From: "Sergei Trofimovich" <slyfox@gentoo.org>
To: gentoo-commits@lists.gentoo.org
Subject: [gentoo-commits] repo/gentoo:master commit in: sci-biology/abyss/
Date: Sun, 6 Nov 2016 13:12:57 +0000 (UTC) [thread overview]
Message-ID: <1478437945.4c8a5799cd9b07143e1c1b9ba865c3e9bbbf5f3e.slyfox@gentoo> (raw)
commit: 4c8a5799cd9b07143e1c1b9ba865c3e9bbbf5f3e
Author: Sergei Trofimovich <slyfox <AT> gentoo <DOT> org>
AuthorDate: Sun Nov 6 13:12:25 2016 +0000
Commit: Sergei Trofimovich <slyfox <AT> gentoo <DOT> org>
CommitDate: Sun Nov 6 13:12:25 2016 +0000
URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=4c8a5799
sci-biology/abyss: bump up to 2.0.2, bug #596018
Fixes gcc-6 and boost-1.62 build failures.
Reported-by: Toralf Förster
Bug: https://bugs.gentoo.org/596018
Package-Manager: portage-2.3.2
sci-biology/abyss/Manifest | 1 +
sci-biology/abyss/abyss-1.9.0-r1.ebuild | 2 +-
sci-biology/abyss/{abyss-1.9.0-r1.ebuild => abyss-2.0.2.ebuild} | 8 +-------
3 files changed, 3 insertions(+), 8 deletions(-)
diff --git a/sci-biology/abyss/Manifest b/sci-biology/abyss/Manifest
index e995775..f19563b 100644
--- a/sci-biology/abyss/Manifest
+++ b/sci-biology/abyss/Manifest
@@ -1,3 +1,4 @@
DIST abyss-1.3.3.tar.gz 621480 SHA256 60396e2c8813952ceb1c66a3ad7c87eda984aa1e4952a14265217d9f639706a0 SHA512 4ec7fdd24bdb1e3d66e2bda50929122ff347107010701703e81ca1609fb1b4913c713991b3fe84a48ccfbc069e126f4f4120aafbab81e54e567a95a2f1099fb2 WHIRLPOOL 35f6fdfe60b70316e67bcbbb0a9c67e952302333e9ec71d893f2de7a94482dca1a604dc8cfef1ecee49e464244bb5df7469a8ad7bdc37bd54ff455b0f75b7914
DIST abyss-1.3.6.tar.gz 678880 SHA256 4432a8b5046bdcb548b6f1b22069a6cade4dea26fc6f83ad5467548e4f3e7c95 SHA512 2c6d72e0227c4af2d5740a989168ad35a84b9236dc53b65a29a010c4e5f77e5c4bfaa38bfaa2f14fd530ae6df204294ff167bd40e79f61e8bad6a7489bf34ace WHIRLPOOL 0677b1fd4090ba155fb876c0047a1ccd2ec2e220950e1e9940e1f3df05ef0abd3ba2e3dbabd500d6fab39a8f7d94e02e0a07410934733682a70fa605d2a8bc07
DIST abyss-1.9.0.tar.gz 985480 SHA256 82e4050766a9c7fb87fd736f94724a02388efb1df847b40870a0fbf842917239 SHA512 d9da19f004bb97f9301f3be83ceb5361eb70f42139a1ef17129de99e03bda5de7680d718d76aed26d26f24c1d26c37e050801ff343acad007b76d2214955b83f WHIRLPOOL bd322afa9bf99a53aec177c79ca9618f39043cda606eb4e3d5dcfb46c26298d218fc154e2c46efadac59febb69dd625fe597101a1efbccc62ab8228b555596cc
+DIST abyss-2.0.2.tar.gz 1036135 SHA256 6482b81eb5439703c0dbf6cd7ac25cd0df7541d9e04ef7865343b241e21db460 SHA512 b19325b9d51e80378fc9818942c4005c94f470f0ad8ff6c1b8b593ad0216d35f9a99c0aa7c627082372690a6a7094ced8ca8efeb0bff6014ca46a67d7eb16a30 WHIRLPOOL 23447cb00b0bb9b5b8a724ba44f8d7193d9640ccd19956b42bbbd83b67557b66b7c68141d6f292c4ab11ab523286471d5ee1c938f22749a61162de056a0d903e
