* [gentoo-commits] repo/gentoo:master commit in: dev-perl/Bio-DB-HTS/
@ 2018-05-01 7:48 Marek Szuba
0 siblings, 0 replies; 11+ messages in thread
From: Marek Szuba @ 2018-05-01 7:48 UTC (permalink / raw
To: gentoo-commits
commit: 27ae091510d5bd4fbf40ab135a302f286f4d5a8d
Author: Marek Szuba <marecki <AT> gentoo <DOT> org>
AuthorDate: Tue May 1 07:47:36 2018 +0000
Commit: Marek Szuba <marecki <AT> gentoo <DOT> org>
CommitDate: Tue May 1 07:48:50 2018 +0000
URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=27ae0915
dev-perl/Bio-DB-HTS: add missing dependency
Package-Manager: Portage-2.3.24, Repoman-2.3.6
dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.10.ebuild | 3 ++-
1 file changed, 2 insertions(+), 1 deletion(-)
diff --git a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.10.ebuild b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.10.ebuild
index 02c38cd34f3..1490c3fe5ed 100644
--- a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.10.ebuild
+++ b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.10.ebuild
@@ -15,7 +15,8 @@ SLOT="0"
KEYWORDS="~amd64 ~x86"
IUSE="test"
-RDEPEND="sci-libs/htslib:="
+RDEPEND="sci-biology/bioperl
+ sci-libs/htslib:="
DEPEND="${RDEPEND}
dev-perl/Module-Build
test? ( dev-perl/Test-LeakTrace )"
^ permalink raw reply related [flat|nested] 11+ messages in thread
* [gentoo-commits] repo/gentoo:master commit in: dev-perl/Bio-DB-HTS/
@ 2019-06-10 15:41 Marek Szuba
0 siblings, 0 replies; 11+ messages in thread
From: Marek Szuba @ 2019-06-10 15:41 UTC (permalink / raw
To: gentoo-commits
commit: 22679d5bb1e6bf515d7e3098ab33c1b6b754d9ce
Author: Marek Szuba <marecki <AT> gentoo <DOT> org>
AuthorDate: Mon Jun 10 15:21:30 2019 +0000
Commit: Marek Szuba <marecki <AT> gentoo <DOT> org>
CommitDate: Mon Jun 10 15:41:31 2019 +0000
URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=22679d5b
dev-perl/Bio-DB-HTS: bump to 3.01
Signed-off-by: Marek Szuba <marecki <AT> gentoo.org>
Package-Manager: Portage-2.3.66, Repoman-2.3.11
dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.11.ebuild | 2 +-
.../Bio-DB-HTS/{Bio-DB-HTS-2.11.ebuild => Bio-DB-HTS-3.01.ebuild} | 4 ++--
dev-perl/Bio-DB-HTS/Manifest | 1 +
3 files changed, 4 insertions(+), 3 deletions(-)
diff --git a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.11.ebuild b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.11.ebuild
index e5c23d67da0..75eb6798b94 100644
--- a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.11.ebuild
+++ b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.11.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2018 Gentoo Foundation
+# Copyright 1999-2019 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=6
diff --git a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.11.ebuild b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.01.ebuild
similarity index 90%
copy from dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.11.ebuild
copy to dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.01.ebuild
index e5c23d67da0..b5a23b3d1d5 100644
--- a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.11.ebuild
+++ b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.01.ebuild
@@ -1,10 +1,10 @@
-# Copyright 1999-2018 Gentoo Foundation
+# Copyright 1999-2019 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=6
DIST_AUTHOR=AVULLO
-DIST_VERSION=2.11
+DIST_VERSION=3.01
inherit perl-module
diff --git a/dev-perl/Bio-DB-HTS/Manifest b/dev-perl/Bio-DB-HTS/Manifest
