[gentoo-commits] repo/gentoo:master commit in: dev-lang/R/

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* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2023-10-30 23:43 Michael Orlitzky
  0 siblings, 0 replies; 99+ messages in thread
From: Michael Orlitzky @ 2023-10-30 23:43 UTC (permalink / raw
  To: gentoo-commits

commit:     ef47b7e59acfea4522bd411971521c48b70bc77b
Author:     Michael Orlitzky <mjo <AT> gentoo <DOT> org>
AuthorDate: Mon Oct 30 23:36:55 2023 +0000
Commit:     Michael Orlitzky <mjo <AT> gentoo <DOT> org>
CommitDate: Mon Oct 30 23:39:43 2023 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=ef47b7e5

dev-lang/R: eliminate pointless use of mirror://

The list of "cran" mirrors contains exactly one working mirror, and that
is the official upstream. Let's listen to the devmanual and inline that
location into SRC_URI.

Signed-off-by: Michael Orlitzky <mjo <AT> gentoo.org>

 dev-lang/R/R-4.3.1.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.3.1.ebuild b/dev-lang/R/R-4.3.1.ebuild
index 54a13af61115..35b5a00630bd 100644
--- a/dev-lang/R/R-4.3.1.ebuild
+++ b/dev-lang/R/R-4.3.1.ebuild
@@ -12,7 +12,7 @@ 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/${P}.tar.gz
+	https://cran.r-project.org/src/base/R-4/${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"


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2024-06-23  1:58 David Seifert
  0 siblings, 0 replies; 99+ messages in thread
From: David Seifert @ 2024-06-23  1:58 UTC (permalink / raw
  To: gentoo-commits

commit:     be5b8a10e2e385902611ef51ba1dfe1bd886a0c1
Author:     Alfred Wingate <parona <AT> protonmail <DOT> com>
AuthorDate: Sun Jun 23 01:58:41 2024 +0000
Commit:     David Seifert <soap <AT> gentoo <DOT> org>
CommitDate: Sun Jun 23 01:58:41 2024 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=be5b8a10

dev-lang/R: fixes for 4.4.1

* Lapack symbols (zspmv) required for Blas, therefore build with lapack
  unconditionally.
* Add and enable by default libdeflate support to conform with upstream
  defaults.
* Require timezone-data which is needed, it would be missing on non glibc
  systems by default.

Closes: https://github.com/gentoo/gentoo/pull/36418
Bug: https://bugs.gentoo.org/922673
Signed-off-by: Alfred Wingate <parona <AT> protonmail.com>
Signed-off-by: David Seifert <soap <AT> gentoo.org>

 dev-lang/R/R-4.4.1.ebuild | 18 ++++++++++--------
 dev-lang/R/metadata.xml   |  3 +++
 2 files changed, 13 insertions(+), 8 deletions(-)

diff --git a/dev-lang/R/R-4.4.1.ebuild b/dev-lang/R/R-4.4.1.ebuild
index 3a4567f726de..6282a9ecd337 100644
--- a/dev-lang/R/R-4.4.1.ebuild
+++ b/dev-lang/R/R-4.4.1.ebuild
@@ -18,7 +18,7 @@ SRC_URI="
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
 KEYWORDS="~amd64 ~arm64 ~hppa ~ia64 ~loong ~sparc ~x86 ~amd64-linux ~x86-linux ~arm64-macos ~x64-macos"
-IUSE="cairo doc icu java jpeg lapack lto minimal nls openmp perl png prefix profile readline test tiff tk X"
+IUSE="cairo doc icu java jpeg +libdeflate lto minimal nls openmp perl png prefix profile readline test tiff tk X"
 
 REQUIRED_USE="
 	png? ( || ( cairo X ) )
@@ -37,23 +37,26 @@ DEPEND="
 	dev-libs/libpcre2:=
 	>=dev-libs/tre-0.8.0_p20210321[approx]
 	net-misc/curl
-	virtual/blas
 	sys-libs/zlib[minizip]
 	sys-apps/coreutils
+	sys-libs/timezone-data
+	virtual/blas
+	virtual/lapack
 	cairo? (
 		x11-libs/cairo:=[X=]
 		x11-libs/pango:=
 	)
 	icu? ( dev-libs/icu:= )
 	jpeg? ( media-libs/libjpeg-turbo:= )
-	kernel_linux? ( net-libs/libtirpc )
-	lapack? ( virtual/lapack )
+	kernel_linux? ( net-libs/libtirpc:= )
+	libdeflate? ( app-arch/libdeflate )
 	perl? ( dev-lang/perl )
 	png? ( media-libs/libpng:= )
 	readline? ( sys-libs/readline:= )
 	tiff? ( media-libs/tiff:= )
 	tk? ( dev-lang/tk:= )
 	X? (
+		x11-libs/libX11
 		x11-libs/libXmu
 		x11-libs/libXt
 	)"
@@ -108,9 +111,6 @@ src_prepare() {
 	sed -e 's:\.\./manual/:manual/:g' \
 		-i $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
 
-	use lapack &&
-		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
-
 	use perl &&
 		export PERL5LIB="${S}/share/perl:${PERL5LIB:+:}${PERL5LIB}"
 
@@ -145,9 +145,11 @@ src_configure() {
 		--disable-R-framework \
 		--disable-R-static-lib \
 		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
+		--with-lapack="$($(tc-getPKG_CONFIG) --libs lapack)" \
 		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
 		--with-system-tre \
 		--without-aqua \
+		--without-newAccelerate \
 		$(use_enable java) \
 		$(use_enable lto lto R) \
 		$(use_enable nls) \
@@ -157,7 +159,7 @@ src_configure() {
 		$(use_with cairo) \
 		$(use_with icu ICU) \
 		$(use_with jpeg jpeglib) \
-		$(use_with lapack) \
+		$(use_with libdeflate libdeflate-compression) \
 		$(use_with !minimal recommended-packages) \
 		$(use_with png libpng) \
 		$(use_with readline) \

diff --git a/dev-lang/R/metadata.xml b/dev-lang/R/metadata.xml
index c5ab836c4412..442394218fff 100644
--- a/dev-lang/R/metadata.xml
+++ b/dev-lang/R/metadata.xml
@@ -24,4 +24,7 @@
 	<upstream>
 		<remote-id type="github">wch/r-source</remote-id>
 	</upstream>
+	<use>
+		<flag name="libdeflate">Use <pkg>app-arch/libdeflate</pkg> rather than <pkg>sys-libs/zlib</pkg> for lazy-loaded R objects.</flag>
+	</use>
 </pkgmetadata>


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2024-06-23  1:48 David Seifert
  0 siblings, 0 replies; 99+ messages in thread
From: David Seifert @ 2024-06-23  1:48 UTC (permalink / raw
  To: gentoo-commits

commit:     e091733b36fe39f03f35aba21d1f0f57a7e5f605
Author:     David Seifert <soap <AT> gentoo <DOT> org>
AuthorDate: Sun Jun 23 01:48:27 2024 +0000
Commit:     David Seifert <soap <AT> gentoo <DOT> org>
CommitDate: Sun Jun 23 01:48:27 2024 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=e091733b

dev-lang/R: add 4.4.1

Closes: https://bugs.gentoo.org/930652
Signed-off-by: David Seifert <soap <AT> gentoo.org>

 dev-lang/R/Manifest       |   1 +
 dev-lang/R/R-4.4.1.ebuild | 246 ++++++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 247 insertions(+)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index 7aafccd7e1f5..216eb74b7d5c 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,3 +1,4 @@
 DIST R-4.3.1.tar.gz 34899964 BLAKE2B 7aaacad01ce59e2faa46c4b830c10d2df8e4a3a1d4f11cf2aa622ceb53876f1e702dff94a820ca954ec29f53d58fa7e135ef15e8257602c50f2642b0a0c0a86a SHA512 f571c378dbdd675e267ef4419bb1141198924dadc08297c93c8dff58504994604918b3e045bb7139ba473972a063a68ed1c7426f37d4e8208b79358561d34d77
 DIST R-4.3.2.tar.gz 35039225 BLAKE2B 2de3af9013c8648c118a1efe673b618aef84a694c6865657faef5b0ca5f780ef5273bb00b607f587219ee30a11f01ccc3b730b9124847242b9d9550de471f58c SHA512 125114357f20d4a3248aee86727768d1dc15e07e44353f8a68fe2ef1fedae508e85d944301d00c0edd61e8b012b0b3cdcde53ac60be903713f96542d83ad5b1d
+DIST R-4.4.1.tar.gz 37353459 BLAKE2B 2c44fcab719cc2a2cef4566fd4e6c22386f02827a41045ffa074ca2a6883089275354644bce47c9978ef5c96e7b9b21576e946500746c27dc00946ef3cde4fce SHA512 cc30172227b7d89a9d6e9d65c8622b2042bcbbf3f1b5e36c7460f60958a1a0589980a1867ec9989df2589c1618233f3382d4732700b147361ace3be6680b5643
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06

diff --git a/dev-lang/R/R-4.4.1.ebuild b/dev-lang/R/R-4.4.1.ebuild
new file mode 100644
index 000000000000..3a4567f726de
--- /dev/null
+++ b/dev-lang/R/R-4.4.1.ebuild
@@ -0,0 +1,246 @@
+# Copyright 1999-2024 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="
+	https://cran.r-project.org/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 ~loong ~sparc ~x86 ~amd64-linux ~x86-linux ~arm64-macos ~x64-macos"
+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-misc/curl
+	virtual/blas
+	sys-libs/zlib[minizip]
+	sys-apps/coreutils
+	cairo? (
+		x11-libs/cairo:=[X=]
+		x11-libs/pango:=
+	)
+	icu? ( dev-libs/icu:= )
+	jpeg? ( media-libs/libjpeg-turbo:= )
+	kernel_linux? ( net-libs/libtirpc )
+	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
+	)"
+RDEPEND="${DEPEND}
+	java? ( >=virtual/jre-1.8:* )"
+BDEPEND="
+	sys-apps/which
+	virtual/pkgconfig
+	doc? (
+		virtual/latex-base
+		dev-texlive/texlive-fontsrecommended
+	)
+	test? ( virtual/latex-base )"
+
+PATCHES=(
+	"${FILESDIR}"/R-4.3.0-parallel.patch
+	"${FILESDIR}"/R-4.3.0-no-LDFLAGS-in-libR-pkg-config.patch
+	"${FILESDIR}"/R-4.3.0-no-gzip-doc.patch
+)
+
+# false positive, the linking step fails (as it should)
+QA_CONFIG_IMPL_DECL_SKIP=( iconvlist )
+
+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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
+
+	use lapack &&
+		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+	use perl &&
+		export PERL5LIB="${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 \
+		--without-aqua \
+		$(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 -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
+}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2024-01-26 12:23 Sam James
  0 siblings, 0 replies; 99+ messages in thread
From: Sam James @ 2024-01-26 12:23 UTC (permalink / raw
  To: gentoo-commits

commit:     dc11e9bfe5a8688c3c998917f85e29dbb831db17
Author:     Sam James <sam <AT> gentoo <DOT> org>
AuthorDate: Fri Jan 26 12:23:06 2024 +0000
Commit:     Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Fri Jan 26 12:23:16 2024 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=dc11e9bf

dev-lang/R: BDEPEND on which

`configure: error: which is required but missing`

Signed-off-by: Sam James <sam <AT> gentoo.org>

 dev-lang/R/R-4.3.1-r1.ebuild | 3 ++-
 dev-lang/R/R-4.3.2-r1.ebuild | 3 ++-
 2 files changed, 4 insertions(+), 2 deletions(-)

diff --git a/dev-lang/R/R-4.3.1-r1.ebuild b/dev-lang/R/R-4.3.1-r1.ebuild
index 1a0d799e0324..ae4ae9624145 100644
--- a/dev-lang/R/R-4.3.1-r1.ebuild
+++ b/dev-lang/R/R-4.3.1-r1.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2023 Gentoo Authors
+# Copyright 1999-2024 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=8
@@ -60,6 +60,7 @@ DEPEND="
 RDEPEND="${DEPEND}
 	java? ( >=virtual/jre-1.8:* )"
 BDEPEND="
+	sys-apps/which
 	virtual/pkgconfig
 	doc? (
 		virtual/latex-base

diff --git a/dev-lang/R/R-4.3.2-r1.ebuild b/dev-lang/R/R-4.3.2-r1.ebuild
index 4d5f89e84df5..3a4567f726de 100644
--- a/dev-lang/R/R-4.3.2-r1.ebuild
+++ b/dev-lang/R/R-4.3.2-r1.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2023 Gentoo Authors
+# Copyright 1999-2024 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=8
@@ -60,6 +60,7 @@ DEPEND="
 RDEPEND="${DEPEND}
 	java? ( >=virtual/jre-1.8:* )"
 BDEPEND="
+	sys-apps/which
 	virtual/pkgconfig
 	doc? (
 		virtual/latex-base


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2023-12-22 17:47 Arthur Zamarin
  0 siblings, 0 replies; 99+ messages in thread
From: Arthur Zamarin @ 2023-12-22 17:47 UTC (permalink / raw
  To: gentoo-commits

commit:     7bd113e8146ea48469ef8061322fc7bf2acf0bc4
Author:     Arthur Zamarin <arthurzam <AT> gentoo <DOT> org>
AuthorDate: Fri Dec 22 17:46:15 2023 +0000
Commit:     Arthur Zamarin <arthurzam <AT> gentoo <DOT> org>
CommitDate: Fri Dec 22 17:47:37 2023 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=7bd113e8

dev-lang/R: remove mention of app-misc/realpath

Bug: https://bugs.gentoo.org/908406
Signed-off-by: Arthur Zamarin <arthurzam <AT> gentoo.org>

 dev-lang/R/{R-4.3.1.ebuild => R-4.3.1-r1.ebuild} | 5 +----
 dev-lang/R/{R-4.3.2.ebuild => R-4.3.2-r1.ebuild} | 5 +----
 2 files changed, 2 insertions(+), 8 deletions(-)

diff --git a/dev-lang/R/R-4.3.1.ebuild b/dev-lang/R/R-4.3.1-r1.ebuild
similarity index 99%
rename from dev-lang/R/R-4.3.1.ebuild
rename to dev-lang/R/R-4.3.1-r1.ebuild
index 35b5a00630bd..1a0d799e0324 100644
--- a/dev-lang/R/R-4.3.1.ebuild
+++ b/dev-lang/R/R-4.3.1-r1.ebuild
@@ -39,10 +39,7 @@ DEPEND="
 	net-misc/curl
 	virtual/blas
 	sys-libs/zlib[minizip]
-	|| (
-		sys-apps/coreutils
-		app-misc/realpath
-	)
+	sys-apps/coreutils
 	cairo? (
 		x11-libs/cairo:=[X=]
 		x11-libs/pango:=

diff --git a/dev-lang/R/R-4.3.2.ebuild b/dev-lang/R/R-4.3.2-r1.ebuild
similarity index 99%
rename from dev-lang/R/R-4.3.2.ebuild
rename to dev-lang/R/R-4.3.2-r1.ebuild
index fed391461734..4d5f89e84df5 100644
--- a/dev-lang/R/R-4.3.2.ebuild
+++ b/dev-lang/R/R-4.3.2-r1.ebuild
@@ -39,10 +39,7 @@ DEPEND="
 	net-misc/curl
 	virtual/blas
 	sys-libs/zlib[minizip]
-	|| (
-		sys-apps/coreutils
-		app-misc/realpath
-	)
+	sys-apps/coreutils
 	cairo? (
 		x11-libs/cairo:=[X=]
 		x11-libs/pango:=


