diff options
Diffstat (limited to 'sci-biology/bwa')
| -rw-r--r-- | sci-biology/bwa/ChangeLog | 9 | ||||
| -rw-r--r-- | sci-biology/bwa/Manifest | 15 | ||||
| -rw-r--r-- | sci-biology/bwa/bwa-0.5.0-r1.ebuild (renamed from sci-biology/bwa/bwa-0.4.6.ebuild) | 19 |
3 files changed, 22 insertions, 21 deletions
diff --git a/sci-biology/bwa/ChangeLog b/sci-biology/bwa/ChangeLog index ca7cc0fd9863..e470ca78bb48 100644 --- a/sci-biology/bwa/ChangeLog +++ b/sci-biology/bwa/ChangeLog @@ -1,6 +1,13 @@ # ChangeLog for sci-biology/bwa # Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/bwa/ChangeLog,v 1.7 2010/05/23 21:15:12 pacho Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-biology/bwa/ChangeLog,v 1.8 2010/09/07 11:51:10 xarthisius Exp $ + +*bwa-0.5.0-r1 (07 Sep 2010) + + 07 Sep 2010; Kacper Kowalik <xarthisius@gentoo.org> -bwa-0.4.6.ebuild, + +bwa-0.5.0-r1.ebuild: + Respect LDFLAGS wrt bug 336348. Thanks to Diego for the report. Add proper + pthread support, drop empty DEPENDs. Drop old. 23 May 2010; Pacho Ramos <pacho@gentoo.org> bwa-0.5.0.ebuild: stable amd64, bug 314907 diff --git a/sci-biology/bwa/Manifest b/sci-biology/bwa/Manifest index 427cbeb47cc9..abb832828842 100644 --- a/sci-biology/bwa/Manifest +++ b/sci-biology/bwa/Manifest @@ -1,16 +1,5 @@ ------BEGIN PGP SIGNED MESSAGE----- -Hash: SHA1 - -DIST bwa-0.4.6.tar.bz2 90812 RMD160 94258e263d27fa1a08e814ee9098ac4db6ce51b6 SHA1 94a260f429bc9586ca16b57af094f83d728c5029 SHA256 d1db52a014cc592fe5318b1af109afb5ca58f12452dfcc822087b693efea06ba DIST bwa-0.5.0.tar.bz2 103638 RMD160 73803a59de42ca0763dedd56e47b09b23f115a87 SHA1 8a82efc5d8ebca7431c335d154cf203ff2aaf4b3 SHA256 02749e290d07ee7c96a9d219be7290f4b0f21fa6fc8e1405d8a6a657cd0dbc77 -EBUILD bwa-0.4.6.ebuild 667 RMD160 c458d922c103803dfa2b993bff1c69e53f4b65af SHA1 237d0c3764664b3c74fe7422f605a7a6335f63ac SHA256 949145d5e01579bb966791c83e917b48604aca134970ec53e4fed9044ab61a3b +EBUILD bwa-0.5.0-r1.ebuild 831 RMD160 aa22abb0bb7049b2abe2016e1ad4b5e695f87967 SHA1 e4e2183a50a7a4b47027a357ba88b722feead9d7 SHA256 2b0219d864e7e802096e5399acbd12445addf3ec9c01e2df0775ad79201014b2 EBUILD bwa-0.5.0.ebuild 665 RMD160 465763b0779d89b9fd4860772b90b84fb271c5db SHA1 cd9ba9f0ad934eca1423b47284bd967a67492afd SHA256 fe6a5dd9d7439ef97a1cbe94d0facb29dbc513e5c6fdc7944151850307205f3f -MISC ChangeLog 1136 RMD160 9eaf8d496c142e010c9a71f5c2c5fbb679c0d923 SHA1 609ea329dc65f26112956f83d900dc15b5684b9f SHA256 117a8c4e48e92b505fdb82a9b25a0a18829801cf623b742d08ef22f1a2b67029 +MISC ChangeLog 1394 RMD160 1cfb916817e908bc16b3c1ac9c0c31466671498f SHA1 1efa2c26ee13631c4ec291fff62f5015b8670e49 SHA256 8f1c606d7d1b7340c5d471049bfcfd6caf128b12191056af0115bc1d060df132 MISC metadata.xml 259 RMD160 d9d81b67d635fabd81aef8ae0edf971211ae9072 SHA1 8e32f751c67ff891fa35405a2cf6fb33752d6eb1 SHA256 541c3fbcf299d9a8ccf4132ee61f9e53a5d737cefdaa6fdc77764d8d4c7f3110 ------BEGIN PGP SIGNATURE----- -Version: GnuPG v2.0.14 (GNU/Linux) - -iEYEARECAAYFAkv5muUACgkQCaWpQKGI+9TaKACcCYFYlKE+ggqrhnonwVu4v3eZ -H2IAn0uzcXK4wlfId/96qPD7vDnNVHf7 -=7ARH ------END PGP SIGNATURE----- diff --git a/sci-biology/bwa/bwa-0.4.6.ebuild b/sci-biology/bwa/bwa-0.5.0-r1.ebuild index 3ec0d2e9d1c5..1cf519c13e64 100644 --- a/sci-biology/bwa/bwa-0.4.6.ebuild +++ b/sci-biology/bwa/bwa-0.5.0-r1.ebuild @@ -1,9 +1,11 @@ -# Copyright 1999-2009 Gentoo Foundation +# Copyright 1999-2010 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/bwa/bwa-0.4.6.ebuild,v 1.3 2009/06/12 00:52:47 fauli Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-biology/bwa/bwa-0.5.0-r1.ebuild,v 1.1 2010/09/07 11:51:10 xarthisius Exp $ EAPI=2 +inherit flag-o-matic toolchain-funcs + DESCRIPTION="Burrows-Wheeler Alignment Tool, a fast short genomic sequence aligner" HOMEPAGE="http://maq.sourceforge.net/" SRC_URI="mirror://sourceforge/maq/${P}.tar.bz2" @@ -13,11 +15,14 @@ SLOT="0" IUSE="" KEYWORDS="~amd64 ~x86" -DEPEND="" -RDEPEND="" - src_prepare() { - sed -e "/^CFLAGS.*/d" -i "${S}"/Makefile + sed -e "s/\$(CC) \$(CFLAGS)/\$(CC) \$(LDFLAGS) \$(CFLAGS)/" \ + -i "${S}"/Makefile || die #336348 + append-flags -pthread +} + +src_compile() { + emake -e CC="$(tc-getCC)" || die } src_install() { @@ -25,5 +30,5 @@ src_install() { doman bwa.1 || die exeinto /usr/share/${PN} doexe solid2fastq.pl || die - dodoc ChangeLog NEWS + dodoc ChangeLog NEWS || die } |