEYWORDS="~amd64 ~x86"
+REQUIRED_USE="${PYTHON_REQUIRED_USE}"
+
+RDEPEND="
+	dev-lang/perl
+	$(python_gen_cond_dep '
+		dev-python/matplotlib[${PYTHON_USEDEP}]
+	')
+	=sci-libs/htslib-${PV}*:=
+	sys-libs/zlib
+	${PYTHON_DEPS}"
+DEPEND="${RDEPEND}"
+BDEPEND="${PYTHON_DEPS}"
+
+src_prepare() {
+	default
+
+	python_fix_shebang misc/{gff2gff,guess-ploidy,plot-roh}.py
+
+	# remove bundled htslib
+	rm -r htslib-* || die
+}
+
+src_configure() {
+	econf \
+		--disable-bcftools-plugins \
+		--disable-libgsl \
+		--with-htslib=system
+}