sci-biology/bcftools: fix PYTHON_COMPAT, add missing matplotlib dep

From NEWS one can infer bcftools was at least from about 1.7 version
python3 compatible. Moreover, at the moment the shenbang lines specifically
call python3.6. So, adjust the PYTHON_COMPAT accordingly. matplotlib is
used by the python scripts, unconditionally.

Package-Manager: Portage-2.3.84, Repoman-2.3.20
Closes: https://github.com/gentoo/gentoo/pull/14421
Signed-off-by: Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
Signed-off-by: David Seifert <soap@gentoo.org>

diff --git a/sci-biology/bcftools/bcftools-1.9.ebuild b/sci-biology/bcftools/bcftools-1.9-r1.ebuild
similarity index 84%
rename from sci-biology/bcftools/bcftools-1.9.ebuild
rename to sci-biology/bcftools/bcftools-1.9-r1.ebuild
index 53e47bc01a81ba9c52ed5e48d8631f9c06048069..8141e6d22924cc904215b8904025b12c78006eb7 100644 (file)
--- a/sci-biology/bcftools/bcftools-1.9.ebuild
+++ b/sci-biology/bcftools/bcftools-1.9-r1.ebuild
@@ -1,9 +1,9 @@
-# Copyright 1999-2018 Gentoo Authors
+# Copyright 1999-2020 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=7
 
-PYTHON_COMPAT=( python2_7 )
+PYTHON_COMPAT=( python3_6 )
 
 inherit python-single-r1
 
@@ -14,18 +14,18 @@ SRC_URI="https://github.com/samtools/${PN}/releases/download/${PV}/${P}.tar.bz2"
 LICENSE="MIT"
 SLOT="0"
 KEYWORDS="~amd64 ~x86"
-IUSE=""
 REQUIRED_USE="${PYTHON_REQUIRED_USE}"
 
 RDEPEND="
        dev-lang/perl
+       dev-python/matplotlib[${PYTHON_USEDEP}]
        =sci-libs/htslib-${PV}*:=
        sys-libs/zlib:=
        ${PYTHON_DEPS}"
 DEPEND="${RDEPEND}"
 
 PATCHES=(
-       "${FILESDIR}"/${PN}-1.5-buildsystem.patch
+       "${FILESDIR}"/${PN}-1.9-buildsystem.patch
        "${FILESDIR}"/${PN}-1.9-fix-shebangs.patch
 )
 

diff --git a/sci-biology/bcftools/files/bcftools-1.9-buildsystem.patch b/sci-biology/bcftools/files/bcftools-1.9-buildsystem.patch
new file mode 100644 (file)
index 0000000..a0df4b9
--- /dev/null
+++ b/sci-biology/bcftools/files/bcftools-1.9-buildsystem.patch
@@ -0,0 +1,10 @@
+--- a/Makefile
++++ b/Makefile
+@@ -282,7 +282,6 @@
+       $(INSTALL_PROGRAM) $(PROGRAMS) $(DESTDIR)$(bindir)
+       $(INSTALL_SCRIPT) $(MISC_SCRIPTS) $(DESTDIR)$(misc_bindir)
+       $(INSTALL_MAN) doc/bcftools.1 $(DESTDIR)$(man1dir)
+-      $(INSTALL_PROGRAM) plugins/*.so $(DESTDIR)$(plugindir)
+ 
+ clean: testclean clean-plugins
+       -rm -f gmon.out *.o *~ $(PROGRAMS) version.h plugins/*.so plugins/*.P