index 3eaf22e7a99..7cace7a20cf 100644
--- a/dev-perl/Bio-DB-HTS/Manifest
+++ b/dev-perl/Bio-DB-HTS/Manifest
@@ -1 +1,2 @@
DIST Bio-DB-HTS-2.11.tar.gz 5250814 BLAKE2B d77ccacebf339a33ab106b997139cdbf79f6c28269a832305e660b28370aca82b4c9824773acdbf8f59b18dd61f40346a9870578dba7b5b989b0f3bc9ad14b35 SHA512 114d90fe92b684250183b45b4d23d2dd45ecdcb2fa54f7b1c311ed668d8e87953adb861f709a0a48ff2b873ce777b21bc3b557bafa0df216b9a71b59facff6fd
+DIST Bio-DB-HTS-3.01.tar.gz 5250834 BLAKE2B ca7d3dfb6886460e7beee495eaa6857c912dc6bff24c1c8b888e7ada5ca736035af7ee48adeb5dd3b10204f99be4d0e2cb8d6350fa3e7bfe3fb1299e935ddc4e SHA512 4a464ffb300edf8ed8839c4d788a7c53d2a2cdc5abd675b8648d42e0b60f78b905dfb81cf1396daddbf2e279db2819df250117ecebdc3de5fdcb94a812182255
^ permalink raw reply related [flat|nested] 11+ messages in thread
* [gentoo-commits] repo/gentoo:master commit in: dev-perl/Bio-DB-HTS/
@ 2019-10-08 14:57 Marek Szuba
0 siblings, 0 replies; 11+ messages in thread
From: Marek Szuba @ 2019-10-08 14:57 UTC (permalink / raw
To: gentoo-commits
commit: 132c560d0979e6d43056412f5e102934c67405c7
Author: Marek Szuba <marecki <AT> gentoo <DOT> org>
AuthorDate: Tue Oct 8 13:40:35 2019 +0000
Commit: Marek Szuba <marecki <AT> gentoo <DOT> org>
CommitDate: Tue Oct 8 14:56:40 2019 +0000
URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=132c560d
dev-perl/Bio-DB-HTS: add test restrictions
As recommended by pkgcheck.
Package-Manager: Portage-2.3.76, Repoman-2.3.16
Signed-off-by: Marek Szuba <marecki <AT> gentoo.org>
dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.11.ebuild | 2 ++
dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.01.ebuild | 2 ++
2 files changed, 4 insertions(+)
diff --git a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.11.ebuild b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.11.ebuild
index 75eb6798b94..745f39851f3 100644
--- a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.11.ebuild
+++ b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.11.ebuild
@@ -15,6 +15,8 @@ SLOT="0"
KEYWORDS="~amd64 ~x86"
IUSE="test"
+RESTRICT="!test? ( test )"
+
RDEPEND="sci-biology/bioperl
sci-libs/htslib:="
DEPEND="${RDEPEND}
diff --git a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.01.ebuild b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.01.ebuild
index b5a23b3d1d5..a09e9096e92 100644
--- a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.01.ebuild
+++ b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.01.ebuild
@@ -15,6 +15,8 @@ SLOT="0"
KEYWORDS="~amd64 ~x86"
IUSE="test"
+RESTRICT="!test? ( test )"
+
RDEPEND="sci-biology/bioperl
sci-libs/htslib:="
DEPEND="${RDEPEND}
^ permalink raw reply related [flat|nested] 11+ messages in thread
* [gentoo-commits] repo/gentoo:master commit in: dev-perl/Bio-DB-HTS/
@ 2019-12-10 17:53 Andreas K. Hüttel
0 siblings, 0 replies; 11+ messages in thread
From: Andreas K. Hüttel @ 2019-12-10 17:53 UTC (permalink / raw
To: gentoo-commits
commit: e6b799cf1cc12e78a0f0b44193d2a88ddade79af
Author: Andreas K. Hüttel <dilfridge <AT> gentoo <DOT> org>
AuthorDate: Tue Dec 10 17:19:40 2019 +0000
Commit: Andreas K. Hüttel <dilfridge <AT> gentoo <DOT> org>
CommitDate: Tue Dec 10 17:53:29 2019 +0000
URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=e6b799cf
dev-perl/Bio-DB-HTS: Normalize package versions
Package-Manager: Portage-2.3.78, Repoman-2.3.17
Signed-off-by: Andreas K. Hüttel <dilfridge <AT> gentoo.org>
