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authorDavid Seifert <soap@gentoo.org>2022-07-13 20:12:05 +0200
committerDavid Seifert <soap@gentoo.org>2022-07-13 20:12:05 +0200
commitefe0146dc37c4c0182fdd1baebddc99500b0a050 (patch)
tree67c0360b25a6a73802cbf4b0de5083939c815adb /dev-lang/R
parentdev-libs/boost: rebase patches (diff)
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dev-lang/R: add 4.2.1
Closes: https://bugs.gentoo.org/856622 Signed-off-by: David Seifert <soap@gentoo.org>
Diffstat (limited to 'dev-lang/R')
-rw-r--r--dev-lang/R/Manifest1
-rw-r--r--dev-lang/R/R-4.2.1.ebuild254
2 files changed, 255 insertions, 0 deletions
diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index 14992cf3742a..22bcd1fa7d38 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,2 +1,3 @@
DIST R-4.2.0.tar.gz 37585694 BLAKE2B 5ba4d3b9397e92b72af729d88ff562655e0dd7c547bd371638aa76d4f1701f4f8a7911d500cf4f10d87b62457f8f8ce7a946d893477ceb7268b06bd59bc10f3d SHA512 99e71dad00b63e44bfcb8dc9539ff1951809112882d9ee7e06a4e99bce2e6ceac24e8348fd598c21e6d5ab0e0629a85170cde208bfa8145af91c398ac4ef7bcd
+DIST R-4.2.1.tar.gz 37601544 BLAKE2B b898262a05c92e125c36a661a89be34b1698177832002f7aa21ccfcf0b30a06481e2154eea9e77a94b1ad8ca35c7bc4aead2be99b862dca7450acee1bec6a99f SHA512 c1baf46d22304c425dde79301183f80f99f2752300137b0b6f902c3e55e2419d5e9185c97de6e3c840a38f6345a6c334aa24161656d4a7f6fa01570390f1122f
DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06
diff --git a/dev-lang/R/R-4.2.1.ebuild b/dev-lang/R/R-4.2.1.ebuild
new file mode 100644
index 000000000000..bdc4ef782ed2
--- /dev/null
+++ b/dev-lang/R/R-4.2.1.ebuild
@@ -0,0 +1,254 @@
+# Copyright 1999-2022 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=8
+
+inherit bash-completion-r1 autotools flag-o-matic fortran-2 toolchain-funcs
+
+# latest git commit for R bash completion: https://github.com/deepayan/rcompletion
+BCPV=78d6830e28ea90a046da79a9b4f70c39594bb6d6
+
+DESCRIPTION="Language and environment for statistical computing and graphics"
+HOMEPAGE="https://www.r-project.org/"
+SRC_URI="
+ mirror://cran/src/base/R-4/${P}.tar.gz
+ https://raw.githubusercontent.com/deepayan/rcompletion/${BCPV}/bash_completion/R -> ${PN}-${BCPV}.bash_completion"
+
+LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
+SLOT="0"
+KEYWORDS="~amd64 ~arm64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux"
+IUSE="cairo doc icu java jpeg lapack lto minimal nls openmp perl png prefix profile readline test tiff tk X"
+
+REQUIRED_USE="
+ png? ( || ( cairo X ) )
+ jpeg? ( || ( cairo X ) )
+ tiff? ( || ( cairo X ) )"
+RESTRICT="
+ minimal? ( test )
+ !test? ( test )"
+
+# At least one package installation in the test suite requires TeX,
+# and will fail without it (bug #718056).