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2023-11-02 12:57 David Seifert
  0 siblings, 0 replies; 99+ messages in thread
From: David Seifert @ 2023-11-02 12:57 UTC (permalink / raw
  To: gentoo-commits

commit:     d9baaef07c8a46d331f156d87d35c2e827febc6b
Author:     David Seifert <soap <AT> gentoo <DOT> org>
AuthorDate: Thu Nov  2 12:57:29 2023 +0000
Commit:     David Seifert <soap <AT> gentoo <DOT> org>
CommitDate: Thu Nov  2 12:57:29 2023 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=d9baaef0

dev-lang/R: add 4.3.2

Signed-off-by: David Seifert <soap <AT> gentoo.org>

 dev-lang/R/Manifest       |   1 +
 dev-lang/R/R-4.3.2.ebuild | 248 ++++++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 249 insertions(+)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index 8a29505056cc..7aafccd7e1f5 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,2 +1,3 @@
 DIST R-4.3.1.tar.gz 34899964 BLAKE2B 7aaacad01ce59e2faa46c4b830c10d2df8e4a3a1d4f11cf2aa622ceb53876f1e702dff94a820ca954ec29f53d58fa7e135ef15e8257602c50f2642b0a0c0a86a SHA512 f571c378dbdd675e267ef4419bb1141198924dadc08297c93c8dff58504994604918b3e045bb7139ba473972a063a68ed1c7426f37d4e8208b79358561d34d77
+DIST R-4.3.2.tar.gz 35039225 BLAKE2B 2de3af9013c8648c118a1efe673b618aef84a694c6865657faef5b0ca5f780ef5273bb00b607f587219ee30a11f01ccc3b730b9124847242b9d9550de471f58c SHA512 125114357f20d4a3248aee86727768d1dc15e07e44353f8a68fe2ef1fedae508e85d944301d00c0edd61e8b012b0b3cdcde53ac60be903713f96542d83ad5b1d
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06

diff --git a/dev-lang/R/R-4.3.2.ebuild b/dev-lang/R/R-4.3.2.ebuild
new file mode 100644
index 000000000000..fed391461734
--- /dev/null
+++ b/dev-lang/R/R-4.3.2.ebuild
@@ -0,0 +1,248 @@
+# Copyright 1999-2023 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="
+	https://cran.r-project.org/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 ~loong ~sparc ~x86 ~amd64-linux ~x86-linux ~arm64-macos ~x64-macos"
+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-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:= )
+	kernel_linux? ( net-libs/libtirpc )
+	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
+	)"
+RDEPEND="${DEPEND}
+	java? ( >=virtual/jre-1.8:* )"
+BDEPEND="
+	virtual/pkgconfig
+	doc? (
+		virtual/latex-base
+		dev-texlive/texlive-fontsrecommended
+	)
+	test? ( virtual/latex-base )"
+
+PATCHES=(
+	"${FILESDIR}"/R-4.3.0-parallel.patch
+	"${FILESDIR}"/R-4.3.0-no-LDFLAGS-in-libR-pkg-config.patch
+	"${FILESDIR}"/R-4.3.0-no-gzip-doc.patch
+)
+
+# false positive, the linking step fails (as it should)
+QA_CONFIG_IMPL_DECL_SKIP=( iconvlist )
+
+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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
+
+	use lapack &&
+		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+	use perl &&
+		export PERL5LIB="${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 \
+		--without-aqua \
+		$(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 -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
+}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2023-09-09 19:26 David Seifert
  0 siblings, 0 replies; 99+ messages in thread
From: David Seifert @ 2023-09-09 19:26 UTC (permalink / raw
  To: gentoo-commits

commit:     13d8c46929e01d11398b0d366fb775d8ca6cfb35
Author:     David Seifert <soap <AT> gentoo <DOT> org>
AuthorDate: Sat Sep  9 19:26:35 2023 +0000
Commit:     David Seifert <soap <AT> gentoo <DOT> org>
CommitDate: Sat Sep  9 19:26:35 2023 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=13d8c469

dev-lang/R: drop 4.3.0

Signed-off-by: David Seifert <soap <AT> gentoo.org>

 dev-lang/R/Manifest       |   1 -
 dev-lang/R/R-4.3.0.ebuild | 247 ----------------------------------------------
 2 files changed, 248 deletions(-)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index eba3d04375b7..8a29505056cc 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,3 +1,2 @@
-DIST R-4.3.0.tar.gz 34821768 BLAKE2B 3505c8357419355fddb8aadbf0952c492e3e38d649d6261478d6187c94ff71110089ec0933a31dd2f7258e58a1d0864a68cb4d7b6cdefc54e5add55d0d62db10 SHA512 7f9bc8360818d7fdf05e26a4213df01468669514a4c2ad62dee358f53dcfa05a71ee72241db91fed59574c26d7caee5d3e0717637e1666daec99446e42c07813
 DIST R-4.3.1.tar.gz 34899964 BLAKE2B 7aaacad01ce59e2faa46c4b830c10d2df8e4a3a1d4f11cf2aa622ceb53876f1e702dff94a820ca954ec29f53d58fa7e135ef15e8257602c50f2642b0a0c0a86a SHA512 f571c378dbdd675e267ef4419bb1141198924dadc08297c93c8dff58504994604918b3e045bb7139ba473972a063a68ed1c7426f37d4e8208b79358561d34d77
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06

diff --git a/dev-lang/R/R-4.3.0.ebuild b/dev-lang/R/R-4.3.0.ebuild
deleted file mode 100644
index 54725bb77495..000000000000
--- a/dev-lang/R/R-4.3.0.ebuild
+++ /dev/null
@@ -1,247 +0,0 @@
-# Copyright 1999-2023 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 ~loong 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-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:= )
-	kernel_linux? ( net-libs/libtirpc )
-	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
-	)"
-RDEPEND="${DEPEND}
-	java? ( >=virtual/jre-1.8:* )"
-BDEPEND="
-	virtual/pkgconfig
-	doc? (
-		virtual/latex-base
-		dev-texlive/texlive-fontsrecommended
-	)
-	test? ( virtual/latex-base )"
-
-PATCHES=(
-	"${FILESDIR}"/R-4.3.0-parallel.patch
-	"${FILESDIR}"/R-4.3.0-no-LDFLAGS-in-libR-pkg-config.patch
-	"${FILESDIR}"/R-4.3.0-no-gzip-doc.patch
-)
-
-# false positive, the linking step fails (as it should)
-QA_CONFIG_IMPL_DECL_SKIP=( iconvlist )
-
-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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
-
-	use lapack &&
-		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
-
-	use perl &&
-		export PERL5LIB="${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 -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
-}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2023-09-09 19:24 Arthur Zamarin
  0 siblings, 0 replies; 99+ messages in thread
From: Arthur Zamarin @ 2023-09-09 19:24 UTC (permalink / raw
  To: gentoo-commits

commit:     64d56af7bdd65337811f5e34bb706f28e1e2bc29
Author:     Arthur Zamarin <arthurzam <AT> gentoo <DOT> org>
AuthorDate: Sat Sep  9 19:23:40 2023 +0000
Commit:     Arthur Zamarin <arthurzam <AT> gentoo <DOT> org>
CommitDate: Sat Sep  9 19:23:40 2023 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=64d56af7

dev-lang/R: Stabilize 4.3.1 arm64, #913676

Signed-off-by: Arthur Zamarin <arthurzam <AT> gentoo.org>

 dev-lang/R/R-4.3.1.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.3.1.ebuild b/dev-lang/R/R-4.3.1.ebuild
index 19b9f109ee87..c8b3bb1617ad 100644
--- a/dev-lang/R/R-4.3.1.ebuild
+++ b/dev-lang/R/R-4.3.1.ebuild
@@ -17,7 +17,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 ~arm64 ~hppa ~ia64 ~loong ~sparc ~x86 ~amd64-linux ~x86-linux ~arm64-macos ~x64-macos"
+KEYWORDS="amd64 arm64 ~hppa ~ia64 ~loong ~sparc ~x86 ~amd64-linux ~x86-linux ~arm64-macos ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack lto minimal nls openmp perl png prefix profile readline test tiff tk X"
 
 REQUIRED_USE="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2023-09-09 19:24 Arthur Zamarin
  0 siblings, 0 replies; 99+ messages in thread
From: Arthur Zamarin @ 2023-09-09 19:24 UTC (permalink / raw
  To: gentoo-commits

commit:     06c14cc4d4781c6521207fe6918c89512c29e51b
Author:     Arthur Zamarin <arthurzam <AT> gentoo <DOT> org>
AuthorDate: Sat Sep  9 19:23:45 2023 +0000
Commit:     Arthur Zamarin <arthurzam <AT> gentoo <DOT> org>
CommitDate: Sat Sep  9 19:23:45 2023 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=06c14cc4

dev-lang/R: Stabilize 4.3.1 sparc, #913676

Signed-off-by: Arthur Zamarin <arthurzam <AT> gentoo.org>

 dev-lang/R/R-4.3.1.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.3.1.ebuild b/dev-lang/R/R-4.3.1.ebuild
index c8b3bb1617ad..54a13af61115 100644
--- a/dev-lang/R/R-4.3.1.ebuild
+++ b/dev-lang/R/R-4.3.1.ebuild
@@ -17,7 +17,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 arm64 ~hppa ~ia64 ~loong ~sparc ~x86 ~amd64-linux ~x86-linux ~arm64-macos ~x64-macos"
+KEYWORDS="amd64 arm64 ~hppa ~ia64 ~loong sparc ~x86 ~amd64-linux ~x86-linux ~arm64-macos ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack lto minimal nls openmp perl png prefix profile readline test tiff tk X"
 
 REQUIRED_USE="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2023-09-05 11:54 Sam James
  0 siblings, 0 replies; 99+ messages in thread
From: Sam James @ 2023-09-05 11:54 UTC (permalink / raw
  To: gentoo-commits

commit:     1e6cce05678b12eceb58099e8a82fb3f8b4edec6
Author:     Sam James <sam <AT> gentoo <DOT> org>
AuthorDate: Tue Sep  5 11:53:34 2023 +0000
Commit:     Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Tue Sep  5 11:53:34 2023 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=1e6cce05

dev-lang/R: Stabilize 4.3.1 amd64, #913676

Signed-off-by: Sam James <sam <AT> gentoo.org>

 dev-lang/R/R-4.3.1.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.3.1.ebuild b/dev-lang/R/R-4.3.1.ebuild
index aa5e48b575b8..19b9f109ee87 100644
--- a/dev-lang/R/R-4.3.1.ebuild
+++ b/dev-lang/R/R-4.3.1.ebuild
@@ -17,7 +17,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 ~arm64 ~hppa ~ia64 ~loong ~sparc ~x86 ~amd64-linux ~x86-linux ~arm64-macos ~x64-macos"
+KEYWORDS="amd64 ~arm64 ~hppa ~ia64 ~loong ~sparc ~x86 ~amd64-linux ~x86-linux ~arm64-macos ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack lto minimal nls openmp perl png prefix profile readline test tiff tk X"
 
 REQUIRED_USE="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2023-09-05  9:27 David Seifert
  0 siblings, 0 replies; 99+ messages in thread
From: David Seifert @ 2023-09-05  9:27 UTC (permalink / raw
  To: gentoo-commits

commit:     ff8208c1af9adc057011d399f79bda63e9c14e83
Author:     David Seifert <soap <AT> gentoo <DOT> org>
AuthorDate: Tue Sep  5 09:27:45 2023 +0000
Commit:     David Seifert <soap <AT> gentoo <DOT> org>
CommitDate: Tue Sep  5 09:27:45 2023 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=ff8208c1

dev-lang/R: properly indent metadata.xml

Signed-off-by: David Seifert <soap <AT> gentoo.org>

 dev-lang/R/metadata.xml | 52 ++++++++++++++++++++++++-------------------------
 1 file changed, 25 insertions(+), 27 deletions(-)

diff --git a/dev-lang/R/metadata.xml b/dev-lang/R/metadata.xml
index be129488f84f..a1ef08b1f6c4 100644
--- a/dev-lang/R/metadata.xml
+++ b/dev-lang/R/metadata.xml
@@ -1,32 +1,30 @@
 <?xml version="1.0" encoding="UTF-8"?>
 <!DOCTYPE pkgmetadata SYSTEM "https://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
-  <maintainer type="project">
-    <email>sci-mathematics@gentoo.org</email>
-    <name>Gentoo Mathematics Project</name>
-  </maintainer>
-  <use>
-    <flag name="lto">
-      Use link-time optimization for R and its recommended packages.
-    </flag>
-  </use>
-  <longdescription lang="en">
-  R is GNU S, a system for statistical computation and graphics. It
-  consists of a language plus a run-time environment with graphics, a
-  debugger, access to certain system functions, and the ability to run
-  programs stored in script files.
+	<maintainer type="project">
+		<email>sci-mathematics@gentoo.org</email>
+		<name>Gentoo Mathematics Project</name>
+	</maintainer>
+	<use>
+		<flag name="lto">Use link-time optimization for R and its recommended packages.</flag>
+	</use>
+	<longdescription lang="en">
+		R is GNU S, a system for statistical computation and graphics. It
+		consists of a language plus a run-time environment with graphics, a
+		debugger, access to certain system functions, and the ability to run
+		programs stored in script files.
 
-  The core of R is an interpreted computer language which allows
-  branching and looping as well as modular programming using functions.
-  The R distribution contains functionality for a large number of
-  statistical procedures such as: linear and generalized linear
-  models, nonlinear regression models, time series analysis, classical
-  parametric and nonparametric tests, clustering, smoothing and
-  graphical data representations. Additional modules ("add-on
-  packages") are available for a variety of specific purposes but are
-  not distributed with this package.
-  </longdescription>
-  <upstream>
-    <remote-id type="github">wch/r-source</remote-id>
-  </upstream>
+		The core of R is an interpreted computer language which allows
+		branching and looping as well as modular programming using functions.
+		The R distribution contains functionality for a large number of
+		statistical procedures such as: linear and generalized linear
+		models, nonlinear regression models, time series analysis, classical
+		parametric and nonparametric tests, clustering, smoothing and
+		graphical data representations. Additional modules ("add-on
+		packages") are available for a variety of specific purposes but are
+		not distributed with this package.
+	</longdescription>
+	<upstream>
+		<remote-id type="github">wch/r-source</remote-id>
+	</upstream>
 </pkgmetadata>


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2023-06-28 12:39 David Seifert
  0 siblings, 0 replies; 99+ messages in thread
From: David Seifert @ 2023-06-28 12:39 UTC (permalink / raw
  To: gentoo-commits

commit:     79e74f958fe51c004a3dd3a2d35dc82fa21fc415
Author:     David Seifert <soap <AT> gentoo <DOT> org>
AuthorDate: Wed Jun 28 12:39:05 2023 +0000
Commit:     David Seifert <soap <AT> gentoo <DOT> org>
CommitDate: Wed Jun 28 12:39:05 2023 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=79e74f95

dev-lang/R: ignore false positive '-Wimplicit-function-declaration'

Signed-off-by: David Seifert <soap <AT> gentoo.org>

 dev-lang/R/R-4.3.0.ebuild | 3 +++
 1 file changed, 3 insertions(+)

diff --git a/dev-lang/R/R-4.3.0.ebuild b/dev-lang/R/R-4.3.0.ebuild
index e061cc99a441..54725bb77495 100644
--- a/dev-lang/R/R-4.3.0.ebuild
+++ b/dev-lang/R/R-4.3.0.ebuild
@@ -76,6 +76,9 @@ PATCHES=(
 	"${FILESDIR}"/R-4.3.0-no-gzip-doc.patch
 )
 
+# false positive, the linking step fails (as it should)
+QA_CONFIG_IMPL_DECL_SKIP=( iconvlist )
+
 pkg_pretend() {
 	[[ ${MERGE_TYPE} != binary ]] && use openmp && tc-check-openmp
 }


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2023-06-25 15:50 Arthur Zamarin
  0 siblings, 0 replies; 99+ messages in thread
From: Arthur Zamarin @ 2023-06-25 15:50 UTC (permalink / raw
  To: gentoo-commits

commit:     bd1725952eb91bbaab5cd7123258e3ac56727d43
Author:     Arthur Zamarin <arthurzam <AT> gentoo <DOT> org>
AuthorDate: Sun Jun 25 15:50:30 2023 +0000
Commit:     Arthur Zamarin <arthurzam <AT> gentoo <DOT> org>
CommitDate: Sun Jun 25 15:50:30 2023 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=bd172595

dev-lang/R: Stabilize 4.3.0 amd64, #908850

Signed-off-by: Arthur Zamarin <arthurzam <AT> gentoo.org>

 dev-lang/R/R-4.3.0.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.3.0.ebuild b/dev-lang/R/R-4.3.0.ebuild
index ae5474fc0eb5..ca6b74443472 100644
--- a/dev-lang/R/R-4.3.0.ebuild
+++ b/dev-lang/R/R-4.3.0.ebuild
@@ -17,7 +17,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 arm64 ~hppa ~ia64 ~loong sparc ~x86 ~amd64-linux ~x86-linux"
+KEYWORDS="amd64 arm64 ~hppa ~ia64 ~loong 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="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2023-06-20  4:14 Sam James
  0 siblings, 0 replies; 99+ messages in thread
From: Sam James @ 2023-06-20  4:14 UTC (permalink / raw
  To: gentoo-commits

commit:     258525e4d1d192cb60380ff6d8e48c0132aca9ac
Author:     Sam James <sam <AT> gentoo <DOT> org>
AuthorDate: Tue Jun 20 04:14:11 2023 +0000
Commit:     Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Tue Jun 20 04:14:11 2023 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=258525e4

dev-lang/R: Stabilize 4.3.0 arm64, #908850

Signed-off-by: Sam James <sam <AT> gentoo.org>

 dev-lang/R/R-4.3.0.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.3.0.ebuild b/dev-lang/R/R-4.3.0.ebuild
index 974d22709605..5d233e3baae8 100644
--- a/dev-lang/R/R-4.3.0.ebuild
+++ b/dev-lang/R/R-4.3.0.ebuild
@@ -17,7 +17,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 ~arm64 ~hppa ~ia64 ~loong ~sparc ~x86 ~amd64-linux ~x86-linux"
+KEYWORDS="~amd64 arm64 ~hppa ~ia64 ~loong ~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="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2023-06-20  4:14 Sam James
  0 siblings, 0 replies; 99+ messages in thread
From: Sam James @ 2023-06-20  4:14 UTC (permalink / raw
  To: gentoo-commits

commit:     6aad3ee96446c3e3576f9c6ad039a44fb0cac48b
Author:     Sam James <sam <AT> gentoo <DOT> org>
AuthorDate: Tue Jun 20 04:14:12 2023 +0000
Commit:     Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Tue Jun 20 04:14:12 2023 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=6aad3ee9

dev-lang/R: Stabilize 4.3.0 sparc, #908850

Signed-off-by: Sam James <sam <AT> gentoo.org>

 dev-lang/R/R-4.3.0.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.3.0.ebuild b/dev-lang/R/R-4.3.0.ebuild
index 5d233e3baae8..ae5474fc0eb5 100644
--- a/dev-lang/R/R-4.3.0.ebuild
+++ b/dev-lang/R/R-4.3.0.ebuild
@@ -17,7 +17,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 arm64 ~hppa ~ia64 ~loong ~sparc ~x86 ~amd64-linux ~x86-linux"
+KEYWORDS="~amd64 arm64 ~hppa ~ia64 ~loong 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="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2023-05-11  9:23 David Seifert
  0 siblings, 0 replies; 99+ messages in thread
From: David Seifert @ 2023-05-11  9:23 UTC (permalink / raw
  To: gentoo-commits

commit:     2db2dd019c600aabffcb1fa8d0014081e6cffa31
Author:     David Seifert <soap <AT> gentoo <DOT> org>
AuthorDate: Thu May 11 09:23:43 2023 +0000
Commit:     David Seifert <soap <AT> gentoo <DOT> org>
CommitDate: Thu May 11 09:23:43 2023 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=2db2dd01

dev-lang/R: add 4.3.0

Closes: https://bugs.gentoo.org/905815
Signed-off-by: David Seifert <soap <AT> gentoo.org>