dev-perl/Bio-DB-HTS/{Bio-DB-HTS-2.11.ebuild => Bio-DB-HTS-2.110.0.ebuild} | 0
dev-perl/Bio-DB-HTS/{Bio-DB-HTS-3.01.ebuild => Bio-DB-HTS-3.10.0.ebuild} | 0
2 files changed, 0 insertions(+), 0 deletions(-)
diff --git a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.11.ebuild b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.110.0.ebuild
similarity index 100%
rename from dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.11.ebuild
rename to dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.110.0.ebuild
diff --git a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.01.ebuild b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0.ebuild
similarity index 100%
rename from dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.01.ebuild
rename to dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0.ebuild
^ permalink raw reply [flat|nested] 11+ messages in thread
* [gentoo-commits] repo/gentoo:master commit in: dev-perl/Bio-DB-HTS/
@ 2020-03-21 15:52 Agostino Sarubbo
0 siblings, 0 replies; 11+ messages in thread
From: Agostino Sarubbo @ 2020-03-21 15:52 UTC (permalink / raw
To: gentoo-commits
commit: 7360b9cc3ab3a606f7bb79f0dee235b71ed17423
Author: Agostino Sarubbo <ago <AT> gentoo <DOT> org>
AuthorDate: Sat Mar 21 15:52:54 2020 +0000
Commit: Agostino Sarubbo <ago <AT> gentoo <DOT> org>
CommitDate: Sat Mar 21 15:52:54 2020 +0000
URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=7360b9cc
dev-perl/Bio-DB-HTS: amd64 stable wrt bug #713240
Package-Manager: Portage-2.3.89, Repoman-2.3.20
RepoMan-Options: --include-arches="amd64"
Signed-off-by: Agostino Sarubbo <ago <AT> gentoo.org>
dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0.ebuild | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0.ebuild b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0.ebuild
index a09e9096e92..23ac5e33791 100644
--- a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0.ebuild
+++ b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2019 Gentoo Authors
+# Copyright 1999-2020 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=6
@@ -12,7 +12,7 @@ DESCRIPTION="Perl bindings for sci-libs/htslib"
LICENSE="Apache-2.0"
SLOT="0"
-KEYWORDS="~amd64 ~x86"
+KEYWORDS="amd64 ~x86"
IUSE="test"
RESTRICT="!test? ( test )"
^ permalink raw reply related [flat|nested] 11+ messages in thread
* [gentoo-commits] repo/gentoo:master commit in: dev-perl/Bio-DB-HTS/
@ 2020-03-21 16:28 Agostino Sarubbo
0 siblings, 0 replies; 11+ messages in thread
From: Agostino Sarubbo @ 2020-03-21 16:28 UTC (permalink / raw
To: gentoo-commits
commit: 70781ce93623a893d7b70825f82cd5ff7af7e136
Author: Agostino Sarubbo <ago <AT> gentoo <DOT> org>
AuthorDate: Sat Mar 21 16:28:25 2020 +0000
Commit: Agostino Sarubbo <ago <AT> gentoo <DOT> org>
CommitDate: Sat Mar 21 16:28:25 2020 +0000
URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=70781ce9
dev-perl/Bio-DB-HTS: x86 stable wrt bug #713240
Package-Manager: Portage-2.3.89, Repoman-2.3.20
RepoMan-Options: --include-arches="x86"
Signed-off-by: Agostino Sarubbo <ago <AT> gentoo.org>
dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0.ebuild | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0.ebuild b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0.ebuild
index 23ac5e33791..6b6736ef6c1 100644
--- a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0.ebuild
+++ b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0.ebuild
@@ -12,7 +12,7 @@ DESCRIPTION="Perl bindings for sci-libs/htslib"
