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244 lines
7.1 KiB
244 lines
7.1 KiB
# Copyright 1999-2021 Gentoo Authors
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# Distributed under the terms of the GNU General Public License v2
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EAPI=7
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inherit bash-completion-r1 autotools flag-o-matic fortran-2 toolchain-funcs
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# latest git commit for R bash completion: https://github.com/deepayan/rcompletion
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BCPV=78d6830e28ea90a046da79a9b4f70c39594bb6d6
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DESCRIPTION="Language and environment for statistical computing and graphics"
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HOMEPAGE="http://www.r-project.org/"
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SRC_URI="
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mirror://cran/src/base/R-4/${P}.tar.gz
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https://raw.githubusercontent.com/deepayan/rcompletion/${BCPV}/bash_completion/R -> ${PN}-${BCPV}.bash_completion"
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LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
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SLOT="0"
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KEYWORDS="amd64 ~arm64 ~hppa ~ia64 sparc x86 ~amd64-linux ~x86-linux"
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IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs test tiff tk X"
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# One test required profiling in v4.0.2, check the upstream bug:
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#
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# https://bugs.r-project.org/bugzilla/show_bug.cgi?id=17836
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#
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REQUIRED_USE="png? ( || ( cairo X ) )
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jpeg? ( || ( cairo X ) )
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tiff? ( || ( cairo X ) )
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test? ( profile )
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"
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# At least one package installation in the test suite requires TeX,
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# and will fail without it (bug #718056).
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BDEPEND="virtual/pkgconfig
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doc? (
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virtual/latex-base
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dev-texlive/texlive-fontsrecommended
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)
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test? ( virtual/latex-base )"
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DEPEND="
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app-arch/bzip2:0=
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app-arch/xz-utils:0=
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app-text/ghostscript-gpl
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dev-libs/libpcre2:=
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net-libs/libtirpc
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net-misc/curl
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virtual/blas:0
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|| ( sys-apps/coreutils app-misc/realpath )
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cairo? ( x11-libs/cairo:0=[X=] x11-libs/pango:0= )
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icu? ( dev-libs/icu:= )
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jpeg? ( virtual/jpeg:0 )
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lapack? ( virtual/lapack:0 )
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perl? ( dev-lang/perl )
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png? ( media-libs/libpng:0= )
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readline? ( sys-libs/readline:0= )
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tiff? ( media-libs/tiff:0= )
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tk? ( dev-lang/tk:0= )
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X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
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RDEPEND="${DEPEND}
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sys-libs/zlib:0[minizip]
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java? ( >=virtual/jre-1.8:* )"
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RESTRICT="minimal? ( test )
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!test? ( test )"
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PATCHES=(
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"${FILESDIR}"/${PN}-3.4.1-parallel.patch
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"${FILESDIR}"/${PN}-3.4.1-rmath-shared.patch
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"${FILESDIR}"/${PN}-3.6.2-no-LDFLAGS-in-libR-pkg-config.patch
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"${FILESDIR}"/${PN}-3.6.2-no-gzip-doc.patch
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)
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pkg_pretend() {
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[[ ${MERGE_TYPE} != binary ]] && use openmp && tc-check-openmp
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}
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pkg_setup() {
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if [[ ${MERGE_TYPE} != binary ]] && use openmp; then
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FORTRAN_NEED_OPENMP=1
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fi
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fortran-2_pkg_setup
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filter-ldflags -Wl,-Bdirect -Bdirect
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# avoid using existing R installation
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unset R_HOME
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# Temporary fix for bug #419761
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if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
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append-flags -fno-ipa-cp-clone
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fi
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}
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src_prepare() {
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default
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# fix packages.html for doc (gentoo bug #205103)
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sed -e "s:../../../library:../../../../$(get_libdir)/R/library:g" \
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-i src/library/tools/R/Rd.R || die
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# fix Rscript path when installed (gentoo bug #221061)
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sed -e "s:-DR_HOME='\"\$(rhome)\"':-DR_HOME='\"${EROOT}/usr/$(get_libdir)/${PN}\"':" \
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-i src/unix/Makefile.in || die "sed unix Makefile failed"
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# fix HTML links to manual (gentoo bug #273957)
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sed -e 's:\.\./manual/:manual/:g' \
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-i $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
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use lapack && \
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export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
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if use X; then
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export R_BROWSER="$(type -p xdg-open)"
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export R_PDFVIEWER="$(type -p xdg-open)"
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fi
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use perl && \
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export PERL5LIB="${S}/share/perl:${PERL5LIB:+:}${PERL5LIB}"
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# don't search /usr/local
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sed -i -e '/FLAGS=.*\/local\//c\: # removed by ebuild' configure.ac || die
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# Fix for Darwin (OS X)
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if use prefix; then
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if [[ ${CHOST} == *-darwin* ]] ; then
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sed -e 's:-install_name libR.dylib:-install_name ${libdir}/R/lib/libR.dylib:' \
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-e 's:-install_name libRlapack.dylib:-install_name ${libdir}/R/lib/libRlapack.dylib:' \