 dev-lang/R/Manifest       |   1 +
 dev-lang/R/R-4.3.0.ebuild | 244 ++++++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 245 insertions(+)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index c5bedc89e18b..cb99b76da339 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,4 +1,5 @@
 DIST R-4.2.1.tar.gz 37601544 BLAKE2B b898262a05c92e125c36a661a89be34b1698177832002f7aa21ccfcf0b30a06481e2154eea9e77a94b1ad8ca35c7bc4aead2be99b862dca7450acee1bec6a99f SHA512 c1baf46d22304c425dde79301183f80f99f2752300137b0b6f902c3e55e2419d5e9185c97de6e3c840a38f6345a6c334aa24161656d4a7f6fa01570390f1122f
 DIST R-4.2.2.tar.gz 33987014 BLAKE2B 083d07b055308451e32133d378abc4aea7dd6da341554dca96ed5863fe2bc937aa3faa94bbd8d3620d3e6e020f806975cbc375ca28c599bd645267b97b2a49d4 SHA512 abbf1c7d016f8e1a9a0c4ad5dee2509a164449da34729f3e98d99ad8678ab398005fb8ed20288d4a6ed1e46ad4c70ad246f31a1a07aab99ba8fc6a5f02e1a309
 DIST R-4.2.3.tar.gz 34010655 BLAKE2B 688403c693de348bdc404c0ebc2df08d3415db216f6017beca8c0408dc70830239ba26ff89f020a249c8af6471363ed742f52c816da84aac8161ec4a522df405 SHA512 060bb4e1d1f1a5a0383a3b4372ac9247c0a20285020da17cebeb40ddc54da12d5f369ea243ea04d2c6970986fe22b3f9c37fbdfb3405cd8aa4f2353091ea9c5c
+DIST R-4.3.0.tar.gz 34821768 BLAKE2B 3505c8357419355fddb8aadbf0952c492e3e38d649d6261478d6187c94ff71110089ec0933a31dd2f7258e58a1d0864a68cb4d7b6cdefc54e5add55d0d62db10 SHA512 7f9bc8360818d7fdf05e26a4213df01468669514a4c2ad62dee358f53dcfa05a71ee72241db91fed59574c26d7caee5d3e0717637e1666daec99446e42c07813
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06

diff --git a/dev-lang/R/R-4.3.0.ebuild b/dev-lang/R/R-4.3.0.ebuild
new file mode 100644
index 000000000000..974d22709605
--- /dev/null
+++ b/dev-lang/R/R-4.3.0.ebuild
@@ -0,0 +1,244 @@
+# Copyright 1999-2023 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 ~loong ~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-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:= )
+	kernel_linux? ( net-libs/libtirpc )
+	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
+	)"
+RDEPEND="${DEPEND}
+	java? ( >=virtual/jre-1.8:* )"
+BDEPEND="
+	virtual/pkgconfig
+	doc? (
+		virtual/latex-base
+		dev-texlive/texlive-fontsrecommended
+	)
+	test? ( virtual/latex-base )"
+
+PATCHES=(
+	"${FILESDIR}"/R-3.4.1-parallel.patch
+	"${FILESDIR}"/R-3.6.2-no-LDFLAGS-in-libR-pkg-config.patch
+	"${FILESDIR}"/R-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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
+
+	use lapack &&
+		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+	use perl &&
+		export PERL5LIB="${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 -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
+}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2023-05-06  9:52 Arthur Zamarin
  0 siblings, 0 replies; 99+ messages in thread
From: Arthur Zamarin @ 2023-05-06  9:52 UTC (permalink / raw
  To: gentoo-commits

commit:     180c8d3c7c5c275878602f21ea66495e67ccf8c9
Author:     Arthur Zamarin <arthurzam <AT> gentoo <DOT> org>
AuthorDate: Sat May  6 09:51:53 2023 +0000
Commit:     Arthur Zamarin <arthurzam <AT> gentoo <DOT> org>
CommitDate: Sat May  6 09:51:53 2023 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=180c8d3c

dev-lang/R: Stabilize 4.2.3 x86, #905144

Signed-off-by: Arthur Zamarin <arthurzam <AT> gentoo.org>

 dev-lang/R/R-4.2.3.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.2.3.ebuild b/dev-lang/R/R-4.2.3.ebuild
index 9f94b563f46b..352d1b8e7f62 100644
--- a/dev-lang/R/R-4.2.3.ebuild
+++ b/dev-lang/R/R-4.2.3.ebuild
@@ -17,7 +17,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 arm64 ~hppa ~ia64 ~loong sparc ~x86 ~amd64-linux ~x86-linux"
+KEYWORDS="amd64 arm64 ~hppa ~ia64 ~loong 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="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2023-05-06  9:52 Arthur Zamarin
  0 siblings, 0 replies; 99+ messages in thread
From: Arthur Zamarin @ 2023-05-06  9:52 UTC (permalink / raw
  To: gentoo-commits

commit:     b1b62615c0a237beedb4c7380f95f35402d25e97
Author:     Arthur Zamarin <arthurzam <AT> gentoo <DOT> org>
AuthorDate: Sat May  6 09:51:50 2023 +0000
Commit:     Arthur Zamarin <arthurzam <AT> gentoo <DOT> org>
CommitDate: Sat May  6 09:51:50 2023 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=b1b62615

dev-lang/R: Stabilize 4.2.3 arm64, #905144

Signed-off-by: Arthur Zamarin <arthurzam <AT> gentoo.org>

 dev-lang/R/R-4.2.3.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.2.3.ebuild b/dev-lang/R/R-4.2.3.ebuild
index ec2a8e6cd4d4..9f94b563f46b 100644
--- a/dev-lang/R/R-4.2.3.ebuild
+++ b/dev-lang/R/R-4.2.3.ebuild
@@ -17,7 +17,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 ~arm64 ~hppa ~ia64 ~loong sparc ~x86 ~amd64-linux ~x86-linux"
+KEYWORDS="amd64 arm64 ~hppa ~ia64 ~loong 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="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2023-05-06  9:51 Arthur Zamarin
  0 siblings, 0 replies; 99+ messages in thread
From: Arthur Zamarin @ 2023-05-06  9:51 UTC (permalink / raw
  To: gentoo-commits

commit:     163afea3d3e28c88ff5e7091492e7b8b968f41ee
Author:     Arthur Zamarin <arthurzam <AT> gentoo <DOT> org>
AuthorDate: Sat May  6 09:51:21 2023 +0000
Commit:     Arthur Zamarin <arthurzam <AT> gentoo <DOT> org>
CommitDate: Sat May  6 09:51:21 2023 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=163afea3

dev-lang/R: Stabilize 4.2.3 sparc, #905144

Signed-off-by: Arthur Zamarin <arthurzam <AT> gentoo.org>

 dev-lang/R/R-4.2.3.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.2.3.ebuild b/dev-lang/R/R-4.2.3.ebuild
index 3f7cb8f4f773..ec2a8e6cd4d4 100644
--- a/dev-lang/R/R-4.2.3.ebuild
+++ b/dev-lang/R/R-4.2.3.ebuild
@@ -17,7 +17,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 ~arm64 ~hppa ~ia64 ~loong ~sparc ~x86 ~amd64-linux ~x86-linux"
+KEYWORDS="amd64 ~arm64 ~hppa ~ia64 ~loong 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="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2023-04-27  6:39 Sam James
  0 siblings, 0 replies; 99+ messages in thread
From: Sam James @ 2023-04-27  6:39 UTC (permalink / raw
  To: gentoo-commits

commit:     921ecff751d2838dee3475f0fae64a9da714fb10
Author:     Sam James <sam <AT> gentoo <DOT> org>
AuthorDate: Thu Apr 27 06:39:29 2023 +0000
Commit:     Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Thu Apr 27 06:39:40 2023 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=921ecff7

dev-lang/R: Stabilize 4.2.3 amd64, #905144

Signed-off-by: Sam James <sam <AT> gentoo.org>

 dev-lang/R/R-4.2.3.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.2.3.ebuild b/dev-lang/R/R-4.2.3.ebuild
index 5fa0d6b05b51..3f7cb8f4f773 100644
--- a/dev-lang/R/R-4.2.3.ebuild
+++ b/dev-lang/R/R-4.2.3.ebuild
@@ -17,7 +17,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 ~arm64 ~hppa ~ia64 ~loong ~sparc ~x86 ~amd64-linux ~x86-linux"
+KEYWORDS="amd64 ~arm64 ~hppa ~ia64 ~loong ~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="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2023-03-24 20:21 Michael Orlitzky
  0 siblings, 0 replies; 99+ messages in thread
From: Michael Orlitzky @ 2023-03-24 20:21 UTC (permalink / raw
  To: gentoo-commits

commit:     3db2c60c9cd218dabe6673188e35eda0e25ab719
Author:     Michael Orlitzky <mjo <AT> gentoo <DOT> org>
AuthorDate: Fri Mar 24 20:05:31 2023 +0000
Commit:     Michael Orlitzky <mjo <AT> gentoo <DOT> org>
CommitDate: Fri Mar 24 20:19:41 2023 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=3db2c60c

dev-lang/R: add 4.2.3

I've also dropped R-3.4.1-rmath-shared.patch in this version. It was
rejected upstream as-is, and while I thought there was an --as-needed
fix hidden in there, I was apparently mistaken. It builds fine now
without the patch.

Signed-off-by: Michael Orlitzky <mjo <AT> gentoo.org>

 dev-lang/R/Manifest       |   1 +
 dev-lang/R/R-4.2.3.ebuild | 247 ++++++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 248 insertions(+)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index b3d53118aec4..c5bedc89e18b 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,3 +1,4 @@
 DIST R-4.2.1.tar.gz 37601544 BLAKE2B b898262a05c92e125c36a661a89be34b1698177832002f7aa21ccfcf0b30a06481e2154eea9e77a94b1ad8ca35c7bc4aead2be99b862dca7450acee1bec6a99f SHA512 c1baf46d22304c425dde79301183f80f99f2752300137b0b6f902c3e55e2419d5e9185c97de6e3c840a38f6345a6c334aa24161656d4a7f6fa01570390f1122f
 DIST R-4.2.2.tar.gz 33987014 BLAKE2B 083d07b055308451e32133d378abc4aea7dd6da341554dca96ed5863fe2bc937aa3faa94bbd8d3620d3e6e020f806975cbc375ca28c599bd645267b97b2a49d4 SHA512 abbf1c7d016f8e1a9a0c4ad5dee2509a164449da34729f3e98d99ad8678ab398005fb8ed20288d4a6ed1e46ad4c70ad246f31a1a07aab99ba8fc6a5f02e1a309
+DIST R-4.2.3.tar.gz 34010655 BLAKE2B 688403c693de348bdc404c0ebc2df08d3415db216f6017beca8c0408dc70830239ba26ff89f020a249c8af6471363ed742f52c816da84aac8161ec4a522df405 SHA512 060bb4e1d1f1a5a0383a3b4372ac9247c0a20285020da17cebeb40ddc54da12d5f369ea243ea04d2c6970986fe22b3f9c37fbdfb3405cd8aa4f2353091ea9c5c
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06

diff --git a/dev-lang/R/R-4.2.3.ebuild b/dev-lang/R/R-4.2.3.ebuild
new file mode 100644
index 000000000000..f07363fe354d
--- /dev/null
+++ b/dev-lang/R/R-4.2.3.ebuild
@@ -0,0 +1,247 @@
+# Copyright 1999-2023 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 ~loong ~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-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:= )
+	kernel_linux? ( net-libs/libtirpc )
+	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
+	)"
+RDEPEND="${DEPEND}
+	java? ( >=virtual/jre-1.8:* )"
+BDEPEND="
+	virtual/pkgconfig
+	doc? (
+		virtual/latex-base
+		dev-texlive/texlive-fontsrecommended
+	)
+	test? ( virtual/latex-base )"
+
+PATCHES=(
+	"${FILESDIR}"/R-3.4.1-parallel.patch
+	"${FILESDIR}"/R-3.6.2-no-LDFLAGS-in-libR-pkg-config.patch
+	"${FILESDIR}"/R-3.6.2-no-gzip-doc.patch
+	"${FILESDIR}"/R-4.2.2-browser-pdf-prefs.patch
+	"${FILESDIR}"/R-4.2.2-isspace-without-readline.patch
+	"${FILESDIR}/"R-4.2.2-parallel-rmath-h-install.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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
+
+	use lapack &&
+		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+	use perl &&
+		export PERL5LIB="${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 -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
+}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2023-03-07  3:46 WANG Xuerui
  0 siblings, 0 replies; 99+ messages in thread
From: WANG Xuerui @ 2023-03-07  3:46 UTC (permalink / raw
  To: gentoo-commits

commit:     5c4853d79254dc2ec703f07d4b53a50dcf576616
Author:     WANG Xuerui <xen0n <AT> gentoo <DOT> org>
AuthorDate: Tue Mar  7 02:40:46 2023 +0000
Commit:     WANG Xuerui <xen0n <AT> gentoo <DOT> org>
CommitDate: Tue Mar  7 03:40:19 2023 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=5c4853d7

dev-lang/R: keyword 4.2.2 for ~loong

Signed-off-by: WANG Xuerui <xen0n <AT> gentoo.org>

 dev-lang/R/R-4.2.2.ebuild | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/dev-lang/R/R-4.2.2.ebuild b/dev-lang/R/R-4.2.2.ebuild
index 3d3cbf497f10..0ccb36ebf04c 100644
--- a/dev-lang/R/R-4.2.2.ebuild
+++ b/dev-lang/R/R-4.2.2.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2022 Gentoo Authors
+# Copyright 1999-2023 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=8
@@ -17,7 +17,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 ~arm64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux"
+KEYWORDS="~amd64 ~arm64 ~hppa ~ia64 ~loong ~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="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-11-22  7:57 Sam James
  0 siblings, 0 replies; 99+ messages in thread
From: Sam James @ 2022-11-22  7:57 UTC (permalink / raw
  To: gentoo-commits

commit:     1c28bf64f74fad8c4dfb3856390c513e71d26f9d
Author:     Sam James <sam <AT> gentoo <DOT> org>
AuthorDate: Tue Nov 22 07:19:01 2022 +0000
Commit:     Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Tue Nov 22 07:57:05 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=1c28bf64

dev-lang/R: add github upstream metadata

Mirror but it's by someone from rstdio and motivation is to make
looking up code easier.

Signed-off-by: Sam James <sam <AT> gentoo.org>

 dev-lang/R/metadata.xml | 3 +++
 1 file changed, 3 insertions(+)

diff --git a/dev-lang/R/metadata.xml b/dev-lang/R/metadata.xml
index 775b0dcb2af0..be129488f84f 100644
--- a/dev-lang/R/metadata.xml
+++ b/dev-lang/R/metadata.xml
@@ -26,4 +26,7 @@
   packages") are available for a variety of specific purposes but are
   not distributed with this package.
   </longdescription>
+  <upstream>
+    <remote-id type="github">wch/r-source</remote-id>
+  </upstream>
 </pkgmetadata>


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-10-26 22:16 Sam James
  0 siblings, 0 replies; 99+ messages in thread
From: Sam James @ 2022-10-26 22:16 UTC (permalink / raw
  To: gentoo-commits

commit:     cbbe90010a5b4d6cf6db8503c31f048717d53860
Author:     Sam James <sam <AT> gentoo <DOT> org>
AuthorDate: Wed Oct 26 22:16:37 2022 +0000
Commit:     Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Wed Oct 26 22:16:47 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=cbbe9001

dev-lang/R: make libtirpc dep linux-only

Unnecessary on macOS.