LICENSE="Apache-2.0"
SLOT="0"
-KEYWORDS="amd64 ~x86"
+KEYWORDS="amd64 x86"
IUSE="test"
RESTRICT="!test? ( test )"
^ permalink raw reply related [flat|nested] 11+ messages in thread
* [gentoo-commits] repo/gentoo:master commit in: dev-perl/Bio-DB-HTS/
@ 2020-07-03 15:10 Kent Fredric
0 siblings, 0 replies; 11+ messages in thread
From: Kent Fredric @ 2020-07-03 15:10 UTC (permalink / raw
To: gentoo-commits
commit: a90d776a610fe64027ef7fc4810423b774385ba3
Author: Kent Fredric <kentnl <AT> gentoo <DOT> org>
AuthorDate: Fri Jul 3 13:05:46 2020 +0000
Commit: Kent Fredric <kentnl <AT> gentoo <DOT> org>
CommitDate: Fri Jul 3 14:59:35 2020 +0000
URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=a90d776a
dev-perl/Bio-DB-HTS: -r1 bump for EAPI7 + toolchain love
- EAPI7
- Ensure not breaking when LD=!ccld
- Ensure passing CFLAGS to make/compiler
- Populate more remote-id's in metadata.xml
Package-Manager: Portage-2.3.100, Repoman-2.3.22
Signed-off-by: Kent Fredric <kentnl <AT> gentoo.org>
dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0-r1.ebuild | 47 +++++++++++++++++++++++++
dev-perl/Bio-DB-HTS/metadata.xml | 27 ++++++++++++++
2 files changed, 74 insertions(+)
diff --git a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0-r1.ebuild b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0-r1.ebuild
new file mode 100644
index 00000000000..dcae1156e88
--- /dev/null
+++ b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0-r1.ebuild
@@ -0,0 +1,47 @@
+# Copyright 1999-2020 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=7
+
+DIST_AUTHOR=AVULLO
+DIST_VERSION=3.01
+
+inherit perl-module
+
+DESCRIPTION="Perl bindings for sci-libs/htslib"
+
+LICENSE="Apache-2.0"
+SLOT="0"
+KEYWORDS="~amd64 ~x86"
+IUSE="test"
+
+RESTRICT="!test? ( test )"
+
+RDEPEND="
+ sci-biology/bioperl
+ sci-libs/htslib:=
+"
+DEPEND="
+ dev-perl/Module-Build
+ sci-libs/htslib:=
+"
+BDEPEND="${RDEPEND}
+ dev-perl/Module-Build
+ test? ( dev-perl/Test-LeakTrace )"
+
+PATCHES=(
+ "${FILESDIR}/2.11-build_env_ldflags.patch"
+ "${FILESDIR}/2.11-build_split_htslib_opts.patch"
+)
+
+src_configure() {
+ local myconf="--htslib-includedir=${EPREFIX}/usr/include/htslib --htslib-libdir=${EPREFIX}/usr/$(get_libdir)"
+ unset LD
+ if [[ -n "${CCLD}" ]]; then
+ export LD="${CCLD}"
+ fi
+ perl-module_src_configure
+}
+src_compile() {
+ ./Build --config optimize="${CFLAGS}" build || die
+}
diff --git a/dev-perl/Bio-DB-HTS/metadata.xml b/dev-perl/Bio-DB-HTS/metadata.xml
index 95abbb699ad..126683a7c28 100644
--- a/dev-perl/Bio-DB-HTS/metadata.xml
+++ b/dev-perl/Bio-DB-HTS/metadata.xml
@@ -13,5 +13,32 @@
<remote-id type="github">Ensembl/Bio-DB-HTS</remote-id>
<remote-id type="cpan">Bio-DB-HTS</remote-id>
<remote-id type="cpan-module">Bio::DB::HTS</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::AlignWrapper</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::Alignment</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::Constants</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::Fai</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::Faidx</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::FetchIterator</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::Kseq</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::Kseq::Record</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::Pileup</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::PileupWrapper</