[gentoo-commits] proj/sci:master commit in: sci-libs/htslib-plugins/
commit: 59d795e337aa7a7313e269cff7a7b781c6b50062
Author: Andrew Ammerlaan riseup net>
AuthorDate: Thu Feb 4 08:17:37 2021 +
Commit: Andrew Ammerlaan riseup net>
CommitDate: Thu Feb 4 08:17:37 2021 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=59d795e3
sci-libs/htslib-plugins: version bump, EAPI bump
no keywords because dep iRODS doesn't have any
Package-Manager: Portage-3.0.14, Repoman-3.0.2
Signed-off-by: Andrew Ammerlaan riseup.net>
.../{htslib-plugins-201609.ebuild => htslib-plugins-201712.ebuild} | 7 +++
1 file changed, 3 insertions(+), 4 deletions(-)
diff --git a/sci-libs/htslib-plugins/htslib-plugins-201609.ebuild
b/sci-libs/htslib-plugins/htslib-plugins-201712.ebuild
similarity index 63%
rename from sci-libs/htslib-plugins/htslib-plugins-201609.ebuild
rename to sci-libs/htslib-plugins/htslib-plugins-201712.ebuild
index 8c5bffe6b..2965f59bc 100644
--- a/sci-libs/htslib-plugins/htslib-plugins-201609.ebuild
+++ b/sci-libs/htslib-plugins/htslib-plugins-201712.ebuild
@@ -1,16 +1,15 @@
-# Copyright 1999-2017 Gentoo Foundation
+# Copyright 1999-2021 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
-EAPI=6
+EAPI=7
DESCRIPTION="iRODs plugins for >=htslib-1.4"
HOMEPAGE="https://github.com/samtools/htslib-plugins;
-SRC_URI="https://github.com/samtools/htslib-plugins/archive/201609.tar.gz ->
${P}.tar.gz"
+SRC_URI="https://github.com/samtools/htslib-plugins/archive/${PV}.tar.gz ->
${P}.tar.gz"
LICENSE="MIT"
SLOT="0"
KEYWORDS=""
-IUSE=""
DEPEND=">=sci-libs/iRODS-3"
RDEPEND="${DEPEND}"
[gentoo-commits] proj/sci:master commit in: sci-libs/htslib/
commit: 4ef945d1cfc4da74891e2cecdf403f6852cc4ddf
Author: David Seifert gentoo org>
AuthorDate: Sat Sep 2 12:45:51 2017 +
Commit: David Seifert gentoo org>
CommitDate: Sat Sep 2 12:45:51 2017 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=4ef945d1
sci-libs/htslib: Remove old
sci-libs/htslib/htslib-1.3.2.ebuild | 27 ---
sci-libs/htslib/htslib-1.4.ebuild | 31 ---
sci-libs/htslib/htslib-1.5.ebuild | 31 ---
sci-libs/htslib/metadata.xml| 11 ---
4 files changed, 100 deletions(-)
diff --git a/sci-libs/htslib/htslib-1.3.2.ebuild
b/sci-libs/htslib/htslib-1.3.2.ebuild
deleted file mode 100644
index 5e27a462b..0
--- a/sci-libs/htslib/htslib-1.3.2.ebuild
+++ /dev/null
@@ -1,27 +0,0 @@
-# Copyright 1999-2017 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-DESCRIPTION="C library for HTS data with bgzip, tabix and htsfile binaries"
-HOMEPAGE="http://www.htslib.org/;
-SRC_URI="mirror://sourceforge/samtools/${PV}/${P}.tar.bz2"
-
-SLOT="1.4" # libhts.so.1.4
-LICENSE="MIT"
-KEYWORDS=""
-IUSE="static-libs"
-
-DEPEND="
- dev-libs/openssl:=
- app-arch/xz-utils
- app-arch/bzip2
- net-misc/curl"
-RDEPEND="${DEPEND}"
-
-src_install() {
- default
- if ! use static-libs; then
- find "${ED}" -type f -name "*.a" -delete || die
- fi
-}
diff --git a/sci-libs/htslib/htslib-1.4.ebuild
b/sci-libs/htslib/htslib-1.4.ebuild
deleted file mode 100644
index 1e1274ff0..0
--- a/sci-libs/htslib/htslib-1.4.ebuild
+++ /dev/null
@@ -1,31 +0,0 @@
-# Copyright 1999-2017 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-DESCRIPTION="C library for HTS data with bgzip, tabix and htsfile binaries"
-HOMEPAGE="http://www.htslib.org/;
-SRC_URI="mirror://sourceforge/samtools/${PV}/${P}.tar.bz2"
-
-SLOT="2" # libhts.so.2
