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authorJustin Lecher <jlec@gentoo.org>2013-02-18 11:10:32 +0000
committerJustin Lecher <jlec@gentoo.org>2013-02-18 11:10:32 +0000
commit5c949e171bbde6892a9a529bc9667d60bf85c389 (patch)
tree32b32719899ef27a5399b840248b608cbbb9f815 /sci-biology/unafold
parentmask ffmpeg[flite] (diff)
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sci-biology/unafold: Fix test, #358053; respect CFLAGS
Package-Manager: portage-2.2.0_alpha163/cvs/Linux x86_64 Manifest-Sign-Key: 0x70EB7916
Diffstat (limited to 'sci-biology/unafold')
-rw-r--r--sci-biology/unafold/ChangeLog10
-rw-r--r--sci-biology/unafold/Manifest19
-rw-r--r--sci-biology/unafold/metadata.xml10
-rw-r--r--sci-biology/unafold/unafold-3.8-r1.ebuild28
-rw-r--r--sci-biology/unafold/unafold-3.8.ebuild11
5 files changed, 64 insertions, 14 deletions
diff --git a/sci-biology/unafold/ChangeLog b/sci-biology/unafold/ChangeLog
index 6880d77ad5a7..ced50fec79ce 100644
--- a/sci-biology/unafold/ChangeLog
+++ b/sci-biology/unafold/ChangeLog
@@ -1,6 +1,12 @@
# ChangeLog for sci-biology/unafold
-# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/unafold/ChangeLog,v 1.1 2011/01/13 19:01:49 weaver Exp $
+# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/unafold/ChangeLog,v 1.2 2013/02/18 11:10:31 jlec Exp $
+
+*unafold-3.8-r1 (18 Feb 2013)
+
+ 18 Feb 2013; Justin Lecher <jlec@gentoo.org> unafold-3.8.ebuild,
+ +unafold-3.8-r1.ebuild, metadata.xml:
+ Fix test, #358053; respect CFLAGS
*unafold-3.8 (13 Jan 2011)
diff --git a/sci-biology/unafold/Manifest b/sci-biology/unafold/Manifest
index 033d4bde8eed..9d95482552d5 100644
--- a/sci-biology/unafold/Manifest
+++ b/sci-biology/unafold/Manifest
@@ -1,4 +1,15 @@
-DIST unafold-3.8.tar.bz2 282418 RMD160 3b41f15ca3b2e6da1c8f47581e11db193f4f6860 SHA1 7dd6b34a75f88a2ab96e34048f0fb3b303fdacc1 SHA256 7552724ce82ad8618167ec0524d8c931ac4383314669322c8424cafc06c2bf38
-EBUILD unafold-3.8.ebuild 613 RMD160 cbfe327d448bd55928fe9d219317a2e702350db9 SHA1 f1209d1980485794c0634429e399afa2a893a45d SHA256 e15ff679ab50256584422f3fe16c2fb2b251638d9faa4dbc961f178365ff13f9
-MISC ChangeLog 364 RMD160 6de0f788a41f1b05e77627b0ead27305ed59bdb3 SHA1 ac14557be5344437d2f01b359dd68087d2ef8b3f SHA256 4a58708c319f86c6a65805af70134bd2552525829ae6e5c296fd13323172b709
-MISC metadata.xml 259 RMD160 d9d81b67d635fabd81aef8ae0edf971211ae9072 SHA1 8e32f751c67ff891fa35405a2cf6fb33752d6eb1 SHA256 541c3fbcf299d9a8ccf4132ee61f9e53a5d737cefdaa6fdc77764d8d4c7f3110
+-----BEGIN PGP SIGNED MESSAGE-----
+Hash: SHA256
+
+DIST unafold-3.8.tar.bz2 282418 SHA256 7552724ce82ad8618167ec0524d8c931ac4383314669322c8424cafc06c2bf38 SHA512 4c83cf0122e4d4ec2b713833adb11eb608b0f880f5b68114aefd8c7fa980c8d02f9a6cfc0c88cd640b4457e65954b05189118e8ac5ed207b2f9910738ca71a6c WHIRLPOOL 9fd5744e66d8669817433b5427fc671ac5185760ffaf0682a7938fc5542f24cbe7b08f7722c7135cd3197af2d748740e0ca35a70a5f6c40a4a5d5aaa806ed923
+EBUILD unafold-3.8-r1.ebuild 703 SHA256 b0735a65b4a135ab45dd40277a7459bf4d82d03129ac5eccb5d9e16f7af7445d SHA512 b30447ace57641929116c27095b140b1f0057feb58d851fb77601a30df52d38472cf4e5e636d59571d8c0bcf1e47a1b7a98e023e938f54c89f9cdd4afd30ae3f WHIRLPOOL 5833417084c58b1a4bea1b6f22d0bd23b7629098147ed5e129c545636ba20c865fb86ab9601e5ca7f94f30038b953c3a8345a6540bd506c4aab8b09b8b725781
+EBUILD unafold-3.8.ebuild 704 SHA256 94cfe895aed3736834d91f849d12925337421867194b76dca9c50ba11193b1fc SHA512 41d8d1d96e9b431c4571b1a5daef725f889a8869b4a67856a5437e9a06cbd28f083f97337a2b1ad04f1489b2f56437673d87cba32cf7d92e03582a0f6ac36e6c WHIRLPOOL 16e12f83f502f11672862367b5dbdbae53384250480e138b46386efd561be5e71b1c93354b3e04fbf82f8875b41e0a7e24670ccca5d9c42b7e2069363ed45c0c