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::Query</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::ReadIterator</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::Segment</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::Segment::Iterator</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::SplitAlignmentPart</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::Tabix</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::Tabix::Iterator</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::Target</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::VCF</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::VCF::Header</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::VCF::HeaderPtr</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::VCF::Iterator</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::VCF::Row</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::VCF::RowPtr</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTS::VCF::Sweep</remote-id>
+ <remote-id type="cpan-module">Bio::DB::HTSfile</remote-id>
+ <remote-id type="cpan-module">Bio::SeqFeature::HTSCoverage</remote-id>
</upstream>
</pkgmetadata>
^ permalink raw reply related [flat|nested] 11+ messages in thread
* [gentoo-commits] repo/gentoo:master commit in: dev-perl/Bio-DB-HTS/
@ 2020-08-27 11:39 Marek Szuba
0 siblings, 0 replies; 11+ messages in thread
From: Marek Szuba @ 2020-08-27 11:39 UTC (permalink / raw
To: gentoo-commits
commit: 04613b535e540c3348f1a188d65f142c7fcd622d
Author: Marek Szuba <marecki <AT> gentoo <DOT> org>
AuthorDate: Thu Aug 27 11:38:53 2020 +0000
Commit: Marek Szuba <marecki <AT> gentoo <DOT> org>
CommitDate: Thu Aug 27 11:38:53 2020 +0000
URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=04613b53
dev-perl/Bio-DB-HTS: remove old
Signed-off-by: Marek Szuba <marecki <AT> gentoo.org>
dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.110.0.ebuild | 34 ---------------------------
dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0.ebuild | 34 ---------------------------
dev-perl/Bio-DB-HTS/Manifest | 1 -
3 files changed, 69 deletions(-)
diff --git a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.110.0.ebuild b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.110.0.ebuild
deleted file mode 100644
index 76af57429d3..00000000000
--- a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-2.110.0.ebuild
+++ /dev/null
@@ -1,34 +0,0 @@
-# Copyright 1999-2020 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-DIST_AUTHOR=AVULLO
-DIST_VERSION=2.11
-
-inherit perl-module
-
-DESCRIPTION="Perl bindings for sci-libs/htslib"
-
-LICENSE="Apache-2.0"
-SLOT="0"
-KEYWORDS="~amd64 ~x86"
-IUSE="test"
-
-RESTRICT="!test? ( test )"
-
-RDEPEND="sci-biology/bioperl
- sci-libs/htslib:="
-DEPEND="${RDEPEND}
- dev-perl/Module-Build
- test? ( dev-perl/Test-LeakTrace )"
-
-PATCHES=(
- "${FILESDIR}/2.11-build_env_ldflags.patch"
- "${FILESDIR}/2.11-build_split_htslib_opts.patch"
-)
-
-src_configure() {
- local myconf="--htslib-includedir=${EPREFIX}/usr/include/htslib --htslib-libdir=${EPREFIX}/usr/$(get_libdir)"
- perl-module_src_configure
-}
diff --git a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0.ebuild b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0.ebuild
deleted file mode 100644
index 575961ddaf1..00000000000
--- a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0.ebuild
+++ /dev/null
@@ -1,34 +0,0 @@