Bug: https://bugs.gentoo.org/878101
Signed-off-by: Sam James <sam <AT> gentoo.org>

 dev-lang/R/R-4.2.1.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.2.1.ebuild b/dev-lang/R/R-4.2.1.ebuild
index 1ee01869a453..0fda9d9aacd0 100644
--- a/dev-lang/R/R-4.2.1.ebuild
+++ b/dev-lang/R/R-4.2.1.ebuild
@@ -35,7 +35,6 @@ DEPEND="
 	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]
@@ -49,6 +48,7 @@ DEPEND="
 	)
 	icu? ( dev-libs/icu:= )
 	jpeg? ( media-libs/libjpeg-turbo:= )
+	kernel_linux? ( net-libs/libtirpc )
 	lapack? ( virtual/lapack )
 	perl? ( dev-lang/perl )
 	png? ( media-libs/libpng:= )


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-09-01  9:19 David Seifert
  0 siblings, 0 replies; 99+ messages in thread
From: David Seifert @ 2022-09-01  9:19 UTC (permalink / raw
  To: gentoo-commits

commit:     7e99df1dab52b8b73ee252e80f5effaa630414c7
Author:     David Seifert <soap <AT> gentoo <DOT> org>
AuthorDate: Thu Sep  1 09:19:34 2022 +0000
Commit:     David Seifert <soap <AT> gentoo <DOT> org>
CommitDate: Thu Sep  1 09:19:34 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=7e99df1d

dev-lang/R: drop 4.2.0

Signed-off-by: David Seifert <soap <AT> gentoo.org>

 dev-lang/R/Manifest       |   1 -
 dev-lang/R/R-4.2.0.ebuild | 256 ----------------------------------------------
 2 files changed, 257 deletions(-)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index 22bcd1fa7d38..8895d614d77a 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,3 +1,2 @@
-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-4.2.0.ebuild b/dev-lang/R/R-4.2.0.ebuild
deleted file mode 100644
index cf1c175b7af2..000000000000
--- a/dev-lang/R/R-4.2.0.ebuild
+++ /dev/null
@@ -1,256 +0,0 @@
-# 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).
-BDEPEND="
-	virtual/pkgconfig
-	doc? (
-		virtual/latex-base
-		dev-texlive/texlive-fontsrecommended
-	)
-	test? ( virtual/latex-base )"
-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="${DEPEND}
-	java? ( >=virtual/jre-1.8:* )"
-
-PATCHES=(
-	"${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
-}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-09-01  8:47 Agostino Sarubbo
  0 siblings, 0 replies; 99+ messages in thread
From: Agostino Sarubbo @ 2022-09-01  8:47 UTC (permalink / raw
  To: gentoo-commits

commit:     ff5ef68d7962be04887df2122808065bb2af1cf2
Author:     Agostino Sarubbo <ago <AT> gentoo <DOT> org>
AuthorDate: Thu Sep  1 08:47:50 2022 +0000
Commit:     Agostino Sarubbo <ago <AT> gentoo <DOT> org>
CommitDate: Thu Sep  1 08:47:50 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=ff5ef68d

dev-lang/R: x86 stable wrt bug #867418

Signed-off-by: Agostino Sarubbo <ago <AT> gentoo.org>

 dev-lang/R/R-4.2.1.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.2.1.ebuild b/dev-lang/R/R-4.2.1.ebuild
index 281c8e03d09f..cfb2a07ff6bc 100644
--- a/dev-lang/R/R-4.2.1.ebuild
+++ b/dev-lang/R/R-4.2.1.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 arm64 ~hppa ~ia64 sparc ~x86 ~amd64-linux ~x86-linux"
+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="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-08-30 16:09 Sam James
  0 siblings, 0 replies; 99+ messages in thread
From: Sam James @ 2022-08-30 16:09 UTC (permalink / raw
  To: gentoo-commits

commit:     7709e23d5eac9e43fe3c2315489accbf6022adea
Author:     Sam James <sam <AT> gentoo <DOT> org>
AuthorDate: Tue Aug 30 16:09:11 2022 +0000
Commit:     Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Tue Aug 30 16:09:11 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=7709e23d

dev-lang/R: Stabilize 4.2.1 amd64, #867418

Signed-off-by: Sam James <sam <AT> gentoo.org>

 dev-lang/R/R-4.2.1.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.2.1.ebuild b/dev-lang/R/R-4.2.1.ebuild
index 2722988fa762..281c8e03d09f 100644
--- a/dev-lang/R/R-4.2.1.ebuild
+++ b/dev-lang/R/R-4.2.1.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 arm64 ~hppa ~ia64 sparc ~x86 ~amd64-linux ~x86-linux"
+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="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-08-30 11:48 Arthur Zamarin
  0 siblings, 0 replies; 99+ messages in thread
From: Arthur Zamarin @ 2022-08-30 11:48 UTC (permalink / raw
  To: gentoo-commits

commit:     406b043ee689e53b255156a79e249331e639511f
Author:     Arthur Zamarin <arthurzam <AT> gentoo <DOT> org>
AuthorDate: Tue Aug 30 11:48:34 2022 +0000
Commit:     Arthur Zamarin <arthurzam <AT> gentoo <DOT> org>
CommitDate: Tue Aug 30 11:48:34 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=406b043e

dev-lang/R: Stabilize 4.2.1 sparc, #867418

Signed-off-by: Arthur Zamarin <arthurzam <AT> gentoo.org>

 dev-lang/R/R-4.2.1.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.2.1.ebuild b/dev-lang/R/R-4.2.1.ebuild
index 0e287c705ea5..2722988fa762 100644
--- a/dev-lang/R/R-4.2.1.ebuild
+++ b/dev-lang/R/R-4.2.1.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 arm64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux"
+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="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-08-30 11:09 Arthur Zamarin
  0 siblings, 0 replies; 99+ messages in thread
From: Arthur Zamarin @ 2022-08-30 11:09 UTC (permalink / raw
  To: gentoo-commits

commit:     2f171e28c4ec0c353fcb6488da1e18ff2034995d
Author:     Arthur Zamarin <arthurzam <AT> gentoo <DOT> org>
AuthorDate: Tue Aug 30 11:09:15 2022 +0000
Commit:     Arthur Zamarin <arthurzam <AT> gentoo <DOT> org>
CommitDate: Tue Aug 30 11:09:15 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=2f171e28

dev-lang/R: Stabilize 4.2.1 arm64, #867418

Signed-off-by: Arthur Zamarin <arthurzam <AT> gentoo.org>

 dev-lang/R/R-4.2.1.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.2.1.ebuild b/dev-lang/R/R-4.2.1.ebuild
index bdc4ef782ed2..0e287c705ea5 100644
--- a/dev-lang/R/R-4.2.1.ebuild
+++ b/dev-lang/R/R-4.2.1.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 ~arm64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux"
+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="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-07-13 18:12 David Seifert
  0 siblings, 0 replies; 99+ messages in thread
From: David Seifert @ 2022-07-13 18:12 UTC (permalink / raw
  To: gentoo-commits

commit:     efe0146dc37c4c0182fdd1baebddc99500b0a050
Author:     David Seifert <soap <AT> gentoo <DOT> org>
AuthorDate: Wed Jul 13 18:12:05 2022 +0000
Commit:     David Seifert <soap <AT> gentoo <DOT> org>
CommitDate: Wed Jul 13 18:12:05 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=efe0146d

dev-lang/R: add 4.2.1

Closes: https://bugs.gentoo.org/856622
Signed-off-by: David Seifert <soap <AT> gentoo.org>

 dev-lang/R/Manifest       |   1 +
 dev-lang/R/R-4.2.1.ebuild | 254 ++++++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 255 insertions(+)

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
+}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-06-19  8:09 David Seifert
  0 siblings, 0 replies; 99+ messages in thread
From: David Seifert @ 2022-06-19  8:09 UTC (permalink / raw
  To: gentoo-commits

commit:     c3aa5c3fb2b658ec7e4793fff628f5c2f627da9e
Author:     David Seifert <soap <AT> gentoo <DOT> org>
AuthorDate: Sun Jun 19 08:08:39 2022 +0000
Commit:     David Seifert <soap <AT> gentoo <DOT> org>
CommitDate: Sun Jun 19 08:08:39 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=c3aa5c3f

dev-lang/R: update jpeg dep

Signed-off-by: David Seifert <soap <AT> gentoo.org>

 dev-lang/R/R-4.2.0.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.2.0.ebuild b/dev-lang/R/R-4.2.0.ebuild
index 1ad97eea887e..cf1c175b7af2 100644
--- a/dev-lang/R/R-4.2.0.ebuild
+++ b/dev-lang/R/R-4.2.0.ebuild
@@ -55,7 +55,7 @@ DEPEND="
 		x11-libs/pango:=
 	)
 	icu? ( dev-libs/icu:= )
-	jpeg? ( virtual/jpeg )
+	jpeg? ( media-libs/libjpeg-turbo:= )
 	lapack? ( virtual/lapack )
 	perl? ( dev-lang/perl )
 	png? ( media-libs/libpng:= )


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-06-19  8:09 David Seifert
  0 siblings, 0 replies; 99+ messages in thread
From: David Seifert @ 2022-06-19  8:09 UTC (permalink / raw
  To: gentoo-commits

commit:     bd973b3a8ebd9c5040666f6376bd52deb813b203
Author:     David Seifert <soap <AT> gentoo <DOT> org>
AuthorDate: Sun Jun 19 08:08:38 2022 +0000
Commit:     David Seifert <soap <AT> gentoo <DOT> org>
CommitDate: Sun Jun 19 08:08:38 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=bd973b3a

dev-lang/R: drop 4.1.2-r1

Signed-off-by: David Seifert <soap <AT> gentoo.org>

 dev-lang/R/Manifest          |   1 -
 dev-lang/R/R-4.1.2-r1.ebuild | 250 -------------------------------------------
 2 files changed, 251 deletions(-)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index e0f5649bf8e5..14992cf3742a 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,3 +1,2 @@
-DIST R-4.1.2.tar.gz 34009074 BLAKE2B 7ca14b28fc40548180dde979d57f93f41fb3966697d58f686cf63e24e4cbf2de8166240952e708fc94f97846cd57bbd559b4edb688500e1db2a6704de16f508c SHA512 657c7950a88f632f1bbb08dbd0b3fb485732a25d8bbcb8a7939a40b23c7a235fdb9b46c296acaa9f72eabebe96e270ecbdcd7970fc9d3a299e6687bea45f2d3f
 DIST R-4.2.0.tar.gz 37585694 BLAKE2B 5ba4d3b9397e92b72af729d88ff562655e0dd7c547bd371638aa76d4f1701f4f8a7911d500cf4f10d87b62457f8f8ce7a946d893477ceb7268b06bd59bc10f3d SHA512 99e71dad00b63e44bfcb8dc9539ff1951809112882d9ee7e06a4e99bce2e6ceac24e8348fd598c21e6d5ab0e0629a85170cde208bfa8145af91c398ac4ef7bcd
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06

diff --git a/dev-lang/R/R-4.1.2-r1.ebuild b/dev-lang/R/R-4.1.2-r1.ebuild
deleted file mode 100644
index 4a37a3f4aad8..000000000000
--- a/dev-lang/R/R-4.1.2-r1.ebuild
+++ /dev/null
@@ -1,250 +0,0 @@
-# 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).
-BDEPEND="
-	virtual/pkgconfig
-	doc? (
-		virtual/latex-base
-		dev-texlive/texlive-fontsrecommended
-	)
-	test? ( virtual/latex-base )"
-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? ( virtual/jpeg )
-	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="${DEPEND}
-	java? ( >=virtual/jre-1.8:* )"
-
-PATCHES=(
-	"${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 [[ ${MERGE_TYPE} != binary ]] && use openmp; then
-		tc-check-openmp
-		FORTRAN_NEED_OPENMP=1
-	fi
-
-	fortran-2_pkg_setup
-
-	# avoid using existing R installation
-	unset R_HOME
-}
-
-src_prepare() {
-#	rm -r src/extra/tre || die
-
-	default
-
-	# fix packages.html for doc (gentoo bug #205103)
-	sed -e "s:../../../library:../../../../$(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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
-
-	use lapack && \
-		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
-
-	if use X; then
-		export R_BROWSER="$(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
-}
-
-pkg_postinst() {
-	if use java; then
-		einfo "Re-initializing java paths for ${P}"
-		R CMD javareconf
-	fi
-}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-06-13 21:07 Jakov Smolić
  0 siblings, 0 replies; 99+ messages in thread
From: Jakov Smolić @ 2022-06-13 21:07 UTC (permalink / raw
  To: gentoo-commits

commit:     f662aa0aa63947f3851f3f0e9a46cf4136f6f984
Author:     Jakov Smolić <jsmolic <AT> gentoo <DOT> org>
AuthorDate: Mon Jun 13 21:07:07 2022 +0000
Commit:     Jakov Smolić <jsmolic <AT> gentoo <DOT> org>
CommitDate: Mon Jun 13 21:07:07 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=f662aa0a

dev-lang/R: Stabilize 4.2.0 arm64, #851024

Signed-off-by: Jakov Smolić <jsmolic <AT> gentoo.org>

 dev-lang/R/R-4.2.0.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.2.0.ebuild b/dev-lang/R/R-4.2.0.ebuild
index fabfcdf26fc6..1ad97eea887e 100644
--- a/dev-lang/R/R-4.2.0.ebuild
+++ b/dev-lang/R/R-4.2.0.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 ~arm64 ~hppa ~ia64 sparc x86 ~amd64-linux ~x86-linux"
+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="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-06-12  8:32 Agostino Sarubbo
  0 siblings, 0 replies; 99+ messages in thread
From: Agostino Sarubbo @ 2022-06-12  8:32 UTC (permalink / raw
  To: gentoo-commits

commit:     7591054eccfda00b331c654f28421ef9186d654b
Author:     Agostino Sarubbo <ago <AT> gentoo <DOT> org>
AuthorDate: Sun Jun 12 08:31:52 2022 +0000
Commit:     Agostino Sarubbo <ago <AT> gentoo <DOT> org>
CommitDate: Sun Jun 12 08:32:19 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=7591054e

dev-lang/R: x86 stable wrt bug #851024

Package-Manager: Portage-3.0.30, Repoman-3.0.3
RepoMan-Options: --include-arches="x86"
Signed-off-by: Agostino Sarubbo <ago <AT> gentoo.org>

 dev-lang/R/R-4.2.0.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.2.0.ebuild b/dev-lang/R/R-4.2.0.ebuild
index a7a1366d455f..fabfcdf26fc6 100644
--- a/dev-lang/R/R-4.2.0.ebuild
+++ b/dev-lang/R/R-4.2.0.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 ~arm64 ~hppa ~ia64 sparc ~x86 ~amd64-linux ~x86-linux"
+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="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-06-12  8:28 Agostino Sarubbo
  0 siblings, 0 replies; 99+ messages in thread
From: Agostino Sarubbo @ 2022-06-12  8:28 UTC (permalink / raw
  To: gentoo-commits

commit:     4279db02dc8a74a308ea89891951a7f80d65223d
Author:     Agostino Sarubbo <ago <AT> gentoo <DOT> org>
AuthorDate: Sun Jun 12 08:28:37 2022 +0000
Commit:     Agostino Sarubbo <ago <AT> gentoo <DOT> org>
CommitDate: Sun Jun 12 08:28:37 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=4279db02

dev-lang/R: amd64 stable wrt bug #851024

Package-Manager: Portage-3.0.30, Repoman-3.0.3
RepoMan-Options: --include-arches="amd64"
Signed-off-by: Agostino Sarubbo <ago <AT> gentoo.org>

 dev-lang/R/R-4.2.0.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.2.0.ebuild b/dev-lang/R/R-4.2.0.ebuild
index 5607e2ee1643..a7a1366d455f 100644
--- a/dev-lang/R/R-4.2.0.ebuild
+++ b/dev-lang/R/R-4.2.0.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 ~arm64 ~hppa ~ia64 sparc ~x86 ~amd64-linux ~x86-linux"
+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="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-06-10 21:38 Jakov Smolić
  0 siblings, 0 replies; 99+ messages in thread
From: Jakov Smolić @ 2022-06-10 21:38 UTC (permalink / raw
  To: gentoo-commits

commit:     db11faa09adf5e8bc1ca7d18c72b25b22b5429b1
Author:     Jakov Smolić <jsmolic <AT> gentoo <DOT> org>
AuthorDate: Fri Jun 10 21:38:04 2022 +0000
Commit:     Jakov Smolić <jsmolic <AT> gentoo <DOT> org>
CommitDate: Fri Jun 10 21:38:25 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=db11faa0

dev-lang/R: Stabilize 4.2.0 sparc, #851024

Signed-off-by: Jakov Smolić <jsmolic <AT> gentoo.org>

 dev-lang/R/R-4.2.0.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.2.0.ebuild b/dev-lang/R/R-4.2.0.ebuild
index 28e62a99b24d..5607e2ee1643 100644
--- a/dev-lang/R/R-4.2.0.ebuild
+++ b/dev-lang/R/R-4.2.0.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 ~arm64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux"
+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="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-06-01 15:10 Michael Orlitzky
  0 siblings, 0 replies; 99+ messages in thread
From: Michael Orlitzky @ 2022-06-01 15:10 UTC (permalink / raw
  To: gentoo-commits

commit:     092a26e7dbe69f39481dbbdd86fc978aa2d94e46
Author:     Michael Orlitzky <mjo <AT> gentoo <DOT> org>
AuthorDate: Wed Jun  1 15:07:05 2022 +0000
Commit:     Michael Orlitzky <mjo <AT> gentoo <DOT> org>
CommitDate: Wed Jun  1 15:07:05 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=092a26e7

dev-lang/R: remove old "unused" R-4.0.5-r1.ebuild.