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-e 's:-install_name libRblas.dylib:-install_name ${libdir}/R/lib/libRblas.dylib:' \
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-e "/SHLIB_EXT/s/\.so/.dylib/" \
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-i configure.ac || die
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# sort of "undo" 2.14.1-rmath-shared.patch
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sed -e "s:-Wl,-soname=libRmath.so:-install_name ${EROOT}/usr/$(get_libdir)/libRmath.dylib:" \
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-i src/nmath/standalone/Makefile.in || die
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else
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append-ldflags -Wl,-rpath="${EROOT}/usr/$(get_libdir)/R/lib"
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fi
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fi
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AT_M4DIR=m4
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eautoreconf
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}
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src_configure() {
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# --with-system-tre \
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# tre is patched from upstream
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econf \
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--enable-byte-compiled-packages \
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--enable-R-shlib \
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--disable-R-framework \
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--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
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rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
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$(use_enable java) \
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$(use_enable nls) \
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$(use_enable openmp) \
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$(use_enable profile R-profiling) \
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$(use_enable profile memory-profiling) \
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$(use_enable static-libs static) \
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$(use_enable static-libs R-static-lib) \
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$(use_with cairo) \
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$(use_with icu ICU) \
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$(use_with jpeg jpeglib) \
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$(use_with lapack) \
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$(use_with !minimal recommended-packages) \
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$(use_with png libpng) \
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$(use_with readline) \
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$(use_with tiff libtiff) \
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$(use_with tk tcltk) \
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$(use_with tk tk-config "${EPREFIX}"/usr/$(get_libdir)/tkConfig.sh) \
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$(use_with tk tcl-config "${EPREFIX}"/usr/$(get_libdir)/tclConfig.sh) \
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$(use_with X x)
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}
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src_compile() {
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export VARTEXFONTS="${T}/fonts"
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emake AR="$(tc-getAR)"
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emake -C src/nmath/standalone \
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shared $(use static-libs && echo static) AR="$(tc-getAR)"
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use doc && emake info pdf
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}
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src_install() {
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default
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emake -j1 -C src/nmath/standalone DESTDIR="${D}" install
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if use doc; then
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emake DESTDIR="${D}" install-info install-pdf
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dosym ../manual /usr/share/doc/${PF}/html/manual
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fi
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cat > 99R <<-EOF
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LDPATH=${EROOT}/usr/$(get_libdir)/${PN}/lib
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R_HOME=${EROOT}/usr/$(get_libdir)/${PN}
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EOF
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doenvd 99R
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newbashcomp "${DISTDIR}"/${PN}-${BCPV}.bash_completion ${PN}
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# The buildsystem has a different understanding of install_names than
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# we require. Since it builds modules like shared objects (wrong), many
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# objects (all modules) get an incorrect install_name. Fixing the build
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# system here is not really trivial.
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if [[ ${CHOST} == *-darwin* ]] ; then
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local mod
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pushd "${ED}"/usr/$(get_libdir)/R > /dev/null
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for mod in $(find . -name "*.dylib") ; do
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mod=${mod#./}
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install_name_tool -id "${EPREFIX}/usr/$(get_libdir)/R/${mod}" \
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"${mod}"
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done
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popd > /dev/null
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fi
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# Users are encouraged to access some of the the R documentation
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# interactively, through functions like "contributors()" that
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# tries to open the "AUTHORS" file. Other files can be accessed
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# by name with RShowDoc(), and the documentation for e.g. license()
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# and RShowDoc() suggests a few of these names. Here we try to
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# collect as many names as possible that a user might actually
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# try to view through R, because if we don't decompress them,
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# then R doesn't know what to do with 'em. Bug #556706.
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INTERACTIVE_DOCS=(
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AUTHORS
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COPYING
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FAQ
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NEWS
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THANKS
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)
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# Other data sources that are shipped as "documentation," but which
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# need to be accessible via their original unmolested filenames.
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INTERACTIVE_DATA=(
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BioC_mirrors.csv
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CRAN_mirrors.csv
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KEYWORDS.db
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NEWS.rds
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)
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NOCOMPRESS_DOCS=( "${INTERACTIVE_DOCS[@]}" "${INTERACTIVE_DATA[@]}" )
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for f in "${NOCOMPRESS_DOCS[@]}"; do
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docompress -x "/usr/share/doc/${PF}/${f}"
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done
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}
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pkg_postinst() {
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if use java; then
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einfo "Re-initializing java paths for ${P}"
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R CMD javareconf
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fi
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}
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