+DEPEND="
+ app-arch/bzip2
+ app-arch/xz-utils
+ app-text/ghostscript-gpl
+ dev-libs/libpcre2:=
+ >=dev-libs/tre-0.8.0_p20210321[approx]
+ net-libs/libtirpc
+ net-misc/curl
+ virtual/blas
+ sys-libs/zlib[minizip]
+ || (
+ sys-apps/coreutils
+ app-misc/realpath
+ )
+ cairo? (
+ x11-libs/cairo:=[X=]
+ x11-libs/pango:=
+ )
+ icu? ( dev-libs/icu:= )
+ jpeg? ( media-libs/libjpeg-turbo:= )
+ lapack? ( virtual/lapack )
+ perl? ( dev-lang/perl )
+ png? ( media-libs/libpng:= )
+ readline? ( sys-libs/readline:= )
+ tiff? ( media-libs/tiff:= )
+ tk? ( dev-lang/tk:= )
+ X? (
+ x11-libs/libXmu
+ x11-libs/libXt
+ x11-misc/xdg-utils
+ )"
+RDEPEND="${DEPEND}
+ java? ( >=virtual/jre-1.8:* )"
+BDEPEND="
+ virtual/pkgconfig
+ doc? (
+ virtual/latex-base
+ dev-texlive/texlive-fontsrecommended
+ )
+ test? ( virtual/latex-base )"
+
+PATCHES=(
+ "${FILESDIR}"/${PN}-3.4.1-parallel.patch
+ "${FILESDIR}"/${PN}-3.4.1-rmath-shared.patch
+ "${FILESDIR}"/${PN}-3.6.2-no-LDFLAGS-in-libR-pkg-config.patch
+ "${FILESDIR}"/${PN}-3.6.2-no-gzip-doc.patch
+)
+
+pkg_pretend() {
+ [[ ${MERGE_TYPE} != binary ]] && use openmp && tc-check-openmp
+}
+
+pkg_setup() {
+ if [[ ${MERGE_TYPE} != binary ]] && use openmp; then
+ tc-check-openmp
+ FORTRAN_NEED_OPENMP=1
+ fi
+
+ fortran-2_pkg_setup
+
+ # avoid using existing R installation
+ unset R_HOME
+}
+
+src_prepare() {
+ default
+
+ # fix packages.html for doc (gentoo bug #205103)
+ sed -e "s:../../../library:../../../../$(get_libdir)/R/library:g" \
+ -i src/library/tools/R/Rd.R || die
+
+ # fix Rscript path when installed (gentoo bug #221061)
+ sed -e "s:-DR_HOME='\"\$(rhome)\"':-DR_HOME='\"${EPREFIX}/usr/$(get_libdir)/${PN}\"':" \
+ -i src/unix/Makefile.in || die "sed unix Makefile failed"
+
+ # fix HTML links to manual (gentoo bug #273957)
+ sed -e 's:\.\./manual/:manual/:g' \
+ -i $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
+
+ # Disable this test until it passes again,
+ # https://bugs.r-project.org/show_bug.cgi?id=18338
+ sed -e 's/ reg-packages.R / /' \
+ -i tests/Makefile.common || die
+
+ use lapack &&
+ export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+ if use X; then
+ export R_BROWSER="$(type -p xdg-open)"
+ export R_PDFVIEWER="$(type -p xdg-open)"
+ fi
+ use perl &&
+ export PERL5LIB="${S}/share/perl:${PERL5LIB:+:}${PERL5LIB}"
+
+ # don't search /usr/local
+ sed -i -e '/FLAGS=.*\/local\//c\: # removed by ebuild' configure.ac || die
+
+ # Fix for Darwin (macOS)
+ if use prefix; then
+ if [[ ${CHOST} == *-darwin* ]] ; then
+ sed -e 's:-install_name libR.dylib:-install_name ${libdir}/R/lib/libR.dylib:' \
+ -e 's:-install_name libRlapack.dylib:-install_name ${libdir}/R/lib/libRlapack.dylib:' \
+ -e 's:-install_name libRblas.dylib:-install_name ${libdir}/R/lib/libRblas.dylib:' \
+ -e "/SHLIB_EXT/s/\.so/.dylib/" \
+ -i configure.ac || die
+ # sort of "undo" 2.14.1-rmath-shared.patch
+ sed -e "s:-Wl,-soname=libRmath.so:-install_name ${EPREFIX}/usr/$(get_libdir)/libRmath.dylib:" \
+ -i src/nmath/standalone/Makefile.in || die
+ else
+ append-ldflags -Wl,-rpath="${EPREFIX}/usr/$(get_libdir)/R/lib"
+ fi
+ fi
+
+ AT_M4DIR=m4 eautoreconf
+}
+
+src_configure() {
+ filter-ldflags -Wl,-Bdirect -Bdirect
+
+ econf \