Closes: https://bugs.gentoo.org/836053
Package-Manager: Portage-3.0.30, Repoman-3.0.3
Signed-off-by: Michael Orlitzky <mjo <AT> gentoo.org>

 dev-lang/R/Manifest          |   1 -
 dev-lang/R/R-4.0.5-r1.ebuild | 243 -------------------------------------------
 2 files changed, 244 deletions(-)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index e39053606efc..e0f5649bf8e5 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,4 +1,3 @@
-DIST R-4.0.5.tar.gz 32466444 BLAKE2B 5dbbd289f4fd6347b4109eecaf65b50b5793a83edddd2cb391c20473607f136d91a8e9f4ab9e453f6927d2ca9145762920424e3a1dcea89309afde56efd5d32c SHA512 6ff5b0f9cb6b17f66cde1f5585d1b33659dbae8919d34c2e593f68a0bff4d0425aa9704d99284d103702a9cd42f613311f3a87af6b939b1af65dcec80bf2ca8c
 DIST R-4.1.2.tar.gz 34009074 BLAKE2B 7ca14b28fc40548180dde979d57f93f41fb3966697d58f686cf63e24e4cbf2de8166240952e708fc94f97846cd57bbd559b4edb688500e1db2a6704de16f508c SHA512 657c7950a88f632f1bbb08dbd0b3fb485732a25d8bbcb8a7939a40b23c7a235fdb9b46c296acaa9f72eabebe96e270ecbdcd7970fc9d3a299e6687bea45f2d3f
 DIST R-4.2.0.tar.gz 37585694 BLAKE2B 5ba4d3b9397e92b72af729d88ff562655e0dd7c547bd371638aa76d4f1701f4f8a7911d500cf4f10d87b62457f8f8ce7a946d893477ceb7268b06bd59bc10f3d SHA512 99e71dad00b63e44bfcb8dc9539ff1951809112882d9ee7e06a4e99bce2e6ceac24e8348fd598c21e6d5ab0e0629a85170cde208bfa8145af91c398ac4ef7bcd
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06

diff --git a/dev-lang/R/R-4.0.5-r1.ebuild b/dev-lang/R/R-4.0.5-r1.ebuild
deleted file mode 100644
index ea1e78006a93..000000000000
--- a/dev-lang/R/R-4.0.5-r1.ebuild
+++ /dev/null
@@ -1,243 +0,0 @@
-# Copyright 1999-2021 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=7
-
-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="http://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 minimal nls openmp perl png prefix profile readline static-libs test tiff tk X"
-
-# One test required profiling in v4.0.2, check the upstream bug:
-#
-#   https://bugs.r-project.org/bugzilla/show_bug.cgi?id=17836
-#
-REQUIRED_USE="png? ( || ( cairo X ) )
-	jpeg? ( || ( cairo X ) )
-	tiff? ( || ( cairo X ) )
-	test? ( profile )
-"
-
-# At least one package installation in the test suite requires TeX,
-# and will fail without it (bug #718056).
-BDEPEND="virtual/pkgconfig
-	doc? (
-		virtual/latex-base
-		dev-texlive/texlive-fontsrecommended
-	)
-	test? ( virtual/latex-base )"
-DEPEND="
-	app-arch/bzip2:0=
-	app-arch/xz-utils:0=
-	app-text/ghostscript-gpl
-	dev-libs/libpcre2:=
-	net-libs/libtirpc
-	net-misc/curl
-	virtual/blas:0
-	|| ( sys-apps/coreutils app-misc/realpath )
-	cairo? ( x11-libs/cairo:0=[X=] x11-libs/pango:0= )
-	icu? ( dev-libs/icu:= )
-	jpeg? ( virtual/jpeg:0 )
-	lapack? ( virtual/lapack:0 )
-	perl? ( dev-lang/perl )
-	png? ( media-libs/libpng:0= )
-	readline? ( sys-libs/readline:0= )
-	tiff? ( media-libs/tiff:0= )
-	tk? ( dev-lang/tk:0= )
-	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
-
-RDEPEND="${DEPEND}
-	sys-libs/zlib:0[minizip]
-	java? ( >=virtual/jre-1.8:* )"
-
-RESTRICT="minimal? ( test )
-	!test? ( test )"
-
-PATCHES=(
-	"${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 [[ ${MERGE_TYPE} != binary ]] && use openmp; then
-		FORTRAN_NEED_OPENMP=1
-	fi
-	fortran-2_pkg_setup
-	filter-ldflags -Wl,-Bdirect -Bdirect
-	# avoid using existing R installation
-	unset R_HOME
-	# Temporary fix for bug #419761
-	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
-		append-flags -fno-ipa-cp-clone
-	fi
-}
-
-src_prepare() {
-	default
-
-	# fix packages.html for doc (gentoo bug #205103)
-	sed -e "s:../../../library:../../../../$(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='\"${EROOT}/usr/$(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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
-
-	use lapack && \
-		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
-
-	if use X; then
-		export R_BROWSER="$(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 (OS X)
-	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 ${EROOT}/usr/$(get_libdir)/libRmath.dylib:" \
-				-i src/nmath/standalone/Makefile.in || die
-		else
-			append-ldflags -Wl,-rpath="${EROOT}/usr/$(get_libdir)/R/lib"
-		fi
-	fi
-	AT_M4DIR=m4
-	eautoreconf
-}
-
-src_configure() {
-	#	--with-system-tre \
-	# tre is patched from upstream
-	econf \
-		--enable-byte-compiled-packages \
-		--enable-R-shlib \
-		--disable-R-framework \
-		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
-		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
-		$(use_enable java) \
-		$(use_enable nls) \
-		$(use_enable openmp) \
-		$(use_enable profile R-profiling) \
-		$(use_enable profile memory-profiling) \
-		$(use_enable static-libs static) \
-		$(use_enable static-libs R-static-lib) \
-		$(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) \
-		$(use_with tk tk-config "${EPREFIX}"/usr/$(get_libdir)/tkConfig.sh) \
-		$(use_with tk tcl-config "${EPREFIX}"/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 $(use static-libs && echo static) AR="$(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/${PF}/html/manual
-	fi
-
-	cat > 99R <<-EOF
-		LDPATH=${EROOT}/usr/$(get_libdir)/${PN}/lib
-		R_HOME=${EROOT}/usr/$(get_libdir)/${PN}
-	EOF
-	doenvd 99R
-	newbashcomp "${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
-		for mod in $(find . -name "*.dylib") ; do
-			mod=${mod#./}
-			install_name_tool -id "${EPREFIX}/usr/$(get_libdir)/R/${mod}" \
-				"${mod}"
-		done
-		popd > /dev/null
-	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.
-	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.
-	INTERACTIVE_DATA=(
-		BioC_mirrors.csv
-		CRAN_mirrors.csv
-		KEYWORDS.db
-		NEWS.rds
-	)
-
-	NOCOMPRESS_DOCS=( "${INTERACTIVE_DOCS[@]}" "${INTERACTIVE_DATA[@]}" )
-
-	for f in "${NOCOMPRESS_DOCS[@]}"; do
-		docompress -x "/usr/share/doc/${PF}/${f}"
-	done
-}
-
-pkg_postinst() {
-	if use java; then
-		einfo "Re-initializing java paths for ${P}"
-		R CMD javareconf
-	fi
-}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-06-01  5:25 Sam James
  0 siblings, 0 replies; 99+ messages in thread
From: Sam James @ 2022-06-01  5:25 UTC (permalink / raw
  To: gentoo-commits

commit:     8f3fb8a524eb3297d76a630ef727a4667cfb3d8f
Author:     Sam James <sam <AT> gentoo <DOT> org>
AuthorDate: Wed Jun  1 05:24:36 2022 +0000
Commit:     Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Wed Jun  1 05:24:36 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=8f3fb8a5

dev-lang/R: Stabilize 4.1.2-r1 arm64, #843221

Signed-off-by: Sam James <sam <AT> gentoo.org>

 dev-lang/R/R-4.1.2-r1.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.1.2-r1.ebuild b/dev-lang/R/R-4.1.2-r1.ebuild
index dfe847ee6a93..4a37a3f4aad8 100644
--- a/dev-lang/R/R-4.1.2-r1.ebuild
+++ b/dev-lang/R/R-4.1.2-r1.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 ~arm64 ~hppa ~ia64 sparc x86 ~amd64-linux ~x86-linux"
+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="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-05-11 12:49 David Seifert
  0 siblings, 0 replies; 99+ messages in thread
From: David Seifert @ 2022-05-11 12:49 UTC (permalink / raw
  To: gentoo-commits

commit:     4c8f51cf8e8bc53d7868c208ccad31fd7584d6ed
Author:     David Seifert <soap <AT> gentoo <DOT> org>
AuthorDate: Mon May  9 08:25:06 2022 +0000
Commit:     David Seifert <soap <AT> gentoo <DOT> org>
CommitDate: Wed May 11 12:49:37 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=4c8f51cf

dev-lang/R: drop 4.1.0-r2, 4.1.2

Signed-off-by: David Seifert <soap <AT> gentoo.org>

 dev-lang/R/Manifest          |   1 -
 dev-lang/R/R-4.1.0-r2.ebuild | 235 ----------------------------------------
 dev-lang/R/R-4.1.2.ebuild    | 248 -------------------------------------------
 3 files changed, 484 deletions(-)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index d051562da6ab..e39053606efc 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,5 +1,4 @@
 DIST R-4.0.5.tar.gz 32466444 BLAKE2B 5dbbd289f4fd6347b4109eecaf65b50b5793a83edddd2cb391c20473607f136d91a8e9f4ab9e453f6927d2ca9145762920424e3a1dcea89309afde56efd5d32c SHA512 6ff5b0f9cb6b17f66cde1f5585d1b33659dbae8919d34c2e593f68a0bff4d0425aa9704d99284d103702a9cd42f613311f3a87af6b939b1af65dcec80bf2ca8c
-DIST R-4.1.0.tar.gz 33714683 BLAKE2B 22ba966b5a29f153f3ce6cbc467e815c397e7c6aade0db62c7d2ae044056d9227da4dcb8fbf33e661548f4f434c328415e297c6b07b3932ef3f47358c2543f42 SHA512 41519bf06a1ebc2bb582e9a7c35d0e82e213312dec8147861a7f9b28ee750cd40dfbf02737602d05698641fcea6182b0da8131e83edacc358e98eca0a393b729
 DIST R-4.1.2.tar.gz 34009074 BLAKE2B 7ca14b28fc40548180dde979d57f93f41fb3966697d58f686cf63e24e4cbf2de8166240952e708fc94f97846cd57bbd559b4edb688500e1db2a6704de16f508c SHA512 657c7950a88f632f1bbb08dbd0b3fb485732a25d8bbcb8a7939a40b23c7a235fdb9b46c296acaa9f72eabebe96e270ecbdcd7970fc9d3a299e6687bea45f2d3f
 DIST R-4.2.0.tar.gz 37585694 BLAKE2B 5ba4d3b9397e92b72af729d88ff562655e0dd7c547bd371638aa76d4f1701f4f8a7911d500cf4f10d87b62457f8f8ce7a946d893477ceb7268b06bd59bc10f3d SHA512 99e71dad00b63e44bfcb8dc9539ff1951809112882d9ee7e06a4e99bce2e6ceac24e8348fd598c21e6d5ab0e0629a85170cde208bfa8145af91c398ac4ef7bcd
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06

diff --git a/dev-lang/R/R-4.1.0-r2.ebuild b/dev-lang/R/R-4.1.0-r2.ebuild
deleted file mode 100644
index ebf4b5c27c2e..000000000000
--- a/dev-lang/R/R-4.1.0-r2.ebuild
+++ /dev/null
@@ -1,235 +0,0 @@
-# Copyright 1999-2021 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=7
-
-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 static-libs test tiff tk X"
-
-REQUIRED_USE="png? ( || ( cairo X ) )
-	jpeg? ( || ( cairo X ) )
-	tiff? ( || ( cairo X ) )
-"
-
-# At least one package installation in the test suite requires TeX,
-# and will fail without it (bug #718056).
-BDEPEND="virtual/pkgconfig
-	doc? (
-		virtual/latex-base
-		dev-texlive/texlive-fontsrecommended
-	)
-	test? ( virtual/latex-base )"
-DEPEND="
-	app-arch/bzip2:0=
-	app-arch/xz-utils:0=
-	app-text/ghostscript-gpl
-	dev-libs/libpcre2:=
-	net-libs/libtirpc
-	net-misc/curl
-	virtual/blas:0
-	|| ( sys-apps/coreutils app-misc/realpath )
-	cairo? ( x11-libs/cairo:0=[X=] x11-libs/pango:0= )
-	icu? ( dev-libs/icu:= )
-	jpeg? ( virtual/jpeg:0 )
-	lapack? ( virtual/lapack:0 )
-	perl? ( dev-lang/perl )
-	png? ( media-libs/libpng:0= )
-	readline? ( sys-libs/readline:0= )
-	tiff? ( media-libs/tiff:0= )
-	tk? ( dev-lang/tk:0= )
-	X? ( x11-libs/libXmu:0= x11-libs/libXt x11-misc/xdg-utils )"
-
-RDEPEND="${DEPEND}
-	sys-libs/zlib:0[minizip]
-	java? ( >=virtual/jre-1.8:* )"
-
-RESTRICT="minimal? ( test )
-	!test? ( test )"
-
-PATCHES=(
-	"${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 [[ ${MERGE_TYPE} != binary ]] && use openmp; then
-		FORTRAN_NEED_OPENMP=1
-	fi
-	fortran-2_pkg_setup
-	filter-ldflags -Wl,-Bdirect -Bdirect
-	# avoid using existing R installation
-	unset R_HOME
-}
-
-src_prepare() {
-	default
-
-	# fix packages.html for doc (gentoo bug #205103)
-	sed -e "s:../../../library:../../../../$(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='\"${EROOT}/usr/$(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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
-
-	use lapack && \
-		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
-
-	if use X; then
-		export R_BROWSER="$(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 (OS X)
-	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 ${EROOT}/usr/$(get_libdir)/libRmath.dylib:" \
-				-i src/nmath/standalone/Makefile.in || die
-		else
-			append-ldflags -Wl,-rpath="${EROOT}/usr/$(get_libdir)/R/lib"
-		fi
-	fi
-	AT_M4DIR=m4
-	eautoreconf
-}
-
-src_configure() {
-	#	--with-system-tre \
-	# tre is patched from upstream
-	econf \
-		--enable-byte-compiled-packages \
-		--enable-R-shlib \
-		--disable-R-framework \
-		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
-		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
-		$(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_enable static-libs static) \
-		$(use_enable static-libs R-static-lib) \
-		$(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) \
-		$(use_with tk tk-config "${EPREFIX}"/usr/$(get_libdir)/tkConfig.sh) \
-		$(use_with tk tcl-config "${EPREFIX}"/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 $(use static-libs && echo static) AR="$(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/${PF}/html/manual
-	fi
-
-	cat > 99R <<-EOF
-		LDPATH=${EROOT}/usr/$(get_libdir)/${PN}/lib
-		R_HOME=${EROOT}/usr/$(get_libdir)/${PN}
-	EOF
-	doenvd 99R
-	newbashcomp "${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
-		for mod in $(find . -name "*.dylib") ; do
-			mod=${mod#./}
-			install_name_tool -id "${EPREFIX}/usr/$(get_libdir)/R/${mod}" \
-				"${mod}"
-		done
-		popd > /dev/null
-	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.
-	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.
-	INTERACTIVE_DATA=(
-		BioC_mirrors.csv
-		CRAN_mirrors.csv
-		KEYWORDS.db
-		NEWS.rds
-	)
-
-	NOCOMPRESS_DOCS=( "${INTERACTIVE_DOCS[@]}" "${INTERACTIVE_DATA[@]}" )
-
-	for f in "${NOCOMPRESS_DOCS[@]}"; do
-		docompress -x "/usr/share/doc/${PF}/${f}"
-	done
-}
-
-pkg_postinst() {
-	if use java; then
-		einfo "Re-initializing java paths for ${P}"
-		R CMD javareconf
-	fi
-}

diff --git a/dev-lang/R/R-4.1.2.ebuild b/dev-lang/R/R-4.1.2.ebuild
deleted file mode 100644
index a29cab314d2a..000000000000
--- a/dev-lang/R/R-4.1.2.ebuild
+++ /dev/null
@@ -1,248 +0,0 @@
-# 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).
-BDEPEND="
-	virtual/pkgconfig
-	doc? (
-		virtual/latex-base
-		dev-texlive/texlive-fontsrecommended
-	)
-	test? ( virtual/latex-base )"
-DEPEND="
-	app-arch/bzip2
-	app-arch/xz-utils
-	app-text/ghostscript-gpl
-	dev-libs/libpcre2:=
-	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? ( virtual/jpeg )
-	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="${DEPEND}
-	java? ( >=virtual/jre-1.8:* )"
-
-PATCHES=(
-	"${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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
-
-	use lapack && \
-		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
-
-	if use X; then
-		export R_BROWSER="$(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
-
-	#	--with-system-tre \
-	# tre is patched from upstream
-	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}" \
-		$(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
-}
-
-pkg_postinst() {
-	if use java; then
-		einfo "Re-initializing java paths for ${P}"
-		R CMD javareconf
-	fi
-}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-05-10 20:06 Arthur Zamarin
  0 siblings, 0 replies; 99+ messages in thread
From: Arthur Zamarin @ 2022-05-10 20:06 UTC (permalink / raw
  To: gentoo-commits

commit:     1b26672f26eea6d5875b399f4b62f3e59238ea7f
Author:     Arthur Zamarin <arthurzam <AT> gentoo <DOT> org>
AuthorDate: Tue May 10 20:05:54 2022 +0000
Commit:     Arthur Zamarin <arthurzam <AT> gentoo <DOT> org>
CommitDate: Tue May 10 20:05:54 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=1b26672f

dev-lang/R: Stabilize 4.1.2-r1 sparc, #843221

Signed-off-by: Arthur Zamarin <arthurzam <AT> gentoo.org>

 dev-lang/R/R-4.1.2-r1.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.1.2-r1.ebuild b/dev-lang/R/R-4.1.2-r1.ebuild
index 1ff88e90cc01..dfe847ee6a93 100644
--- a/dev-lang/R/R-4.1.2-r1.ebuild
+++ b/dev-lang/R/R-4.1.2-r1.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 ~arm64 ~hppa ~ia64 ~sparc x86 ~amd64-linux ~x86-linux"
+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="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-05-08  9:33 Jakov Smolić
  0 siblings, 0 replies; 99+ messages in thread
From: Jakov Smolić @ 2022-05-08  9:33 UTC (permalink / raw
  To: gentoo-commits

commit:     761de200a6f03da35ca671796c3bb05e404e3552
Author:     Jakov Smolić <jsmolic <AT> gentoo <DOT> org>
AuthorDate: Sun May  8 09:33:05 2022 +0000
Commit:     Jakov Smolić <jsmolic <AT> gentoo <DOT> org>
CommitDate: Sun May  8 09:33:05 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=761de200

dev-lang/R: Stabilize 4.1.2-r1 x86, #843221

Signed-off-by: Jakov Smolić <jsmolic <AT> gentoo.org>

 dev-lang/R/R-4.1.2-r1.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.1.2-r1.ebuild b/dev-lang/R/R-4.1.2-r1.ebuild
index e00e6055a80b..1ff88e90cc01 100644
--- a/dev-lang/R/R-4.1.2-r1.ebuild
+++ b/dev-lang/R/R-4.1.2-r1.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 ~arm64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux"
+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="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-05-08  9:15 Jakov Smolić
  0 siblings, 0 replies; 99+ messages in thread
From: Jakov Smolić @ 2022-05-08  9:15 UTC (permalink / raw
  To: gentoo-commits

commit:     46eb15fcdd119acc1c8b5826ea48407f0c444b52
Author:     Jakov Smolić <jsmolic <AT> gentoo <DOT> org>
AuthorDate: Sun May  8 09:15:25 2022 +0000
Commit:     Jakov Smolić <jsmolic <AT> gentoo <DOT> org>
CommitDate: Sun May  8 09:15:25 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=46eb15fc

dev-lang/R: Stabilize 4.1.2-r1 amd64, #843221

Signed-off-by: Jakov Smolić <jsmolic <AT> gentoo.org>

 dev-lang/R/R-4.1.2-r1.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.1.2-r1.ebuild b/dev-lang/R/R-4.1.2-r1.ebuild
index a4c36d76f9e3..e00e6055a80b 100644
--- a/dev-lang/R/R-4.1.2-r1.ebuild
+++ b/dev-lang/R/R-4.1.2-r1.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 ~arm64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux"
+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="


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-05-07 22:31 Michael Orlitzky
  0 siblings, 0 replies; 99+ messages in thread
From: Michael Orlitzky @ 2022-05-07 22:31 UTC (permalink / raw
  To: gentoo-commits

commit:     ddf00116a89246a9d213a8d35a7b8bb7bc311938
Author:     Michael Orlitzky <mjo <AT> gentoo <DOT> org>
AuthorDate: Sat May  7 22:29:07 2022 +0000
Commit:     Michael Orlitzky <mjo <AT> gentoo <DOT> org>
CommitDate: Sat May  7 22:29:25 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=ddf00116

dev-lang/R: new upstream version R-4.2.0.