-LICENSE="MIT"
-KEYWORDS=""
-IUSE="static-libs"
-
-DEPEND="
- dev-libs/openssl:=
- app-arch/xz-utils
- app-arch/bzip2
- net-misc/curl"
-RDEPEND="${DEPEND}"
-
-src_install() {
- default
- if ! use static-libs; then
- find "${ED}" -type f -name "*.a" -delete || die
- fi
-}
-
-pkg_postinst(){
- einfo "You may want to install sci-libs/htslib-plugins"
-}
diff --git a/sci-libs/htslib/htslib-1.5.ebuild
b/sci-libs/htslib/htslib-1.5.ebuild
deleted file mode 100644
index 1e1274ff0..0
--- a/sci-libs/htslib/htslib-1.5.ebuild
+++ /dev/null
@@ -1,31 +0,0 @@
-# Copyright 1999-2017 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-DESCRIPTION="C library for HTS data with bgzip, tabix and htsfile binaries"
-HOMEPAGE="http://www.htslib.org/;
-SRC_URI="mirror://sourceforge/samtools/${PV}/${P}.tar.bz2"
-
-SLOT="2" # libhts.so.2
-LICENSE="MIT"
-KEYWORDS=""
-IUSE="static-libs"
-
-DEPEND="
- dev-libs/openssl:=
- app-arch/xz-utils
- app-arch/bzip2
- net-misc/curl"
-RDEPEND="${DEPEND}"
-
-src_install() {
- default
- if ! use static-libs; then
- find "${ED}" -type f -name "*.a" -delete || die
- fi
-}
-
-pkg_postinst(){
- einfo "You may want to install sci-libs/htslib-plugins"
-}
diff --git a/sci-libs/htslib/metadata.xml b/sci-libs/htslib/metadata.xml
deleted file mode 100644
index 49735ee17..0
--- a/sci-libs/htslib/metadata.xml
+++ /dev/null
@@ -1,11 +0,0 @@
-
-http://www.gentoo.org/dtd/metadata.dtd;>
-
-
-sci-biol...@gentoo.org
-Gentoo Biology Project
-
-
-samtools
-
-
[gentoo-commits] proj/sci:master commit in: sci-libs/htslib/
commit: ddbb54b8a5e307ed3396b88bc6c1853fc44eaa12
Author: Martin Mokrejš fold natur cuni cz>
AuthorDate: Thu Jul 20 20:12:32 2017 +
Commit: Martin Mokrejs fold natur cuni cz>
CommitDate: Fri Jul 28 20:05:19 2017 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=ddbb54b8
sci-libs/htslib: version bump
Keeping KEYWORDS empty because it conflicts with htslib-1.3.1 as of now
unless jlec/soap proceed in some proper way.
Package-Manager: Portage-2.3.6, Repoman-2.3.2
sci-libs/htslib/htslib-1.5.ebuild | 31 +++
1 file changed, 31 insertions(+)
diff --git a/sci-libs/htslib/htslib-1.5.ebuild
b/sci-libs/htslib/htslib-1.5.ebuild
new file mode 100644
index 0..1e1274ff0
--- /dev/null
+++ b/sci-libs/htslib/htslib-1.5.ebuild
@@ -0,0 +1,31 @@
+# Copyright 1999-2017 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=6
+
+DESCRIPTION="C library for HTS data with bgzip, tabix and htsfile binaries"
+HOMEPAGE="http://www.htslib.org/;
+SRC_URI="mirror://sourceforge/samtools/${PV}/${P}.tar.bz2"
+
+SLOT="2" # libhts.so.2
+LICENSE="MIT"
+KEYWORDS=""
+IUSE="static-libs"
+
+DEPEND="
+ dev-libs/openssl:=
+ app-arch/xz-utils
+ app-arch/bzip2
+ net-misc/curl"
+RDEPEND="${DEPEND}"
+
+src_install() {
+ default
+ if ! use static-libs; then
+ find "${ED}" -type f -name "*.a" -delete || die
+ fi
+}
+
+pkg_postinst(){
+ einfo "You may want to install sci-libs/htslib-plugins"
+}
[gentoo-commits] proj/sci:master commit in: sci-libs/htslib/
commit: 7c2ca86886bf5a690ffb05fa6fb8d0d563a7569f
Author: Martin Mokrejš fold natur cuni cz>
AuthorDate: Sun May 21 20:02:50 2017 +
Commit: Martin Mokrejs fold natur cuni cz>
CommitDate: Sun May 21 20:02:50 2017 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=7c2ca868
sci-libs/htslib: note version lib along the SLOT
Package-Manager: Portage-2.3.5, Repoman-2.3.2