diff --git a/sci-biology/abyss/abyss-1.9.0-r1.ebuild b/sci-biology/abyss/abyss-1.9.0-r1.ebuild
index da80168..32af453 100644
--- a/sci-biology/abyss/abyss-1.9.0-r1.ebuild
+++ b/sci-biology/abyss/abyss-1.9.0-r1.ebuild
@@ -8,7 +8,7 @@ inherit autotools toolchain-funcs
DESCRIPTION="Assembly By Short Sequences - a de novo, parallel, paired-end sequence assembler"
HOMEPAGE="http://www.bcgsc.ca/platform/bioinfo/software/abyss/"
-SRC_URI="https://github.com/bcgsc/abyss/archive/1.9.0.tar.gz -> ${P}.tar.gz"
+SRC_URI="https://github.com/bcgsc/abyss/archive/${PV}.tar.gz -> ${P}.tar.gz"
LICENSE="abyss"
SLOT="0"
diff --git a/sci-biology/abyss/abyss-1.9.0-r1.ebuild b/sci-biology/abyss/abyss-2.0.2.ebuild
similarity index 86%
copy from sci-biology/abyss/abyss-1.9.0-r1.ebuild
copy to sci-biology/abyss/abyss-2.0.2.ebuild
index da80168..92a3780 100644
--- a/sci-biology/abyss/abyss-1.9.0-r1.ebuild
+++ b/sci-biology/abyss/abyss-2.0.2.ebuild
@@ -8,7 +8,7 @@ inherit autotools toolchain-funcs
DESCRIPTION="Assembly By Short Sequences - a de novo, parallel, paired-end sequence assembler"
HOMEPAGE="http://www.bcgsc.ca/platform/bioinfo/software/abyss/"
-SRC_URI="https://github.com/bcgsc/abyss/archive/1.9.0.tar.gz -> ${P}.tar.gz"
+SRC_URI="https://github.com/bcgsc/abyss/archive/${PV}.tar.gz -> ${P}.tar.gz"
LICENSE="abyss"
SLOT="0"
@@ -31,14 +31,8 @@ DEPEND="${RDEPEND}
# todo: --enable-maxk=N configure option
# todo: fix automagic mpi toggling
-PATCHES=(
- "${FILESDIR}"/${P}-ac_prog_ar.patch
- "${FILESDIR}"/${P}-gcc-6.patch
-)
-
src_prepare() {
default
- tc-export AR
sed -i -e "s/-Werror//" configure.ac || die #365195
sed -i -e "/dist_pkgdoc_DATA/d" Makefile.am || die
eautoreconf
next reply other threads:[~2016-11-06 13:13 UTC|newest]
Thread overview: 14+ messages / expand[flat|nested] mbox.gz Atom feed top
2016-11-06 13:12 Sergei Trofimovich [this message]
-- strict thread matches above, loose matches on Subject: below --
2024-03-08 11:09 [gentoo-commits] repo/gentoo:master commit in: sci-biology/abyss/ Sam James
2024-03-08 11:09 Sam James
2022-07-30 8:31 Sam James
2022-01-13 11:21 Andrew Ammerlaan
2021-07-24 10:09 Sergei Trofimovich
2020-06-21 16:47 Sergei Trofimovich
2020-06-21 10:36 Sergei Trofimovich
2020-05-25 10:56 Sergei Trofimovich
2018-03-15 23:33 Sergei Trofimovich
2017-01-15 17:54 David Seifert
2016-09-18 22:51 Sergei Trofimovich
2016-05-15 8:26 Sergei Trofimovich
2016-02-08 23:34 Sergei Trofimovich
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