From 6509b0303446745ba3b62cbcdac11a3c0a432ed8 Mon Sep 17 00:00:00 2001 From: Andrey Kislyuk Date: Wed, 30 Nov 2011 08:44:21 +0000 Subject: Version bump Package-Manager: portage-2.2.0_alpha74/cvs/Linux x86_64 --- sci-biology/bwa/ChangeLog | 8 +++++++- sci-biology/bwa/Manifest | 14 +++++++------- sci-biology/bwa/bwa-0.5.8a.ebuild | 35 ----------------------------------- sci-biology/bwa/bwa-0.6.1.ebuild | 35 +++++++++++++++++++++++++++++++++++ 4 files changed, 49 insertions(+), 43 deletions(-) delete mode 100644 sci-biology/bwa/bwa-0.5.8a.ebuild create mode 100644 sci-biology/bwa/bwa-0.6.1.ebuild (limited to 'sci-biology/bwa') diff --git a/sci-biology/bwa/ChangeLog b/sci-biology/bwa/ChangeLog index f0d534e625f9..fe95fdbb5394 100644 --- a/sci-biology/bwa/ChangeLog +++ b/sci-biology/bwa/ChangeLog @@ -1,6 +1,12 @@ # ChangeLog for sci-biology/bwa # Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2 -# $Header: /var/cvsroot/gentoo-x86/sci-biology/bwa/ChangeLog,v 1.10 2011/05/01 09:19:52 jlec Exp $ +# $Header: /var/cvsroot/gentoo-x86/sci-biology/bwa/ChangeLog,v 1.11 2011/11/30 08:44:21 weaver Exp $ + +*bwa-0.6.1 (30 Nov 2011) + + 30 Nov 2011; Andrey Kislyuk -bwa-0.5.8a.ebuild, + +bwa-0.6.1.ebuild: + Version bump *bwa-0.5.9 (01 May 2011) diff --git a/sci-biology/bwa/Manifest b/sci-biology/bwa/Manifest index 5f96ac7e106e..e040ac6ec458 100644 --- a/sci-biology/bwa/Manifest +++ b/sci-biology/bwa/Manifest @@ -2,18 +2,18 @@ Hash: SHA1 DIST bwa-0.5.0.tar.bz2 103638 RMD160 73803a59de42ca0763dedd56e47b09b23f115a87 SHA1 8a82efc5d8ebca7431c335d154cf203ff2aaf4b3 SHA256 02749e290d07ee7c96a9d219be7290f4b0f21fa6fc8e1405d8a6a657cd0dbc77 -DIST bwa-0.5.8a.tar.bz2 113239 RMD160 0c927c0583739a58334bc489d565cc5266e8076c SHA1 181a86b855a8c1597c1f7b1880bea664ae651e22 SHA256 71eb89d8a63da3f13e4e4bb012747c40db452efa6dc11b92cce70f4393004429 DIST bwa-0.5.9.tar.bz2 113890 RMD160 9dda52d0019b0dfeb0794c2d4d4509f8add63551 SHA1 dc5d7ddd54b4f972c4e3667ce10449e1d428b419 SHA256 e1e4c522f75d7829bb1f0eb3920d31b8240f9343ebf977f9cd3540cabb9bdaf2 +DIST bwa-0.6.1.tar.bz2 129994 RMD160 78e531439551ee9ae50f251b317c2e2c1e4c5386 SHA1 89b0bebb5d8b1839bb2b146e9bdd520733a98d38 SHA256 15cc04a0085f3a0114835730e8e46ed72d36f0b34ced67594d4e04779f397be9 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 -EBUILD bwa-0.5.8a.ebuild 871 RMD160 46c516b179afac8193a5059f02b9be578aaf2d92 SHA1 30e52dd78eec6b060fce091956812049af249c10 SHA256 e92d6032fc3c467e2f9938bd760aec9d57766456b885aa9ff74de595cb39aee5 EBUILD bwa-0.5.9.ebuild 868 RMD160 fe01a1a2f9b667f71ff33ede267b9ea4ca76be5a SHA1 48f8aa65dee41b30a9463dbdcee4a612b8701764 SHA256 83ebad8206f365b9f747a86e9014a9ff6cd21670eb024fe790aee36a64b833bf -MISC ChangeLog 1619 RMD160 453de9d884abbe41b02f653c79b4763571e59cfa SHA1 5710c51324208df17b08b63c24c5f8e4e39c091b SHA256 d92aeda30f46fec5db7eeecd91cfe29258ad0eb1b25015bf6089602d5b532a91 +EBUILD bwa-0.6.1.ebuild 870 RMD160 