sci-libs/htslib/htslib-1.3.2.ebuild | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/sci-libs/htslib/htslib-1.3.2.ebuild
b/sci-libs/htslib/htslib-1.3.2.ebuild
index f4c042bbf..5e27a462b 100644
--- a/sci-libs/htslib/htslib-1.3.2.ebuild
+++ b/sci-libs/htslib/htslib-1.3.2.ebuild
@@ -7,7 +7,7 @@ DESCRIPTION="C library for HTS data with bgzip, tabix and
htsfile binaries"
HOMEPAGE="http://www.htslib.org/;
SRC_URI="mirror://sourceforge/samtools/${PV}/${P}.tar.bz2"
-SLOT="0"
+SLOT="1.4" # libhts.so.1.4
LICENSE="MIT"
KEYWORDS=""
IUSE="static-libs"
[gentoo-commits] proj/sci:master commit in: sci-libs/htslib-plugins/
commit: 5846494a1a027af6f01bd7bed0e3823dc5d180d4
Author: Martin Mokrejš fold natur cuni cz>
AuthorDate: Sun Apr 30 13:15:21 2017 +
Commit: Martin Mokrejs fold natur cuni cz>
CommitDate: Sun Apr 30 13:15:21 2017 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=5846494a
sci-libs/htslib-plugins: samtools-1.4 moved some code under this package
Package-Manager: Portage-2.3.5, Repoman-2.3.2
sci-libs/htslib-plugins/htslib-plugins-201609.ebuild | 16
sci-libs/htslib-plugins/metadata.xml | 11 +++
2 files changed, 27 insertions(+)
diff --git a/sci-libs/htslib-plugins/htslib-plugins-201609.ebuild
b/sci-libs/htslib-plugins/htslib-plugins-201609.ebuild
new file mode 100644
index 0..8c5bffe6b
--- /dev/null
+++ b/sci-libs/htslib-plugins/htslib-plugins-201609.ebuild
@@ -0,0 +1,16 @@
+# Copyright 1999-2017 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=6
+
+DESCRIPTION="iRODs plugins for >=htslib-1.4"
+HOMEPAGE="https://github.com/samtools/htslib-plugins;
+SRC_URI="https://github.com/samtools/htslib-plugins/archive/201609.tar.gz ->
${P}.tar.gz"
+
+LICENSE="MIT"
+SLOT="0"
+KEYWORDS=""
+IUSE=""
+
+DEPEND=">=sci-libs/iRODS-3"
+RDEPEND="${DEPEND}"
diff --git a/sci-libs/htslib-plugins/metadata.xml
b/sci-libs/htslib-plugins/metadata.xml
new file mode 100644
index 0..49735ee17
--- /dev/null
+++ b/sci-libs/htslib-plugins/metadata.xml
@@ -0,0 +1,11 @@
+
+http://www.gentoo.org/dtd/metadata.dtd;>
+
+
+sci-biol...@gentoo.org
+Gentoo Biology Project
+
+
+samtools
+
+
[gentoo-commits] proj/sci:master commit in: sci-libs/htslib/
commit: 810353ee167b5550cce6171a9f3c2e601d47856d
Author: Martin Mokrejš fold natur cuni cz>
AuthorDate: Sun Apr 30 13:11:16 2017 +
Commit: Martin Mokrejs fold natur cuni cz>
CommitDate: Sun Apr 30 13:11:16 2017 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=810353ee
sci-libs/htslib: version bump
@soap: Keeping empty KEYWORDS
Package-Manager: Portage-2.3.5, Repoman-2.3.2
sci-libs/htslib/htslib-1.3.2.ebuild | 9 -
.../htslib/{htslib-1.3.2.ebuild => htslib-1.4.ebuild} | 15 +--
2 files changed, 21 insertions(+), 3 deletions(-)
diff --git a/sci-libs/htslib/htslib-1.3.2.ebuild
b/sci-libs/htslib/htslib-1.3.2.ebuild
index 2ca68eb3f..f4c042bbf 100644
--- a/sci-libs/htslib/htslib-1.3.2.ebuild
+++ b/sci-libs/htslib/htslib-1.3.2.ebuild
@@ -3,7 +3,7 @@
EAPI=6
-DESCRIPTION="C library for high-throughput sequencing data formats"
+DESCRIPTION="C library for HTS data with bgzip, tabix and htsfile binaries"
HOMEPAGE="http://www.htslib.org/;
SRC_URI="mirror://sourceforge/samtools/${PV}/${P}.tar.bz2"
@@ -12,6 +12,13 @@ LICENSE="MIT"
KEYWORDS=""
IUSE="static-libs"
+DEPEND="
+ dev-libs/openssl:=
+ app-arch/xz-utils
+ app-arch/bzip2
+ net-misc/curl"
+RDEPEND="${DEPEND}"
+
src_install() {
default