Package-Manager: Portage-3.0.30, Repoman-3.0.3
Signed-off-by: Michael Orlitzky <mjo <AT> gentoo.org>

 dev-lang/R/Manifest       |   1 +
 dev-lang/R/R-4.2.0.ebuild | 256 ++++++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 257 insertions(+)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index ff6f613c6b32..d051562da6ab 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,4 +1,5 @@
 DIST R-4.0.5.tar.gz 32466444 BLAKE2B 5dbbd289f4fd6347b4109eecaf65b50b5793a83edddd2cb391c20473607f136d91a8e9f4ab9e453f6927d2ca9145762920424e3a1dcea89309afde56efd5d32c SHA512 6ff5b0f9cb6b17f66cde1f5585d1b33659dbae8919d34c2e593f68a0bff4d0425aa9704d99284d103702a9cd42f613311f3a87af6b939b1af65dcec80bf2ca8c
 DIST R-4.1.0.tar.gz 33714683 BLAKE2B 22ba966b5a29f153f3ce6cbc467e815c397e7c6aade0db62c7d2ae044056d9227da4dcb8fbf33e661548f4f434c328415e297c6b07b3932ef3f47358c2543f42 SHA512 41519bf06a1ebc2bb582e9a7c35d0e82e213312dec8147861a7f9b28ee750cd40dfbf02737602d05698641fcea6182b0da8131e83edacc358e98eca0a393b729
 DIST R-4.1.2.tar.gz 34009074 BLAKE2B 7ca14b28fc40548180dde979d57f93f41fb3966697d58f686cf63e24e4cbf2de8166240952e708fc94f97846cd57bbd559b4edb688500e1db2a6704de16f508c SHA512 657c7950a88f632f1bbb08dbd0b3fb485732a25d8bbcb8a7939a40b23c7a235fdb9b46c296acaa9f72eabebe96e270ecbdcd7970fc9d3a299e6687bea45f2d3f
+DIST R-4.2.0.tar.gz 37585694 BLAKE2B 5ba4d3b9397e92b72af729d88ff562655e0dd7c547bd371638aa76d4f1701f4f8a7911d500cf4f10d87b62457f8f8ce7a946d893477ceb7268b06bd59bc10f3d SHA512 99e71dad00b63e44bfcb8dc9539ff1951809112882d9ee7e06a4e99bce2e6ceac24e8348fd598c21e6d5ab0e0629a85170cde208bfa8145af91c398ac4ef7bcd
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06

diff --git a/dev-lang/R/R-4.2.0.ebuild b/dev-lang/R/R-4.2.0.ebuild
new file mode 100644
index 000000000000..28e62a99b24d
--- /dev/null
+++ b/dev-lang/R/R-4.2.0.ebuild
@@ -0,0 +1,256 @@
+# 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).
+BDEPEND="
+	virtual/pkgconfig
+	doc? (
+		virtual/latex-base
+		dev-texlive/texlive-fontsrecommended
+	)
+	test? ( virtual/latex-base )"
+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? ( virtual/jpeg )
+	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="${DEPEND}
+	java? ( >=virtual/jre-1.8:* )"
+
+PATCHES=(
+	"${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
+}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-03-21 22:07 Patrice Clement
  0 siblings, 0 replies; 99+ messages in thread
From: Patrice Clement @ 2022-03-21 22:07 UTC (permalink / raw
  To: gentoo-commits

commit:     e4cbd799f751c26731435be0b0b0584d6a076490
Author:     Alessandro Barbieri <lssndrbarbieri <AT> gmail <DOT> com>
AuthorDate: Wed Mar 16 05:21:19 2022 +0000
Commit:     Patrice Clement <monsieurp <AT> gentoo <DOT> org>
CommitDate: Mon Mar 21 22:06:11 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=e4cbd799

dev-lang/R: enable system tre

Closes: https://bugs.gentoo.org/802099
Signed-off-by: Alessandro Barbieri <lssndrbarbieri <AT> gmail.com>
Signed-off-by: Patrice Clement <monsieurp <AT> gentoo.org>

 dev-lang/R/R-4.1.2-r1.ebuild | 250 +++++++++++++++++++++++++++++++++++++++++++
 1 file changed, 250 insertions(+)

diff --git a/dev-lang/R/R-4.1.2-r1.ebuild b/dev-lang/R/R-4.1.2-r1.ebuild
new file mode 100644
index 000000000000..a4c36d76f9e3
--- /dev/null
+++ b/dev-lang/R/R-4.1.2-r1.ebuild
@@ -0,0 +1,250 @@
+# 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).
+BDEPEND="
+	virtual/pkgconfig
+	doc? (
+		virtual/latex-base
+		dev-texlive/texlive-fontsrecommended
+	)
+	test? ( virtual/latex-base )"
+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? ( virtual/jpeg )
+	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="${DEPEND}
+	java? ( >=virtual/jre-1.8:* )"
+
+PATCHES=(
+	"${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 [[ ${MERGE_TYPE} != binary ]] && use openmp; then
+		tc-check-openmp
+		FORTRAN_NEED_OPENMP=1
+	fi
+
+	fortran-2_pkg_setup
+
+	# avoid using existing R installation
+	unset R_HOME
+}
+
+src_prepare() {
+#	rm -r src/extra/tre || die
+
+	default
+
+	# fix packages.html for doc (gentoo bug #205103)
+	sed -e "s:../../../library:../../../../$(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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
+
+	use lapack && \
+		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+	if use X; then
+		export R_BROWSER="$(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
+}
+
+pkg_postinst() {
+	if use java; then
+		einfo "Re-initializing java paths for ${P}"
+		R CMD javareconf
+	fi
+}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2022-01-26 10:10 David Seifert
  0 siblings, 0 replies; 99+ messages in thread
From: David Seifert @ 2022-01-26 10:10 UTC (permalink / raw
  To: gentoo-commits

commit:     cf159ddadd10b74e894c7e06715a9c9be197879e
Author:     David Seifert <soap <AT> gentoo <DOT> org>
AuthorDate: Wed Jan 26 10:10:27 2022 +0000
Commit:     David Seifert <soap <AT> gentoo <DOT> org>
CommitDate: Wed Jan 26 10:10:27 2022 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=cf159dda

dev-lang/R: add 4.1.2

Closes: https://bugs.gentoo.org/808711
Signed-off-by: David Seifert <soap <AT> gentoo.org>

 dev-lang/R/Manifest       |   1 +
 dev-lang/R/R-4.1.2.ebuild | 248 ++++++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 249 insertions(+)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index 756a8d080efa..ff6f613c6b32 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,3 +1,4 @@
 DIST R-4.0.5.tar.gz 32466444 BLAKE2B 5dbbd289f4fd6347b4109eecaf65b50b5793a83edddd2cb391c20473607f136d91a8e9f4ab9e453f6927d2ca9145762920424e3a1dcea89309afde56efd5d32c SHA512 6ff5b0f9cb6b17f66cde1f5585d1b33659dbae8919d34c2e593f68a0bff4d0425aa9704d99284d103702a9cd42f613311f3a87af6b939b1af65dcec80bf2ca8c
 DIST R-4.1.0.tar.gz 33714683 BLAKE2B 22ba966b5a29f153f3ce6cbc467e815c397e7c6aade0db62c7d2ae044056d9227da4dcb8fbf33e661548f4f434c328415e297c6b07b3932ef3f47358c2543f42 SHA512 41519bf06a1ebc2bb582e9a7c35d0e82e213312dec8147861a7f9b28ee750cd40dfbf02737602d05698641fcea6182b0da8131e83edacc358e98eca0a393b729
+DIST R-4.1.2.tar.gz 34009074 BLAKE2B 7ca14b28fc40548180dde979d57f93f41fb3966697d58f686cf63e24e4cbf2de8166240952e708fc94f97846cd57bbd559b4edb688500e1db2a6704de16f508c SHA512 657c7950a88f632f1bbb08dbd0b3fb485732a25d8bbcb8a7939a40b23c7a235fdb9b46c296acaa9f72eabebe96e270ecbdcd7970fc9d3a299e6687bea45f2d3f
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06

diff --git a/dev-lang/R/R-4.1.2.ebuild b/dev-lang/R/R-4.1.2.ebuild
new file mode 100644
index 000000000000..a29cab314d2a
--- /dev/null
+++ b/dev-lang/R/R-4.1.2.ebuild
@@ -0,0 +1,248 @@
+# 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).
+BDEPEND="
+	virtual/pkgconfig
+	doc? (
+		virtual/latex-base
+		dev-texlive/texlive-fontsrecommended
+	)
+	test? ( virtual/latex-base )"
+DEPEND="
+	app-arch/bzip2
+	app-arch/xz-utils
+	app-text/ghostscript-gpl
+	dev-libs/libpcre2:=
+	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? ( virtual/jpeg )
+	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="${DEPEND}
+	java? ( >=virtual/jre-1.8:* )"
+
+PATCHES=(
+	"${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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
+
+	use lapack && \
+		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+	if use X; then
+		export R_BROWSER="$(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
+
+	#	--with-system-tre \
+	# tre is patched from upstream
+	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}" \
+		$(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
+}
+
+pkg_postinst() {
+	if use java; then
+		einfo "Re-initializing java paths for ${P}"
+		R CMD javareconf
+	fi
+}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2021-10-23 14:24 David Seifert
  0 siblings, 0 replies; 99+ messages in thread
From: David Seifert @ 2021-10-23 14:24 UTC (permalink / raw
  To: gentoo-commits

commit:     468924259258c048b50e5cf6f258d7985a78275e
Author:     Volkmar W. Pogatzki <gentoo <AT> pogatzki <DOT> net>
AuthorDate: Sat Oct 23 14:24:41 2021 +0000
Commit:     David Seifert <soap <AT> gentoo <DOT> org>
CommitDate: Sat Oct 23 14:24:41 2021 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=46892425

dev-lang/R: remove 4.0.4

Closes: https://github.com/gentoo/gentoo/pull/22680
Closes: https://bugs.gentoo.org/801145
Package-Manager: Portage-3.0.20, Repoman-3.0.3
Signed-off-by: Volkmar W. Pogatzki <gentoo <AT> pogatzki.net>
Signed-off-by: David Seifert <soap <AT> gentoo.org>

 dev-lang/R/Manifest       |   1 -
 dev-lang/R/R-4.0.4.ebuild | 243 ----------------------------------------------
 2 files changed, 244 deletions(-)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index e217fbc0125..756a8d080ef 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,4 +1,3 @@
-DIST R-4.0.4.tar.gz 33687611 BLAKE2B 40cdfd98fe6c9193deb729d151631c2b0f935accf5ea6251704b633d2688278af1a5a67317152be023fb4a10315c64e473f58276bb0c3fadb1141c35391ad22e SHA512 811c4407a083eb776f92c3cbacb1dc7eada8890a8c27678c6c82bef9db52b1afaefeb408fbe11e46922740adee498f32e7ddf7451b3ab89cf60773737e47f8be
 DIST R-4.0.5.tar.gz 32466444 BLAKE2B 5dbbd289f4fd6347b4109eecaf65b50b5793a83edddd2cb391c20473607f136d91a8e9f4ab9e453f6927d2ca9145762920424e3a1dcea89309afde56efd5d32c SHA512 6ff5b0f9cb6b17f66cde1f5585d1b33659dbae8919d34c2e593f68a0bff4d0425aa9704d99284d103702a9cd42f613311f3a87af6b939b1af65dcec80bf2ca8c
 DIST R-4.1.0.tar.gz 33714683 BLAKE2B 22ba966b5a29f153f3ce6cbc467e815c397e7c6aade0db62c7d2ae044056d9227da4dcb8fbf33e661548f4f434c328415e297c6b07b3932ef3f47358c2543f42 SHA512 41519bf06a1ebc2bb582e9a7c35d0e82e213312dec8147861a7f9b28ee750cd40dfbf02737602d05698641fcea6182b0da8131e83edacc358e98eca0a393b729
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06

diff --git a/dev-lang/R/R-4.0.4.ebuild b/dev-lang/R/R-4.0.4.ebuild
deleted file mode 100644
index e85bf329f62..00000000000
--- a/dev-lang/R/R-4.0.4.ebuild
+++ /dev/null
@@ -1,243 +0,0 @@
-# Copyright 1999-2021 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=7
-
-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="http://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 minimal nls openmp perl png prefix profile readline static-libs test tiff tk X"
-
-# One test required profiling in v4.0.2, check the upstream bug:
-#
-#   https://bugs.r-project.org/bugzilla/show_bug.cgi?id=17836
-#
-REQUIRED_USE="png? ( || ( cairo X ) )
-	jpeg? ( || ( cairo X ) )
-	tiff? ( || ( cairo X ) )
-	test? ( profile )
-"
-
-# At least one package installation in the test suite requires TeX,
-# and will fail without it (bug #718056).
-BDEPEND="virtual/pkgconfig
-	doc? (
-		virtual/latex-base
-		dev-texlive/texlive-fontsrecommended
-	)
-	test? ( virtual/latex-base )"
-DEPEND="
-	app-arch/bzip2:0=
-	app-arch/xz-utils:0=
-	app-text/ghostscript-gpl
-	dev-libs/libpcre2:=
-	net-libs/libtirpc
-	net-misc/curl
-	virtual/blas:0
-	|| ( sys-apps/coreutils app-misc/realpath )
-	cairo? ( x11-libs/cairo:0=[X=] x11-libs/pango:0= )
-	icu? ( dev-libs/icu:= )
-	jpeg? ( virtual/jpeg:0 )
-	lapack? ( virtual/lapack:0 )
-	perl? ( dev-lang/perl )
-	png? ( media-libs/libpng:0= )
-	readline? ( sys-libs/readline:0= )
-	tiff? ( media-libs/tiff:0= )
-	tk? ( dev-lang/tk:0= )
-	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
-
-RDEPEND="${DEPEND}
-	sys-libs/zlib:0[minizip]
-	java? ( >=virtual/jre-1.5 )"
-
-RESTRICT="minimal? ( test )
-	!test? ( test )"
-
-PATCHES=(
-	"${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 [[ ${MERGE_TYPE} != binary ]] && use openmp; then
-		FORTRAN_NEED_OPENMP=1
-	fi
-	fortran-2_pkg_setup
-	filter-ldflags -Wl,-Bdirect -Bdirect
-	# avoid using existing R installation
-	unset R_HOME
-	# Temporary fix for bug #419761
-	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
-		append-flags -fno-ipa-cp-clone
-	fi
-}
-
-src_prepare() {
-	default
-
-	# fix packages.html for doc (gentoo bug #205103)
-	sed -e "s:../../../library:../../../../$(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='\"${EROOT}/usr/$(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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
-
-	use lapack && \
-		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
-
-	if use X; then
-		export R_BROWSER="$(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 (OS X)
-	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 ${EROOT}/usr/$(get_libdir)/libRmath.dylib:" \
-				-i src/nmath/standalone/Makefile.in || die
-		else
-			append-ldflags -Wl,-rpath="${EROOT}/usr/$(get_libdir)/R/lib"
-		fi
-	fi
-	AT_M4DIR=m4
-	eautoreconf
-}
-
-src_configure() {
-	#	--with-system-tre \
-	# tre is patched from upstream
-	econf \
-		--enable-byte-compiled-packages \
-		--enable-R-shlib \
-		--disable-R-framework \
-		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
-		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
-		$(use_enable java) \
-		$(use_enable nls) \
-		$(use_enable openmp) \
-		$(use_enable profile R-profiling) \
-		$(use_enable profile memory-profiling) \
-		$(use_enable static-libs static) \
-		$(use_enable static-libs R-static-lib) \
-		$(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) \
-		$(use_with tk tk-config "${EPREFIX}"/usr/$(get_libdir)/tkConfig.sh) \
-		$(use_with tk tcl-config "${EPREFIX}"/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 $(use static-libs && echo static) AR="$(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/${PF}/html/manual
-	fi
-
-	cat > 99R <<-EOF
-		LDPATH=${EROOT}/usr/$(get_libdir)/${PN}/lib
-		R_HOME=${EROOT}/usr/$(get_libdir)/${PN}
-	EOF
-	doenvd 99R
-	newbashcomp "${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
-		for mod in $(find . -name "*.dylib") ; do
-			mod=${mod#./}
-			install_name_tool -id "${EPREFIX}/usr/$(get_libdir)/R/${mod}" \
-				"${mod}"
-		done
-		popd > /dev/null
-	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.
-	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.
-	INTERACTIVE_DATA=(
-		BioC_mirrors.csv
-		CRAN_mirrors.csv
-		KEYWORDS.db
-		NEWS.rds
-	)
-
-	NOCOMPRESS_DOCS=( "${INTERACTIVE_DOCS[@]}" "${INTERACTIVE_DATA[@]}" )
-
-	for f in "${NOCOMPRESS_DOCS[@]}"; do
-		docompress -x "/usr/share/doc/${PF}/${f}"
-	done
-}
-
-pkg_postinst() {
-	if use java; then
-		einfo "Re-initializing java paths for ${P}"
-		R CMD javareconf
-	fi
-}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2021-08-06 13:34 Sam James
  0 siblings, 0 replies; 99+ messages in thread
From: Sam James @ 2021-08-06 13:34 UTC (permalink / raw
  To: gentoo-commits

commit:     166f934bceaabbce7818db0a12a61f2ab500d8cd
Author:     Sam James <sam <AT> gentoo <DOT> org>
AuthorDate: Fri Aug  6 13:33:53 2021 +0000
Commit:     Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Fri Aug  6 13:33:53 2021 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=166f934b

dev-lang/R: Stabilize 4.0.5-r1 arm64, #801145

Signed-off-by: Sam James <sam <AT> gentoo.org>

 dev-lang/R/R-4.0.5-r1.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.0.5-r1.ebuild b/dev-lang/R/R-4.0.5-r1.ebuild
index e8bfafd7f0a..ea1e78006a9 100644
--- a/dev-lang/R/R-4.0.5-r1.ebuild
+++ b/dev-lang/R/R-4.0.5-r1.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 ~arm64 ~hppa ~ia64 sparc x86 ~amd64-linux ~x86-linux"
+KEYWORDS="amd64 arm64 ~hppa ~ia64 sparc x86 ~amd64-linux ~x86-linux"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs test tiff tk X"
 
 # One test required profiling in v4.0.2, check the upstream bug:


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2021-07-18  2:48 Sam James
  0 siblings, 0 replies; 99+ messages in thread
From: Sam James @ 2021-07-18  2:48 UTC (permalink / raw
  To: gentoo-commits

commit:     c4803567eced7665d91c9862e725524bf358f75b
Author:     Sam James <sam <AT> gentoo <DOT> org>
AuthorDate: Sun Jul 18 02:47:42 2021 +0000
Commit:     Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Sun Jul 18 02:48:29 2021 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=c4803567

dev-lang/R: revbump for fixed econf arguments

We need to revbump for cases like this to ensure that
the user's preferences/USE flags were fully respected
(and done so correctly).