-# Copyright 1999-2020 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-DIST_AUTHOR=AVULLO
-DIST_VERSION=3.01
-
-inherit perl-module
-
-DESCRIPTION="Perl bindings for sci-libs/htslib"
-
-LICENSE="Apache-2.0"
-SLOT="0"
-KEYWORDS="amd64 x86"
-IUSE="test"
-
-RESTRICT="!test? ( test )"
-
-RDEPEND="sci-biology/bioperl
- sci-libs/htslib:="
-DEPEND="${RDEPEND}
- dev-perl/Module-Build
- test? ( dev-perl/Test-LeakTrace )"
-
-PATCHES=(
- "${FILESDIR}/2.11-build_env_ldflags.patch"
- "${FILESDIR}/2.11-build_split_htslib_opts.patch"
-)
-
-src_configure() {
- local myconf="--htslib-includedir=${EPREFIX}/usr/include/htslib --htslib-libdir=${EPREFIX}/usr/$(get_libdir)"
- perl-module_src_configure
-}
diff --git a/dev-perl/Bio-DB-HTS/Manifest b/dev-perl/Bio-DB-HTS/Manifest
index 7cace7a20cf..b1285f52d28 100644
--- a/dev-perl/Bio-DB-HTS/Manifest
+++ b/dev-perl/Bio-DB-HTS/Manifest
@@ -1,2 +1 @@
-DIST Bio-DB-HTS-2.11.tar.gz 5250814 BLAKE2B d77ccacebf339a33ab106b997139cdbf79f6c28269a832305e660b28370aca82b4c9824773acdbf8f59b18dd61f40346a9870578dba7b5b989b0f3bc9ad14b35 SHA512 114d90fe92b684250183b45b4d23d2dd45ecdcb2fa54f7b1c311ed668d8e87953adb861f709a0a48ff2b873ce777b21bc3b557bafa0df216b9a71b59facff6fd
DIST Bio-DB-HTS-3.01.tar.gz 5250834 BLAKE2B ca7d3dfb6886460e7beee495eaa6857c912dc6bff24c1c8b888e7ada5ca736035af7ee48adeb5dd3b10204f99be4d0e2cb8d6350fa3e7bfe3fb1299e935ddc4e SHA512 4a464ffb300edf8ed8839c4d788a7c53d2a2cdc5abd675b8648d42e0b60f78b905dfb81cf1396daddbf2e279db2819df250117ecebdc3de5fdcb94a812182255
^ permalink raw reply related [flat|nested] 11+ messages in thread
* [gentoo-commits] repo/gentoo:master commit in: dev-perl/Bio-DB-HTS/
@ 2020-12-10 13:44 David Seifert
0 siblings, 0 replies; 11+ messages in thread
From: David Seifert @ 2020-12-10 13:44 UTC (permalink / raw
To: gentoo-commits
commit: 5f41dc1b2b39cdabb89c236f0e4f2e3f97c3e641
Author: David Seifert <soap <AT> gentoo <DOT> org>
AuthorDate: Thu Dec 10 13:44:20 2020 +0000
Commit: David Seifert <soap <AT> gentoo <DOT> org>
CommitDate: Thu Dec 10 13:44:20 2020 +0000
URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=5f41dc1b
dev-perl/Bio-DB-HTS: Drop to unstable
Package-Manager: Portage-3.0.12, Repoman-3.0.2
Signed-off-by: David Seifert <soap <AT> gentoo.org>
dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0-r1.ebuild | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0-r1.ebuild b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0-r1.ebuild
index 19d783fb2bc..dcae1156e88 100644
--- a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0-r1.ebuild
+++ b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0-r1.ebuild
@@ -12,7 +12,7 @@ DESCRIPTION="Perl bindings for sci-libs/htslib"
LICENSE="Apache-2.0"
SLOT="0"
-KEYWORDS="amd64 x86"
+KEYWORDS="~amd64 ~x86"
IUSE="test"
RESTRICT="!test? ( test )"
^ permalink raw reply related [flat|nested] 11+ messages in thread
* [gentoo-commits] repo/gentoo:master commit in: dev-perl/Bio-DB-HTS/
@ 2021-02-20 0:16 Marek Szuba
0 siblings, 0 replies; 11+ messages in thread
From: Marek Szuba @ 2021-02-20 0:16 UTC (permalink / raw
To: gentoo-commits
commit: c2fba747786131f48b94f9c8c99f3fa5552fc9d8
Author: Marek Szuba <marecki <AT> gentoo <DOT> org>
AuthorDate: Sat Feb 20 00:16:13 2021 +0000
Commit: Marek Szuba <marecki <AT> gentoo <DOT> org>
CommitDate: Sat Feb 20 00:16:13 2021 +0000
URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=c2fba747
dev-perl/Bio-DB-HTS: reassign from self to the Perl project
As discussed on IRC.