if ! use static-libs; then
diff --git a/sci-libs/htslib/htslib-1.3.2.ebuild
b/sci-libs/htslib/htslib-1.4.ebuild
similarity index 56%
copy from sci-libs/htslib/htslib-1.3.2.ebuild
copy to sci-libs/htslib/htslib-1.4.ebuild
index 2ca68eb3f..1e1274ff0 100644
--- a/sci-libs/htslib/htslib-1.3.2.ebuild
+++ b/sci-libs/htslib/htslib-1.4.ebuild
@@ -3,18 +3,29 @@
EAPI=6
-DESCRIPTION="C library for high-throughput sequencing data formats"
+DESCRIPTION="C library for HTS data with bgzip, tabix and htsfile binaries"
HOMEPAGE="http://www.htslib.org/;
SRC_URI="mirror://sourceforge/samtools/${PV}/${P}.tar.bz2"
-SLOT="0"
+SLOT="2" # libhts.so.2
LICENSE="MIT"
KEYWORDS=""
IUSE="static-libs"
+DEPEND="
+ dev-libs/openssl:=
+ app-arch/xz-utils
+ app-arch/bzip2
+ net-misc/curl"
+RDEPEND="${DEPEND}"
+
src_install() {
default
if ! use static-libs; then
find "${ED}" -type f -name "*.a" -delete || die
fi
}
+
+pkg_postinst(){
+ einfo "You may want to install sci-libs/htslib-plugins"
+}
[gentoo-commits] proj/sci:master commit in: sci-libs/htslib/
commit: 8b0e3624af602d97dfbce3a44eb263d5a05c9e45
Author: David Seifert gentoo org>
AuthorDate: Sun Feb 26 18:06:40 2017 +
Commit: Christoph Junghans gentoo org>
CommitDate: Sun Feb 26 18:07:20 2017 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=8b0e3624
sci-libs/htslib: Remove KEYWORDS due to being broken
Package-Manager: Portage-2.3.3, Repoman-2.3.1
sci-libs/htslib/htslib-1.3.2.ebuild | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/sci-libs/htslib/htslib-1.3.2.ebuild
b/sci-libs/htslib/htslib-1.3.2.ebuild
index 0dac55735..2ca68eb3f 100644
--- a/sci-libs/htslib/htslib-1.3.2.ebuild
+++ b/sci-libs/htslib/htslib-1.3.2.ebuild
@@ -9,7 +9,7 @@ SRC_URI="mirror://sourceforge/samtools/${PV}/${P}.tar.bz2"
SLOT="0"
LICENSE="MIT"
-KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+KEYWORDS=""
IUSE="static-libs"
src_install() {
[gentoo-commits] proj/sci:master commit in: sci-libs/htslib/
commit: 8414c09216058af3245fd20b5abcc28928925461
Author: Martin Mokrejš fold natur cuni cz>
AuthorDate: Thu Feb 16 22:20:50 2017 +
Commit: Martin Mokrejs fold natur cuni cz>
CommitDate: Thu Feb 16 22:20:50 2017 +
URL:https://gitweb.gentoo.org/proj/sci.git/commit/?id=8414c092
sci-libs/htslib: version bump
Package-Manager: Portage-2.3.3, Repoman-2.3.1
sci-libs/htslib/htslib-1.3.2.ebuild | 21 +
sci-libs/htslib/metadata.xml| 11 +++
2 files changed, 32 insertions(+)
diff --git a/sci-libs/htslib/htslib-1.3.2.ebuild
b/sci-libs/htslib/htslib-1.3.2.ebuild
new file mode 100644
index 0..1cab22ff7
--- /dev/null
+++ b/sci-libs/htslib/htslib-1.3.2.ebuild
@@ -0,0 +1,21 @@
+# Copyright 1999-2017 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=6
+
+DESCRIPTION="C library for high-throughput sequencing data formats"
+HOMEPAGE="http://www.htslib.org/;
+SRC_URI="mirror://sourceforge/samtools/${PV}/${P}.tar.bz2"
+
+SLOT="0"
+LICENSE="MIT"
+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
+IUSE="static-libs"
+
+src_install() {
+ default
+ if ! use static-libs; then
+ find "${ED}" -type f -name "*.a" -delete || die
+ fi
+}
diff --git a/sci-libs/htslib/metadata.xml b/sci-libs/htslib/metadata.xml
new file mode 100644
index 0..5b953af48
--- /dev/null
+++ b/sci-libs/htslib/metadata.xml
@@ -0,0 +1,11 @@
+
+http://www.gentoo.org/dtd/metadata.dtd;>
+
+
+sci-biol...@gentoo.org
+Gentoo Biology Project
+
+
+samtools
+
+
