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Gentoo's Bugzilla – Attachment 380212 Details for
Bug 493724
sci-biology/emboss-6.3.1_p4-r1 - .../work/EMBOSS-6.3.1/ajax/graphics/.libs/libajaxg.so: undefined reference to `c_plwid'
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an ebuild using the emboss-6.3.1_p4-r1-ajgraph-plplot.patch
emboss-6.3.1_p4-r1.ebuild (text/plain), 3.51 KB, created by
Juergen Rose
on 2014-07-05 08:19:34 UTC
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Description:
an ebuild using the emboss-6.3.1_p4-r1-ajgraph-plplot.patch
Filename:
MIME Type:
Creator:
Juergen Rose
Created:
2014-07-05 08:19:34 UTC
Size:
3.51 KB
patch
obsolete
># Copyright 1999-2012 Gentoo Foundation ># Distributed under the terms of the GNU General Public License v2 ># $Header: /var/cvsroot/gentoo-x86/sci-biology/emboss/emboss-6.3.1_p4-r1.ebuild,v 1.1 2012/11/19 10:36:45 jlec Exp $ > >EAPI="4" > >inherit autotools eutils > >MY_PATCH="4" > >DESCRIPTION="The European Molecular Biology Open Software Suite - A sequence analysis package" >HOMEPAGE="http://emboss.sourceforge.net/" >SRC_URI=" > ftp://${PN}.open-bio.org/pub/EMBOSS/old/${PV}/EMBOSS-${PV/_p${MY_PATCH}}.tar.gz > ftp://${PN}.open-bio.org/pub/EMBOSS/old/${PV}/fixes/patches/patch-1-${MY_PATCH}.gz -> ${P}.patch.gz" > >LICENSE="GPL-2 LGPL-2" >SLOT="0" >KEYWORDS="~amd64 ~ppc ~x86 ~amd64-linux ~x86-linux ~ppc-macos" >IUSE="doc minimal mysql pdf png postgres static-libs X" > >DEPEND=" > dev-libs/expat > dev-libs/libpcre:3 > sci-libs/plplot > sys-libs/zlib > mysql? ( dev-db/mysql ) > pdf? ( media-libs/libharu ) > png? ( > sys-libs/zlib > media-libs/libpng > media-libs/gd > ) > postgres? ( dev-db/postgresql-base ) > !minimal? ( > sci-biology/primer3 > sci-biology/clustalw > ) > X? ( x11-libs/libXt )" >RDEPEND="${DEPEND} > !sys-devel/cons" >PDEPEND=" > !minimal? ( > sci-biology/aaindex > sci-biology/cutg > sci-biology/prints > sci-biology/prosite > sci-biology/rebase > sci-biology/transfac > )" > >S="${WORKDIR}/EMBOSS-${PV/_p${MY_PATCH}}" > >src_prepare() { > epatch "${WORKDIR}"/${P}.patch > epatch \ > "${FILESDIR}"/${PV}-unbundle-libs.patch \ > "${FILESDIR}/${PF}_plcol.patch" \ > "${FILESDIR}/${PF}-ajgraph-plplot.patch" > eautoreconf >} > >src_configure() { > econf \ > $(use_with X x) \ > $(use_with png pngdriver "${EPREFIX}/usr") \ > $(use_with doc docroot "${EPREFIX}/usr") \ > $(use_with pdf hpdf "${EPREFIX}/usr") \ > $(use_with mysql mysql "${EPREFIX}/usr/bin/mysql_config") \ > $(use_with postgres postgresql "${EPREFIX}/usr/bin/pg_config") \ > $(use_enable amd64 64) \ > $(use_enable static-libs static) \ > --without-java \ > --enable-large \ > --enable-systemlibs \ > --includedir="${ED}/usr/include/emboss" >} > >src_install() { > einstall || die "Failed to install program files." > > dodoc AUTHORS ChangeLog FAQ NEWS README THANKS > sed "s:EPREFIX:${EPREFIX}:g" "${FILESDIR}"/${PN}-README.Gentoo-2 > README.Gentoo && \ > dodoc README.Gentoo > > # Install env file for setting libplplot and acd files path. > cat <<- EOF > 22emboss > # plplot libs dir > PLPLOT_LIB="${EPREFIX}/usr/share/EMBOSS/" > # ACD files location > EMBOSS_ACDROOT="${EPREFIX}/usr/share/EMBOSS/acd" > EOF > doenvd 22emboss > > # Symlink preinstalled docs to "/usr/share/doc". > dosym /usr/share/EMBOSS/doc/manuals /usr/share/doc/${PF}/manuals > dosym /usr/share/EMBOSS/doc/programs /usr/share/doc/${PF}/programs > dosym /usr/share/EMBOSS/doc/tutorials /usr/share/doc/${PF}/tutorials > dosym /usr/share/EMBOSS/doc/html /usr/share/doc/${PF}/html > > # Clashes #330507 > mv "${ED}"/usr/bin/{digest,pepdigest} || die > > # Remove useless dummy files from the image. > find emboss/data -name dummyfile -delete || die "Failed to remove dummy files." > > # Move the provided codon files to a different directory. This will avoid > # user confusion and file collisions on case-insensitive file systems (see > # bug #115446). This change is documented in "README.Gentoo". > mv "${ED}"/usr/share/EMBOSS/data/CODONS{,.orig} || \ > die "Failed to move CODON directory." > > # Move the provided restriction enzyme prototypes file to a different name. > # This avoids file collisions with versions of rebase that install their > # own enzyme prototypes file (see bug #118832). > mv "${ED}"/usr/share/EMBOSS/data/embossre.equ{,.orig} || \ > die "Failed to move enzyme equivalence file." >}
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bug 493724
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380210
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