Signed-off-by: Marek Szuba <marecki <AT> gentoo.org>
dev-perl/Bio-DB-HTS/metadata.xml | 8 ++++----
1 file changed, 4 insertions(+), 4 deletions(-)
diff --git a/dev-perl/Bio-DB-HTS/metadata.xml b/dev-perl/Bio-DB-HTS/metadata.xml
index 126683a7c28..ec6acab7d26 100644
--- a/dev-perl/Bio-DB-HTS/metadata.xml
+++ b/dev-perl/Bio-DB-HTS/metadata.xml
@@ -1,14 +1,14 @@
<?xml version="1.0" encoding="UTF-8"?>
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
<pkgmetadata>
- <maintainer type="person">
- <email>marecki@gentoo.org</email>
- <name>Marek Szuba</name>
- </maintainer>
<maintainer type="project">
<email>sci-biology@gentoo.org</email>
<name>Gentoo Biology Project</name>
</maintainer>
+ <maintainer type="project">
+ <email>perl@gentoo.org</email>
+ <name>Gentoo Perl Project</name>
+ </maintainer>
<upstream>
<remote-id type="github">Ensembl/Bio-DB-HTS</remote-id>
<remote-id type="cpan">Bio-DB-HTS</remote-id>
^ permalink raw reply related [flat|nested] 11+ messages in thread
* [gentoo-commits] repo/gentoo:master commit in: dev-perl/Bio-DB-HTS/
@ 2024-05-22 2:18 Sam James
0 siblings, 0 replies; 11+ messages in thread
From: Sam James @ 2024-05-22 2:18 UTC (permalink / raw
To: gentoo-commits
commit: 046b0c62a414d45652326dc8a7fec43df4535fb1
Author: Sam James <sam <AT> gentoo <DOT> org>
AuthorDate: Wed May 22 01:59:25 2024 +0000
Commit: Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Wed May 22 02:17:53 2024 +0000
URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=046b0c62
dev-perl/Bio-DB-HTS: EAPI 8, rely on eclass impls
This covers more variables/args, etc.
Signed-off-by: Sam James <sam <AT> gentoo.org>
dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0-r2.ebuild | 39 +++++++++++++++++++++++++
1 file changed, 39 insertions(+)
diff --git a/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0-r2.ebuild b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0-r2.ebuild
new file mode 100644
index 000000000000..723270ce834c
--- /dev/null
+++ b/dev-perl/Bio-DB-HTS/Bio-DB-HTS-3.10.0-r2.ebuild
@@ -0,0 +1,39 @@
+# Copyright 1999-2024 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=8
+
+DIST_AUTHOR=AVULLO
+DIST_VERSION=3.01
+
+inherit perl-module
+
+DESCRIPTION="Perl bindings for sci-libs/htslib"
+
+LICENSE="Apache-2.0"
+SLOT="0"
+KEYWORDS="~amd64 ~x86"
+
+RDEPEND="
+ sci-biology/bioperl
+ sci-libs/htslib:=
+"
+DEPEND="
+ dev-perl/Module-Build
+ sci-libs/htslib:=
+"
+BDEPEND="
+ ${RDEPEND}
+ dev-perl/Module-Build
+ test? ( dev-perl/Test-LeakTrace )
+"
+
+PATCHES=(
+ "${FILESDIR}/2.11-build_env_ldflags.patch"
+ "${FILESDIR}/2.11-build_split_htslib_opts.patch"
+)
+
+src_configure() {
+ local myconf="--htslib-includedir=${EPREFIX}/usr/include/htslib --htslib-libdir=${EPREFIX}/usr/$(get_libdir)"
+ perl-module_src_configure
+}
^ permalink raw reply related [flat|nested] 11+ messages in thread
end of thread, other threads:[~2024-05-22 2:18 UTC | newest]
Thread overview: 11+ messages (download: mbox.gz follow: Atom feed
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2020-03-21 16:28 [gentoo-commits] repo/gentoo:master commit in: dev-perl/Bio-DB-HTS/ Agostino Sarubbo
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2024-05-22 2:18 Sam James
2021-02-20 0:16 Marek Szuba
2020-12-10 13:44 David Seifert
2020-08-27 11:39 Marek Szuba
2020-07-03 15:10 Kent Fredric
2020-03-21 15:52 Agostino Sarubbo
2019-12-10 17:53 Andreas K. Hüttel
2019-10-08 14:57 Marek Szuba
2019-06-10 15:41 Marek Szuba
2018-05-01 7:48 Marek Szuba
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