9cf99df547d902fdcd3fce4848f5195a149c48db SHA1 e521064f522cc4074e3b2755718fadc11799a0ee SHA256 d9f895635056831740589d9c6d09068bf30d84f46b72d7866bf6ced83324435b +MISC ChangeLog 1754 RMD160 ee66ecf01ef67a9c4c967becc3b2a35e24802a59 SHA1 18d4acfa089bc53fff0e0fe5f6e5e073273fee33 SHA256 33e96b6638e724257f64f3c6f5fb85d4d3c4b4f37fda976d649da873a9fe8fb7 MISC metadata.xml 259 RMD160 d9d81b67d635fabd81aef8ae0edf971211ae9072 SHA1 8e32f751c67ff891fa35405a2cf6fb33752d6eb1 SHA256 541c3fbcf299d9a8ccf4132ee61f9e53a5d737cefdaa6fdc77764d8d4c7f3110 -----BEGIN PGP SIGNATURE----- -Version: GnuPG v2.0.17 (GNU/Linux) +Version: GnuPG v1.4.11 (GNU/Linux) -iEYEARECAAYFAk29Jb0ACgkQgAnW8HDreRbDIwCfTuro2Cn55kh5/Ang+GSoh2xJ -MkIAn0lfJQcx42ThUlJnvQhCEbtIcyoG -=ww7F +iEYEARECAAYFAk7V7OoACgkQ8xSwyhbn2OYhGACcCWGPsT2SE21v4lT4nJnySJ+A +uxAAoJDNUcFdCQMyb+x9EsfZD+3neuOb +=YO6Q -----END PGP SIGNATURE----- diff --git a/sci-biology/bwa/bwa-0.5.8a.ebuild b/sci-biology/bwa/bwa-0.5.8a.ebuild deleted file mode 100644 index 6d296b4db05f..000000000000 --- a/sci-biology/bwa/bwa-0.5.8a.ebuild +++ /dev/null @@ -1,35 +0,0 @@ -# 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-0.5.8a.ebuild,v 1.1 2010/10/09 20:15:55 weaver Exp $ - -EAPI=2 - -inherit flag-o-matic toolchain-funcs - -DESCRIPTION="Burrows-Wheeler Alignment Tool, a fast short genomic sequence aligner" -HOMEPAGE="http://bio-bwa.sourceforge.net/" -SRC_URI="mirror://sourceforge/bio-bwa/${P}.tar.bz2" - -LICENSE="GPL-3" -SLOT="0" -IUSE="" -KEYWORDS="~amd64 ~x86 ~x64-macos" - -src_prepare() { - sed -e "s/\$(CC) \$(CFLAGS)/\$(CC) \$(LDFLAGS) \$(CFLAGS)/" \ - -i "${S}"/Makefile || die #336348 - append-flags -pthread -} - -src_compile() { - emake -e CC="$(tc-getCC)" || die -} - -src_install() { - dobin bwa || die - doman bwa.1 || die - exeinto /usr/share/${PN} - doexe solid2fastq.pl || die - doexe qualfa2fq.pl || die - dodoc ChangeLog NEWS || die -} diff --git a/sci-biology/bwa/bwa-0.6.1.ebuild b/sci-biology/bwa/bwa-0.6.1.ebuild new file mode 100644 index 000000000000..96c0be66c38a --- /dev/null +++ b/sci-biology/bwa/bwa-0.6.1.ebuild @@ -0,0 +1,35 @@ +# Copyright 1999-2011 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/bwa/bwa-0.6.1.ebuild,v 1.1 2011/11/30 08:44:21 weaver Exp $ + +EAPI=2 + +inherit flag-o-matic toolchain-funcs + +DESCRIPTION="Burrows-Wheeler Alignment Tool, a fast short genomic sequence aligner" +HOMEPAGE="http://bio-bwa.sourceforge.net/" +SRC_URI="mirror://sourceforge/bio-bwa/${P}.tar.bz2" + +LICENSE="GPL-3" +SLOT="0" +IUSE="" +KEYWORDS="~amd64 ~x86 ~x64-macos" + +src_prepare() { + sed -e "s/\$(CC) \$(CFLAGS)/\$(CC) \$(LDFLAGS) \$(CFLAGS)/" \ + -i "${S}"/Makefile || die #336348 + append-flags -pthread +} + +src_compile() { + emake -e CC="$(tc-getCC)" || die +} + +src_install() { + dobin bwa || die + doman bwa.1 || die + exeinto /usr/share/${PN} + doexe solid2fastq.pl || die + doexe qualfa2fq.pl || die + dodoc ChangeLog NEWS || die +} -- cgit v1.2.3-65-gdbad