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commit: 00bb77fe4833272c18c448942d8e19b99d729e77 |
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Author: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
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AuthorDate: Tue Apr 30 09:42:18 2013 +0000 |
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Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> |
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CommitDate: Tue Apr 30 09:42:18 2013 +0000 |
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URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=00bb77fe |
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|
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sci-biology/mira-3.9.15: bump to current besta version |
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|
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Package-Manager: portage-2.1.11.62 |
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|
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--- |
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sci-biology/mira/ChangeLog | 6 +++ |
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sci-biology/mira/mira-3.9.15.ebuild | 64 +++++++++++++++++++++++++++++++++++ |
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2 files changed, 70 insertions(+), 0 deletions(-) |
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|
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diff --git a/sci-biology/mira/ChangeLog b/sci-biology/mira/ChangeLog |
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index 68b66f6..afda6bd 100644 |
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--- a/sci-biology/mira/ChangeLog |
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+++ b/sci-biology/mira/ChangeLog |
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@@ -2,6 +2,12 @@ |
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# Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2 |
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# $Header: $ |
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|
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+*mira-3.9.15 (30 Apr 2013) |
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+ |
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+ 30 Apr 2013; Martin Mokrejs <mmokrejs@×××××××××××××××.cz> |
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+ +mira-3.9.15.ebuild: |
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+ sci-biology/mira-3.9.15: bump to current besta version mira-3.9.15.ebuild |
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+ |
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*mira-3.4.1.1 (22 Feb 2013) |
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*mira-3.9.9 (22 Feb 2013) |
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|
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|
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diff --git a/sci-biology/mira/mira-3.9.15.ebuild b/sci-biology/mira/mira-3.9.15.ebuild |
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new file mode 100644 |
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index 0000000..8dbb921 |
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--- /dev/null |
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+++ b/sci-biology/mira/mira-3.9.15.ebuild |
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@@ -0,0 +1,64 @@ |
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+# Copyright 1999-2013 Gentoo Foundation |
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+# Distributed under the terms of the GNU General Public License v2 |
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+# $Header: /var/cvsroot/gentoo-x86/sci-biology/mira/mira-3.4.0.2.ebuild,v 1.1 2012/11/07 22:29:56 jlec Exp $ |
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+ |
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+EAPI=4 |
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+ |
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+MIRA_3RDPARTY_PV="06-07-2012" |
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+ |
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+inherit autotools base multilib |
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+ |
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+DESCRIPTION="Whole Genome Shotgun and EST Sequence Assembler for Sanger, 454 and Solexa / Illumina" |
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+HOMEPAGE="http://www.chevreux.org/projects_mira.html" |
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+SRC_URI=" |
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+ http://sourceforge.net/projects/mira-assembler/files/MIRA/development/${P}.tar.bz2 |
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+ mirror://sourceforge/mira-assembler/mira_3rdparty_${MIRA_3RDPARTY_PV}.tar.bz2" |
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+ |
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+SLOT="0" |
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+LICENSE="GPL-2" |
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+KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux ~x86-macos" |
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+IUSE="doc" |
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+ |
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+CDEPEND=" |
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+ dev-libs/boost |
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+ dev-util/google-perftools" |
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+DEPEND="${CDEPEND} |
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+ app-editors/vim-core |
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+ dev-libs/expat" |
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+RDEPEND="${CDEPEND}" |
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+ |
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+#DOCS=( AUTHORS GETTING_STARTED NEWS README HELP_WANTED |
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+# THANKS doc/3rdparty/scaffolding_MIRA_BAMBUS.pdf ) |
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+DOCS=( AUTHORS GETTING_STARTED NEWS README HELP_WANTED |
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+ THANKS ) |
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+ |
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+src_prepare() { |
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+ find -name 'configure*' -or -name 'Makefile*' | xargs sed -i 's/flex++/flex -+/' || die |
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+ epatch \ |
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+ "${FILESDIR}"/${PN}-3.4.0.2-boost-1.50.patch |
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+ AT_M4DIR="config/m4" eautoreconf |
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+} |
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+ |
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+src_configure() { |
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+ econf \ |
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+ --with-boost="${EPREFIX}/usr/$(get_libdir)" \ |
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+ --with-boost-libdir="${EPREFIX}/usr/$(get_libdir)" \ |
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+ --with-boost-thread=boost_thread-mt |
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+} |
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+ |
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+#src_compile() { |
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+# base_src_compile |
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+# # TODO: resolve docbook incompatibility for building docs |
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+# if use doc; then emake -C doc clean docs || die; fi |
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+#} |
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+ |
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+src_install() { |
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+ base_src_install |
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+ dobin "${WORKDIR}"/3rdparty/{sff_extract,qual2ball,*.pl} |
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+ dodoc "${WORKDIR}"/3rdparty/{README.txt,midi_screen.fasta} |
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+} |
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+ |
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+pkg_postinst() { |
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+ einfo "Documentation is no longer built, you can find it at:" |
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+ einfo "http://mira-assembler.sourceforge.net/docs/DefinitiveGuideToMIRA.html" |
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+} |