+ --enable-byte-compiled-packages \
+ --enable-R-shlib \
+ --disable-R-framework \
+ --disable-R-static-lib \
+ --with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
+ rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
+ --with-system-tre \
+ $(use_enable java) \
+ $(use_enable lto lto R) \
+ $(use_enable nls) \
+ $(use_enable openmp) \
+ $(use_enable profile R-profiling) \
+ $(use_enable profile memory-profiling) \
+ $(use_with cairo) \
+ $(use_with icu ICU) \
+ $(use_with jpeg jpeglib) \
+ $(use_with lapack) \
+ $(use_with !minimal recommended-packages) \
+ $(use_with png libpng) \
+ $(use_with readline) \
+ $(use_with tiff libtiff) \
+ $(use_with tk tcltk) \
+ $(use_with tk tk-config "${ESYSROOT}"/usr/$(get_libdir)/tkConfig.sh) \
+ $(use_with tk tcl-config "${ESYSROOT}"/usr/$(get_libdir)/tclConfig.sh) \
+ $(use_with X x)
+}
+
+src_compile() {
+ export VARTEXFONTS="${T}"/fonts
+ emake AR="$(tc-getAR)"
+ emake -C src/nmath/standalone shared AR="$(tc-getAR)"
+ use doc && emake info pdf
+}
+
+src_install() {
+ default
+ emake -j1 -C src/nmath/standalone DESTDIR="${D}" install
+
+ if use doc; then
+ emake DESTDIR="${D}" install-info install-pdf
+ dosym ../manual /usr/share/doc/${PF}/html/manual
+ fi
+
+ newenvd - 99R <<-_EOF_
+ LDPATH="${EPREFIX}/usr/$(get_libdir)/${PN}/lib"
+ R_HOME="${EPREFIX}/usr/$(get_libdir)/${PN}"
+ _EOF_
+
+ newbashcomp "${DISTDIR}"/${PN}-${BCPV}.bash_completion ${PN}
+ # The buildsystem has a different understanding of install_names than
+ # we require. Since it builds modules like shared objects (wrong), many
+ # objects (all modules) get an incorrect install_name. Fixing the build
+ # system here is not really trivial.
+ if [[ ${CHOST} == *-darwin* ]] ; then
+ local mod
+ pushd "${ED}"/usr/$(get_libdir)/R >/dev/null || die
+ for mod in $(find . -name "*.dylib") ; do
+ mod=${mod#./}
+ install_name_tool -id "${EPREFIX}/usr/$(get_libdir)/R/${mod}" "${mod}"
+ done
+ popd >/dev/null || die
+ fi
+
+ # Users are encouraged to access some of the the R documentation
+ # interactively, through functions like "contributors()" that
+ # tries to open the "AUTHORS" file. Other files can be accessed
+ # by name with RShowDoc(), and the documentation for e.g. license()
+ # and RShowDoc() suggests a few of these names. Here we try to
+ # collect as many names as possible that a user might actually
+ # try to view through R, because if we don't decompress them,
+ # then R doesn't know what to do with 'em. Bug #556706.
+ local INTERACTIVE_DOCS=(
+ AUTHORS
+ COPYING
+ FAQ
+ NEWS
+ THANKS
+ )
+
+ # Other data sources that are shipped as "documentation," but which
+ # need to be accessible via their original unmolested filenames.
+ local INTERACTIVE_DATA=(
+ BioC_mirrors.csv
+ CRAN_mirrors.csv
+ KEYWORDS.db
+ NEWS.rds
+ )
+
+ local f NOCOMPRESS_DOCS=( "${INTERACTIVE_DOCS[@]}" "${INTERACTIVE_DATA[@]}" )
+ for f in "${NOCOMPRESS_DOCS[@]}"; do
+ docompress -x /usr/share/doc/${PF}/${f}
+ done
+
+ # Finally, an extra copy of this started showing up at some point...
+ rm "${ED}"/usr/$(get_libdir)/R/COPYING || die
+}
+
+pkg_postinst() {
+ if use java; then
+ einfo "Re-initializing java paths for ${P}"
+ R CMD javareconf
+ fi
+}