Fixes: b5ca7094608362020c06f80bb01ee6b872c029c0
Bug: https://bugs.gentoo.org/801928
Signed-off-by: Sam James <sam <AT> gentoo.org>

 dev-lang/R/{R-4.1.0-r1.ebuild => R-4.1.0-r2.ebuild} | 0
 1 file changed, 0 insertions(+), 0 deletions(-)

diff --git a/dev-lang/R/R-4.1.0-r1.ebuild b/dev-lang/R/R-4.1.0-r2.ebuild
similarity index 100%
rename from dev-lang/R/R-4.1.0-r1.ebuild
rename to dev-lang/R/R-4.1.0-r2.ebuild


^ permalink raw reply	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2021-07-16 11:52 Benda XU
  0 siblings, 0 replies; 99+ messages in thread
From: Benda XU @ 2021-07-16 11:52 UTC (permalink / raw
  To: gentoo-commits

commit:     b5ca7094608362020c06f80bb01ee6b872c029c0
Author:     Benda Xu <heroxbd <AT> gentoo <DOT> org>
AuthorDate: Fri Jul 16 11:51:51 2021 +0000
Commit:     Benda XU <heroxbd <AT> gentoo <DOT> org>
CommitDate: Fri Jul 16 11:52:39 2021 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=b5ca7094

dev-lang/R: fix econf arguments.

mjo has forgotten to append '\' to include the arguments after lto.

Reference: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=6b3b5b20fe9c71906a674908c8dd08d38706804b

Closes: https://bugs.gentoo.org/801928
Closes: https://github.com/gentoo/gentoo/pull/21626

Package-Manager: Portage-3.0.20, Repoman-3.0.3
Signed-off-by: Benda Xu <heroxbd <AT> gentoo.org>

 dev-lang/R/R-4.1.0-r1.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.1.0-r1.ebuild b/dev-lang/R/R-4.1.0-r1.ebuild
index 3972132499a..ebf4b5c27c2 100644
--- a/dev-lang/R/R-4.1.0-r1.ebuild
+++ b/dev-lang/R/R-4.1.0-r1.ebuild
@@ -136,7 +136,7 @@ src_configure() {
 		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
 		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
 		$(use_enable java) \
-		$(use_enable lto lto R)
+		$(use_enable lto lto R) \
 		$(use_enable nls) \
 		$(use_enable openmp) \
 		$(use_enable profile R-profiling) \


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2021-07-12 17:37 Michael Orlitzky
  0 siblings, 0 replies; 99+ messages in thread
From: Michael Orlitzky @ 2021-07-12 17:37 UTC (permalink / raw
  To: gentoo-commits

commit:     bc088c4a8f4ea53563ad509ae11b843ffabc5d3e
Author:     Michael Orlitzky <mjo <AT> gentoo <DOT> org>
AuthorDate: Mon Jul 12 17:35:28 2021 +0000
Commit:     Michael Orlitzky <mjo <AT> gentoo <DOT> org>
CommitDate: Mon Jul 12 17:35:43 2021 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=bc088c4a

dev-lang/R: add missing x11-libs/libXt dependency.

Closes: https://bugs.gentoo.org/801910
Package-Manager: Portage-3.0.20, Repoman-3.0.2
Signed-off-by: Michael Orlitzky <mjo <AT> gentoo.org>

 dev-lang/R/{R-4.1.0.ebuild => R-4.1.0-r1.ebuild} | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.1.0.ebuild b/dev-lang/R/R-4.1.0-r1.ebuild
similarity index 99%
rename from dev-lang/R/R-4.1.0.ebuild
rename to dev-lang/R/R-4.1.0-r1.ebuild
index 775e4cb5b02..3972132499a 100644
--- a/dev-lang/R/R-4.1.0.ebuild
+++ b/dev-lang/R/R-4.1.0-r1.ebuild
@@ -50,7 +50,7 @@ DEPEND="
 	readline? ( sys-libs/readline:0= )
 	tiff? ( media-libs/tiff:0= )
 	tk? ( dev-lang/tk:0= )
-	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
+	X? ( x11-libs/libXmu:0= x11-libs/libXt x11-misc/xdg-utils )"
 
 RDEPEND="${DEPEND}
 	sys-libs/zlib:0[minizip]


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2021-07-12 14:11 Michael Orlitzky
  0 siblings, 0 replies; 99+ messages in thread
From: Michael Orlitzky @ 2021-07-12 14:11 UTC (permalink / raw
  To: gentoo-commits

commit:     6b3b5b20fe9c71906a674908c8dd08d38706804b
Author:     Michael Orlitzky <mjo <AT> gentoo <DOT> org>
AuthorDate: Mon Jul 12 14:07:28 2021 +0000
Commit:     Michael Orlitzky <mjo <AT> gentoo <DOT> org>
CommitDate: Mon Jul 12 14:11:40 2021 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=6b3b5b20

dev-lang/R: new version 4.1.0.

New upstream version with a few other ebuild improvements:

  * Use https in HOMEPAGE.
  * Remove workaround for upstream bug 17836.
  * Add support (USE=lto) for link-time optimization.
  * Remove an old gcc-4.x workaround.

Closes: https://bugs.gentoo.org/792426
Package-Manager: Portage-3.0.20, Repoman-3.0.2
Signed-off-by: Michael Orlitzky <mjo <AT> gentoo.org>

 dev-lang/R/Manifest       |   1 +
 dev-lang/R/R-4.1.0.ebuild | 235 ++++++++++++++++++++++++++++++++++++++++++++++
 dev-lang/R/metadata.xml   |   5 +
 3 files changed, 241 insertions(+)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index 72da37844ea..e217fbc0125 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,3 +1,4 @@
 DIST R-4.0.4.tar.gz 33687611 BLAKE2B 40cdfd98fe6c9193deb729d151631c2b0f935accf5ea6251704b633d2688278af1a5a67317152be023fb4a10315c64e473f58276bb0c3fadb1141c35391ad22e SHA512 811c4407a083eb776f92c3cbacb1dc7eada8890a8c27678c6c82bef9db52b1afaefeb408fbe11e46922740adee498f32e7ddf7451b3ab89cf60773737e47f8be
 DIST R-4.0.5.tar.gz 32466444 BLAKE2B 5dbbd289f4fd6347b4109eecaf65b50b5793a83edddd2cb391c20473607f136d91a8e9f4ab9e453f6927d2ca9145762920424e3a1dcea89309afde56efd5d32c SHA512 6ff5b0f9cb6b17f66cde1f5585d1b33659dbae8919d34c2e593f68a0bff4d0425aa9704d99284d103702a9cd42f613311f3a87af6b939b1af65dcec80bf2ca8c
+DIST R-4.1.0.tar.gz 33714683 BLAKE2B 22ba966b5a29f153f3ce6cbc467e815c397e7c6aade0db62c7d2ae044056d9227da4dcb8fbf33e661548f4f434c328415e297c6b07b3932ef3f47358c2543f42 SHA512 41519bf06a1ebc2bb582e9a7c35d0e82e213312dec8147861a7f9b28ee750cd40dfbf02737602d05698641fcea6182b0da8131e83edacc358e98eca0a393b729
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06

diff --git a/dev-lang/R/R-4.1.0.ebuild b/dev-lang/R/R-4.1.0.ebuild
new file mode 100644
index 00000000000..775e4cb5b02
--- /dev/null
+++ b/dev-lang/R/R-4.1.0.ebuild
@@ -0,0 +1,235 @@
+# Copyright 1999-2021 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=7
+
+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 static-libs test tiff tk X"
+
+REQUIRED_USE="png? ( || ( cairo X ) )
+	jpeg? ( || ( cairo X ) )
+	tiff? ( || ( cairo X ) )
+"
+
+# At least one package installation in the test suite requires TeX,
+# and will fail without it (bug #718056).
+BDEPEND="virtual/pkgconfig
+	doc? (
+		virtual/latex-base
+		dev-texlive/texlive-fontsrecommended
+	)
+	test? ( virtual/latex-base )"
+DEPEND="
+	app-arch/bzip2:0=
+	app-arch/xz-utils:0=
+	app-text/ghostscript-gpl
+	dev-libs/libpcre2:=
+	net-libs/libtirpc
+	net-misc/curl
+	virtual/blas:0
+	|| ( sys-apps/coreutils app-misc/realpath )
+	cairo? ( x11-libs/cairo:0=[X=] x11-libs/pango:0= )
+	icu? ( dev-libs/icu:= )
+	jpeg? ( virtual/jpeg:0 )
+	lapack? ( virtual/lapack:0 )
+	perl? ( dev-lang/perl )
+	png? ( media-libs/libpng:0= )
+	readline? ( sys-libs/readline:0= )
+	tiff? ( media-libs/tiff:0= )
+	tk? ( dev-lang/tk:0= )
+	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
+
+RDEPEND="${DEPEND}
+	sys-libs/zlib:0[minizip]
+	java? ( >=virtual/jre-1.8:* )"
+
+RESTRICT="minimal? ( test )
+	!test? ( test )"
+
+PATCHES=(
+	"${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 [[ ${MERGE_TYPE} != binary ]] && use openmp; then
+		FORTRAN_NEED_OPENMP=1
+	fi
+	fortran-2_pkg_setup
+	filter-ldflags -Wl,-Bdirect -Bdirect
+	# avoid using existing R installation
+	unset R_HOME
+}
+
+src_prepare() {
+	default
+
+	# fix packages.html for doc (gentoo bug #205103)
+	sed -e "s:../../../library:../../../../$(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='\"${EROOT}/usr/$(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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
+
+	use lapack && \
+		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+	if use X; then
+		export R_BROWSER="$(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 (OS X)
+	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 ${EROOT}/usr/$(get_libdir)/libRmath.dylib:" \
+				-i src/nmath/standalone/Makefile.in || die
+		else
+			append-ldflags -Wl,-rpath="${EROOT}/usr/$(get_libdir)/R/lib"
+		fi
+	fi
+	AT_M4DIR=m4
+	eautoreconf
+}
+
+src_configure() {
+	#	--with-system-tre \
+	# tre is patched from upstream
+	econf \
+		--enable-byte-compiled-packages \
+		--enable-R-shlib \
+		--disable-R-framework \
+		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
+		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
+		$(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_enable static-libs static) \
+		$(use_enable static-libs R-static-lib) \
+		$(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) \
+		$(use_with tk tk-config "${EPREFIX}"/usr/$(get_libdir)/tkConfig.sh) \
+		$(use_with tk tcl-config "${EPREFIX}"/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 $(use static-libs && echo static) AR="$(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/${PF}/html/manual
+	fi
+
+	cat > 99R <<-EOF
+		LDPATH=${EROOT}/usr/$(get_libdir)/${PN}/lib
+		R_HOME=${EROOT}/usr/$(get_libdir)/${PN}
+	EOF
+	doenvd 99R
+	newbashcomp "${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
+		for mod in $(find . -name "*.dylib") ; do
+			mod=${mod#./}
+			install_name_tool -id "${EPREFIX}/usr/$(get_libdir)/R/${mod}" \
+				"${mod}"
+		done
+		popd > /dev/null
+	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.
+	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.
+	INTERACTIVE_DATA=(
+		BioC_mirrors.csv
+		CRAN_mirrors.csv
+		KEYWORDS.db
+		NEWS.rds
+	)
+
+	NOCOMPRESS_DOCS=( "${INTERACTIVE_DOCS[@]}" "${INTERACTIVE_DATA[@]}" )
+
+	for f in "${NOCOMPRESS_DOCS[@]}"; do
+		docompress -x "/usr/share/doc/${PF}/${f}"
+	done
+}
+
+pkg_postinst() {
+	if use java; then
+		einfo "Re-initializing java paths for ${P}"
+		R CMD javareconf
+	fi
+}

diff --git a/dev-lang/R/metadata.xml b/dev-lang/R/metadata.xml
index 8972d9ed88c..e9bebc0e016 100644
--- a/dev-lang/R/metadata.xml
+++ b/dev-lang/R/metadata.xml
@@ -5,6 +5,11 @@
     <email>sci-mathematics@gentoo.org</email>
     <name>Gentoo Mathematics Project</name>
   </maintainer>
+  <use>
+    <flag name="lto">
+      Use link-time optimization for R and its recommended packages.
+    </flag>
+  </use>
   <longdescription lang="en">
   R is GNU S, a system for statistical computation and graphics. It
   consists of a language plus a run-time environment with graphics, a


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2021-07-10 17:28 Sam James
  0 siblings, 0 replies; 99+ messages in thread
From: Sam James @ 2021-07-10 17:28 UTC (permalink / raw
  To: gentoo-commits

commit:     5a39d7c1625ef8cde30d25c07ee5836525355455
Author:     Rolf Eike Beer <eike <AT> sf-mail <DOT> de>
AuthorDate: Sat Jul 10 15:46:44 2021 +0000
Commit:     Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Sat Jul 10 17:28:21 2021 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=5a39d7c1

dev-lang/R: stable 4.0.5-r1 for sparc, bug #801145

Package-Manager: Portage-3.0.20, Repoman-3.0.2
RepoMan-Options: --include-arches="sparc"
Signed-off-by: Rolf Eike Beer <eike <AT> sf-mail.de>
Signed-off-by: Sam James <sam <AT> gentoo.org>

 dev-lang/R/R-4.0.5-r1.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.0.5-r1.ebuild b/dev-lang/R/R-4.0.5-r1.ebuild
index 7cd415f99ed..330656c3f48 100644
--- a/dev-lang/R/R-4.0.5-r1.ebuild
+++ b/dev-lang/R/R-4.0.5-r1.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 ~arm64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux"
+KEYWORDS="amd64 ~arm64 ~hppa ~ia64 sparc ~x86 ~amd64-linux ~x86-linux"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs test tiff tk X"
 
 # One test required profiling in v4.0.2, check the upstream bug:


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2021-06-06 18:00 Pacho Ramos
  0 siblings, 0 replies; 99+ messages in thread
From: Pacho Ramos @ 2021-06-06 18:00 UTC (permalink / raw
  To: gentoo-commits

commit:     12c4bca2b9941e25b668978a29aeb9633591a625
Author:     Pacho Ramos <pacho <AT> gentoo <DOT> org>
AuthorDate: Sun Jun  6 17:41:53 2021 +0000
Commit:     Pacho Ramos <pacho <AT> gentoo <DOT> org>
CommitDate: Sun Jun  6 18:00:24 2021 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=12c4bca2

dev-lang/R: Supports newer java

Closes: https://bugs.gentoo.org/787350
Package-Manager: Portage-3.0.19, Repoman-3.0.3
Signed-off-by: Pacho Ramos <pacho <AT> gentoo.org>

 dev-lang/R/{R-4.0.5.ebuild => R-4.0.5-r1.ebuild} | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.0.5.ebuild b/dev-lang/R/R-4.0.5-r1.ebuild
similarity index 99%
rename from dev-lang/R/R-4.0.5.ebuild
rename to dev-lang/R/R-4.0.5-r1.ebuild
index 560e83d01f7..0250344292a 100644
--- a/dev-lang/R/R-4.0.5.ebuild
+++ b/dev-lang/R/R-4.0.5-r1.ebuild
@@ -59,7 +59,7 @@ DEPEND="
 
 RDEPEND="${DEPEND}
 	sys-libs/zlib:0[minizip]
-	java? ( >=virtual/jre-1.5 )"
+	java? ( >=virtual/jre-1.8:* )"
 
 RESTRICT="minimal? ( test )
 	!test? ( test )"