+MISC ChangeLog 537 SHA256 ce2c5c2c6138d944b7cd7ab9aa583ea88c5c9fae71c9c503da6ac79c8c4845a4 SHA512 a86b72c0bafb74d8dada5ce79477d1f5c945b7f11b6d9b8b4bc684df6e6eec68057c579bac4bd5cdb1ea2f60ee7a8a2171753e0f644204c4bd6b4118927b2fcc WHIRLPOOL 927becdfd64b240577cc82cccf08542a173d43f736e4da1263e23b39a6470e9dce98b432c16c14b642fe471088a67ba47c0f4561687b59ba6ae6e13938ec0b20
+MISC metadata.xml 266 SHA256 98c7d1da8a728a1f1d796a79d51f25e4164e24048ec1aacbbf0ae2ffb171ff35 SHA512 879cdcca092d4c82b8c63672c91e08e7b01e81419d2c7c7b766de96ba2a32dd1e21c18968ed7172eec8604f52c92b19a31773f428bce9461d9b8190384680194 WHIRLPOOL 0f46288ab7090ad3da5b31816792427e4ad1a950e39a503bb406ebe8789cffedd9c85b46bfbf040fffb8aad443f512c28716a0a6436d0c06309155277060cdcd
+-----BEGIN PGP SIGNATURE-----
+Version: GnuPG v2.0.19 (GNU/Linux)
+
+iEYEAREIAAYFAlEiDCgACgkQgAnW8HDreRb/8QCgkfucGv7Uz3uLKeAZwWG4iy42
+CksAn0NPyG34TAXY3CHus5GkiGNn5TFn
+=dv4U
+-----END PGP SIGNATURE-----
diff --git a/sci-biology/unafold/metadata.xml b/sci-biology/unafold/metadata.xml
index 3302123e5718..fc7c76942a10 100644
--- a/sci-biology/unafold/metadata.xml
+++ b/sci-biology/unafold/metadata.xml
@@ -1,9 +1,9 @@
<?xml version="1.0" encoding="UTF-8"?>
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
<pkgmetadata>
- <maintainer>
- <email>weaver@gentoo.org</email>
- <name>Andrey Kislyuk</name>
- </maintainer>
- <herd>sci-biology</herd>
+ <maintainer>
+ <email>weaver@gentoo.org</email>
+ <name>Andrey Kislyuk</name>
+ </maintainer>
+ <herd>sci-biology</herd>
</pkgmetadata>
diff --git a/sci-biology/unafold/unafold-3.8-r1.ebuild b/sci-biology/unafold/unafold-3.8-r1.ebuild
new file mode 100644
index 000000000000..fafec1b89a1c
--- /dev/null
+++ b/sci-biology/unafold/unafold-3.8-r1.ebuild
@@ -0,0 +1,28 @@
+# Copyright 1999-2013 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/unafold/unafold-3.8-r1.ebuild,v 1.1 2013/02/18 11:10:31 jlec Exp $
+
+EAPI=5
+
+inherit flag-o-matic
+
+DESCRIPTION="Unified Nucleic Acid Folding and hybridization package"
+HOMEPAGE="http://mfold.rna.albany.edu/"
+SRC_URI="http://dinamelt.bioinfo.rpi.edu/download/${P}.tar.bz2"
+
+LICENSE="unafold"
+SLOT="0"
+KEYWORDS="~amd64 ~x86"
+IUSE="custom-cflags"
+
+DEPEND=""
+RDEPEND="${DEPEND}"
+
+src_prepare() {
+ # recommended in README
+ use custom-cflags || append-flags -O3
+
+ sed \
+ -e 's:hybrid (UNAFold) 3.7:hybrid (UNAFold) 3.8:g' \
+ -i tests/hybrid.tml || die
+}
diff --git a/sci-biology/unafold/unafold-3.8.ebuild b/sci-biology/unafold/unafold-3.8.ebuild
index 72454f3c78c4..640c784ef709 100644
--- a/sci-biology/unafold/unafold-3.8.ebuild
+++ b/sci-biology/unafold/unafold-3.8.ebuild
@@ -1,8 +1,9 @@
-# Copyright 1999-2011 Gentoo Foundation
+# Copyright 1999-2013 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
-# $Header: /var/cvsroot/gentoo-x86/sci-biology/unafold/unafold-3.8.ebuild,v 1.1 2011/01/13 19:01:49 weaver Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-biology/unafold/unafold-3.8.ebuild,v 1.2 2013/02/18 11:10:31 jlec Exp $
EAPI="3"
+
inherit flag-o-matic
DESCRIPTION="Unified Nucleic Acid Folding and hybridization package"
@@ -11,8 +12,8 @@ SRC_URI="http://dinamelt.bioinfo.rpi.edu/download/${P}.tar.bz2"
LICENSE="unafold"
SLOT="0"
-IUSE=""
KEYWORDS="~amd64 ~x86"
+IUSE=""
DEPEND=""
RDEPEND="${DEPEND}"
@@ -20,6 +21,10 @@ RDEPEND="${DEPEND}"
src_prepare() {
# recommended in README
append-flags -O3
+
+ sed \
+ -e 's:hybrid (UNAFold) 3.7:hybrid (UNAFold) 3.8:g' \
+ -i tests/hybrid.tml || die
}
src_install() {