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2021-04-20 11:06 David Seifert
  0 siblings, 0 replies; 99+ messages in thread
From: David Seifert @ 2021-04-20 11:06 UTC (permalink / raw
  To: gentoo-commits

commit:     92d5e5c89778eb7ce15420c71a3f7abd0bdf6b7e
Author:     David Seifert <soap <AT> gentoo <DOT> org>
AuthorDate: Tue Apr 20 11:06:05 2021 +0000
Commit:     David Seifert <soap <AT> gentoo <DOT> org>
CommitDate: Tue Apr 20 11:06:05 2021 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=92d5e5c8

dev-lang/R: Remove old 3.4.1, 3.6.3-r1, 4.0.2

Bug: https://bugs.gentoo.org/765361
Closes: https://bugs.gentoo.org/776781
Package-Manager: Portage-3.0.18, Repoman-3.0.3
Signed-off-by: David Seifert <soap <AT> gentoo.org>

 dev-lang/R/Manifest          |   3 -
 dev-lang/R/R-3.4.1.ebuild    | 203 ------------------------------------
 dev-lang/R/R-3.6.3-r1.ebuild | 234 -----------------------------------------
 dev-lang/R/R-4.0.2.ebuild    | 243 -------------------------------------------
 4 files changed, 683 deletions(-)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index 5a48a7b4c96..72da37844ea 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,6 +1,3 @@
-DIST R-3.4.1.tar.gz 30200109 BLAKE2B 03602e9a48759caee8ce047fa6273df7a54af089de4489e21953c0e3fc7bfdf720d924f1e0167d3dbf65f63ed42ac10dea8b45289b921cda1c0e6d25a0063ebb SHA512 19bd50c87dc001ef947c15c1760f27ac8986ff6b43c6d90d3093ae184e42963027ef06faf31ec57ac9e519af7a35a2f53f8ea23ef75d800ebbd02945cedc4651
-DIST R-3.6.3.tar.gz 33308185 BLAKE2B f82751e21d3b502132f8f27d4fc47a921fb085a50c3da3b45e08fbbdd1ab3d42e89b4fa6653a570c21176d79f492277b1d0b86c3c9f4da1386d8b6e4771d4d2c SHA512 9b1dc78922e431bd1af81e6e560b10ad04d121718f680fed32db735d561fd40ea6028759976722db11559f1a78fe684119b766f0567128cb2ee5003aa87a0931
-DIST R-4.0.2.tar.gz 33191186 BLAKE2B 2d5b99c17a9df48a36871f18701efacfaa1e6bb89c0e5c6516fc20966547f34f9079dc52ab18ac7816e0fed25d6230076246e83dc648501553fa2d0cad67b8e4 SHA512 b7330613ee9795f54cde3dd9f7509be83d9156fb8577c17179727ee01450db27704249f68bd48e0331e2df09c2d9833d8bb019c4f9ce9ba669df74650ff2e842
 DIST R-4.0.4.tar.gz 33687611 BLAKE2B 40cdfd98fe6c9193deb729d151631c2b0f935accf5ea6251704b633d2688278af1a5a67317152be023fb4a10315c64e473f58276bb0c3fadb1141c35391ad22e SHA512 811c4407a083eb776f92c3cbacb1dc7eada8890a8c27678c6c82bef9db52b1afaefeb408fbe11e46922740adee498f32e7ddf7451b3ab89cf60773737e47f8be
 DIST R-4.0.5.tar.gz 32466444 BLAKE2B 5dbbd289f4fd6347b4109eecaf65b50b5793a83edddd2cb391c20473607f136d91a8e9f4ab9e453f6927d2ca9145762920424e3a1dcea89309afde56efd5d32c SHA512 6ff5b0f9cb6b17f66cde1f5585d1b33659dbae8919d34c2e593f68a0bff4d0425aa9704d99284d103702a9cd42f613311f3a87af6b939b1af65dcec80bf2ca8c
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06

diff --git a/dev-lang/R/R-3.4.1.ebuild b/dev-lang/R/R-3.4.1.ebuild
deleted file mode 100644
index 51f38dcc9d6..00000000000
--- a/dev-lang/R/R-3.4.1.ebuild
+++ /dev/null
@@ -1,203 +0,0 @@
-# Copyright 1999-2021 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-inherit bash-completion-r1 autotools flag-o-matic fortran-2 multilib versionator 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="http://www.r-project.org/"
-SRC_URI="
-	mirror://cran/src/base/R-3/${P}.tar.gz
-	https://raw.githubusercontent.com/deepayan/rcompletion/${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 minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
-REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
-
-CDEPEND="
-	app-arch/bzip2:0=
-	app-arch/xz-utils:0=
-	app-text/ghostscript-gpl
-	>=dev-libs/libpcre-8.35:3=
-	net-misc/curl
-	virtual/blas:0
-	|| ( >=sys-apps/coreutils-8.15 app-misc/realpath )
-	cairo? ( x11-libs/cairo:0=[X] x11-libs/pango:0= )
-	icu? ( dev-libs/icu:= )
-	jpeg? ( virtual/jpeg:0 )
-	lapack? ( virtual/lapack:0 )
-	perl? ( dev-lang/perl )
-	png? ( media-libs/libpng:0= )
-	readline? ( sys-libs/readline:0= )
-	tiff? ( media-libs/tiff:0= )
-	tk? ( dev-lang/tk:0= )
-	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
-
-DEPEND="${CDEPEND}
-	virtual/pkgconfig
-	doc? (
-		virtual/latex-base
-		dev-texlive/texlive-fontsrecommended
-	)"
-
-RDEPEND="${CDEPEND}
-	>=sys-libs/zlib-1.2.5.1-r2:0[minizip]
-	java? ( >=virtual/jre-1.5 )"
-
-RESTRICT="minimal? ( test )"
-
-PATCHES=(
-	"${FILESDIR}"/${PN}-3.4.1-parallel.patch
-	"${FILESDIR}"/${PN}-3.4.1-rmath-shared.patch
-)
-
-pkg_pretend() {
-	[[ ${MERGE_TYPE} != binary ]] && use openmp && tc-check-openmp
-}
-
-pkg_setup() {
-	if [[ ${MERGE_TYPE} != binary ]] && use openmp; then
-		if ! tc-check-openmp; then
-			ewarn "OpenMP is not available in your current selected compiler"
-			die "need openmp capable compiler"
-		fi
-		FORTRAN_NEED_OPENMP=1
-	fi
-	fortran-2_pkg_setup
-	filter-ldflags -Wl,-Bdirect -Bdirect
-	# avoid using existing R installation
-	unset R_HOME
-	# Temporary fix for bug #419761
-	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
-		append-flags -fno-ipa-cp-clone
-	fi
-}
-
-src_prepare() {
-	default
-
-	# fix packages.html for doc (gentoo bug #205103)
-	sed -e "s:../../../library:../../../../$(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='\"${EROOT%/}/usr/$(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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
-
-	use lapack && \
-		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
-
-	if use X; then
-		export R_BROWSER="$(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 (OS X)
-	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 ${EROOT%/}/usr/$(get_libdir)/libRmath.dylib:" \
-				-i src/nmath/standalone/Makefile.in || die
-		else
-			append-ldflags -Wl,-rpath="${EROOT%/}/usr/$(get_libdir)/R/lib"
-		fi
-	fi
-	AT_M4DIR=m4 eaclocal
-	eautoconf
-}
-
-src_configure() {
-	#	--with-system-tre \
-	# tre is patched from upstream
-	econf \
-		--enable-byte-compiled-packages \
-		--enable-R-shlib \
-		--disable-R-framework \
-		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
-		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
-		$(use_enable java) \
-		$(use_enable nls) \
-		$(use_enable openmp) \
-		$(use_enable profile R-profiling) \
-		$(use_enable profile memory-profiling) \
-		$(use_enable static-libs static) \
-		$(use_enable static-libs R-static-lib) \
-		$(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) \
-		$(use_with tk tk-config "${EPREFIX}"/usr/$(get_libdir)/tkConfig.sh) \
-		$(use_with tk tcl-config "${EPREFIX}"/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 $(use static-libs && echo static) AR="$(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/${PF}/html/manual
-	fi
-
-	cat > 99R <<-EOF
-		LDPATH=${EROOT%/}/usr/$(get_libdir)/${PN}/lib
-		R_HOME=${EROOT%/}/usr/$(get_libdir)/${PN}
-	EOF
-	doenvd 99R
-	newbashcomp "${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
-		for mod in $(find . -name "*.dylib") ; do
-			mod=${mod#./}
-			install_name_tool -id "${EPREFIX}/usr/$(get_libdir)/R/${mod}" \
-				"${mod}"
-		done
-		popd > /dev/null
-	fi
-	docompress -x /usr/share/doc/${PF}/{BioC_mirrors.csv,CRAN_mirrors.csv,KEYWORDS.db,NEWS.rds}
-}
-
-pkg_postinst() {
-	if use java; then
-		einfo "Re-initializing java paths for ${P}"
-		R CMD javareconf
-	fi
-}

diff --git a/dev-lang/R/R-3.6.3-r1.ebuild b/dev-lang/R/R-3.6.3-r1.ebuild
deleted file mode 100644
index ac47502bca4..00000000000
--- a/dev-lang/R/R-3.6.3-r1.ebuild
+++ /dev/null
@@ -1,234 +0,0 @@
-# Copyright 1999-2021 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=7
-
-inherit bash-completion-r1 autotools flag-o-matic fortran-2 multilib 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="http://www.r-project.org/"
-SRC_URI="
-	mirror://cran/src/base/R-3/${P}.tar.gz
-	https://raw.githubusercontent.com/deepayan/rcompletion/${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 minimal nls openmp perl png prefix profile readline static-libs test tiff tk X"
-REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
-
-# At least one package installation in the test suite requires TeX,
-# and will fail without it (bug #718056).
-BDEPEND="virtual/pkgconfig
-	doc? (
-		virtual/latex-base
-		dev-texlive/texlive-fontsrecommended
-	)
-	test? ( virtual/latex-base )"
-DEPEND="
-	app-arch/bzip2:0=
-	app-arch/xz-utils:0=
-	app-text/ghostscript-gpl
-	dev-libs/libpcre:3=
-	net-libs/libtirpc
-	net-misc/curl
-	virtual/blas:0
-	|| ( sys-apps/coreutils app-misc/realpath )
-	cairo? ( x11-libs/cairo:0=[X=] x11-libs/pango:0= )
-	icu? ( dev-libs/icu:= )
-	jpeg? ( virtual/jpeg:0 )
-	lapack? ( virtual/lapack:0 )
-	perl? ( dev-lang/perl )
-	png? ( media-libs/libpng:0= )
-	readline? ( sys-libs/readline:0= )
-	tiff? ( media-libs/tiff:0= )
-	tk? ( dev-lang/tk:0= )
-	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
-
-RDEPEND="${DEPEND}
-	sys-libs/zlib:0[minizip]
-	java? ( >=virtual/jre-1.5 )"
-
-RESTRICT="minimal? ( test )
-	!test? ( test )"
-
-PATCHES=(
-	"${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 [[ ${MERGE_TYPE} != binary ]] && use openmp; then
-		FORTRAN_NEED_OPENMP=1
-	fi
-	fortran-2_pkg_setup
-	filter-ldflags -Wl,-Bdirect -Bdirect
-	# avoid using existing R installation
-	unset R_HOME
-	# Temporary fix for bug #419761
-	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
-		append-flags -fno-ipa-cp-clone
-	fi
-}
-
-src_prepare() {
-	default
-
-	# fix packages.html for doc (gentoo bug #205103)
-	sed -e "s:../../../library:../../../../$(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='\"${EROOT}/usr/$(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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
-
-	use lapack && \
-		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
-
-	if use X; then
-		export R_BROWSER="$(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 (OS X)
-	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 ${EROOT}/usr/$(get_libdir)/libRmath.dylib:" \
-				-i src/nmath/standalone/Makefile.in || die
-		else
-			append-ldflags -Wl,-rpath="${EROOT}/usr/$(get_libdir)/R/lib"
-		fi
-	fi
-	AT_M4DIR=m4
-	eautoreconf
-}
-
-src_configure() {
-	#	--with-system-tre \
-	# tre is patched from upstream
-	econf \
-		--enable-byte-compiled-packages \
-		--enable-R-shlib \
-		--disable-R-framework \
-		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
-		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
-		$(use_enable java) \
-		$(use_enable nls) \
-		$(use_enable openmp) \
-		$(use_enable profile R-profiling) \
-		$(use_enable profile memory-profiling) \
-		$(use_enable static-libs static) \
-		$(use_enable static-libs R-static-lib) \
-		$(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) \
-		$(use_with tk tk-config "${EPREFIX}"/usr/$(get_libdir)/tkConfig.sh) \
-		$(use_with tk tcl-config "${EPREFIX}"/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 $(use static-libs && echo static) AR="$(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/${PF}/html/manual
-	fi
-
-	cat > 99R <<-EOF
-		LDPATH=${EROOT}/usr/$(get_libdir)/${PN}/lib
-		R_HOME=${EROOT}/usr/$(get_libdir)/${PN}
-	EOF
-	doenvd 99R
-	newbashcomp "${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
-		for mod in $(find . -name "*.dylib") ; do
-			mod=${mod#./}
-			install_name_tool -id "${EPREFIX}/usr/$(get_libdir)/R/${mod}" \
-				"${mod}"
-		done
-		popd > /dev/null
-	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.
-	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.
-	INTERACTIVE_DATA=(
-		BioC_mirrors.csv
-		CRAN_mirrors.csv
-		KEYWORDS.db
-		NEWS.rds
-	)
-
-	NOCOMPRESS_DOCS=( "${INTERACTIVE_DOCS[@]}" "${INTERACTIVE_DATA[@]}" )
-
-	for f in "${NOCOMPRESS_DOCS[@]}"; do
-		docompress -x "/usr/share/doc/${PF}/${f}"
-	done
-}
-
-pkg_postinst() {
-	if use java; then
-		einfo "Re-initializing java paths for ${P}"
-		R CMD javareconf
-	fi
-}

diff --git a/dev-lang/R/R-4.0.2.ebuild b/dev-lang/R/R-4.0.2.ebuild
deleted file mode 100644
index 15faae53360..00000000000
--- a/dev-lang/R/R-4.0.2.ebuild
+++ /dev/null
@@ -1,243 +0,0 @@
-# Copyright 1999-2021 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=7
-
-inherit bash-completion-r1 autotools flag-o-matic fortran-2 multilib 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="http://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 minimal nls openmp perl png prefix profile readline static-libs test tiff tk X"
-
-# One test required profiling in v4.0.2, check the upstream bug:
-#
-#   https://bugs.r-project.org/bugzilla/show_bug.cgi?id=17836
-#
-REQUIRED_USE="png? ( || ( cairo X ) )
-	jpeg? ( || ( cairo X ) )
-	tiff? ( || ( cairo X ) )
-	test? ( profile )
-"
-
-# At least one package installation in the test suite requires TeX,
-# and will fail without it (bug #718056).
-BDEPEND="virtual/pkgconfig
-	doc? (
-		virtual/latex-base
-		dev-texlive/texlive-fontsrecommended
-	)
-	test? ( virtual/latex-base )"
-DEPEND="
-	app-arch/bzip2:0=
-	app-arch/xz-utils:0=
-	app-text/ghostscript-gpl
-	dev-libs/libpcre2:=
-	net-libs/libtirpc
-	net-misc/curl
-	virtual/blas:0
-	|| ( sys-apps/coreutils app-misc/realpath )
-	cairo? ( x11-libs/cairo:0=[X=] x11-libs/pango:0= )
-	icu? ( dev-libs/icu:= )
-	jpeg? ( virtual/jpeg:0 )
-	lapack? ( virtual/lapack:0 )
-	perl? ( dev-lang/perl )
-	png? ( media-libs/libpng:0= )
-	readline? ( sys-libs/readline:0= )
-	tiff? ( media-libs/tiff:0= )
-	tk? ( dev-lang/tk:0= )
-	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
-
-RDEPEND="${DEPEND}
-	sys-libs/zlib:0[minizip]
-	java? ( >=virtual/jre-1.5 )"
-
-RESTRICT="minimal? ( test )
-	!test? ( test )"
-
-PATCHES=(
-	"${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 [[ ${MERGE_TYPE} != binary ]] && use openmp; then
-		FORTRAN_NEED_OPENMP=1
-	fi
-	fortran-2_pkg_setup
-	filter-ldflags -Wl,-Bdirect -Bdirect
-	# avoid using existing R installation
-	unset R_HOME
-	# Temporary fix for bug #419761
-	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
-		append-flags -fno-ipa-cp-clone
-	fi
-}
-
-src_prepare() {
-	default
-
-	# fix packages.html for doc (gentoo bug #205103)
-	sed -e "s:../../../library:../../../../$(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='\"${EROOT}/usr/$(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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
-
-	use lapack && \
-		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
-
-	if use X; then
-		export R_BROWSER="$(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 (OS X)
-	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 ${EROOT}/usr/$(get_libdir)/libRmath.dylib:" \
-				-i src/nmath/standalone/Makefile.in || die
-		else
-			append-ldflags -Wl,-rpath="${EROOT}/usr/$(get_libdir)/R/lib"
-		fi
-	fi
-	AT_M4DIR=m4
-	eautoreconf
-}
-
-src_configure() {
-	#	--with-system-tre \
-	# tre is patched from upstream
-	econf \
-		--enable-byte-compiled-packages \
-		--enable-R-shlib \
-		--disable-R-framework \
-		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
-		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
-		$(use_enable java) \
-		$(use_enable nls) \
-		$(use_enable openmp) \
-		$(use_enable profile R-profiling) \
-		$(use_enable profile memory-profiling) \
-		$(use_enable static-libs static) \
-		$(use_enable static-libs R-static-lib) \
-		$(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) \
-		$(use_with tk tk-config "${EPREFIX}"/usr/$(get_libdir)/tkConfig.sh) \
-		$(use_with tk tcl-config "${EPREFIX}"/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 $(use static-libs && echo static) AR="$(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/${PF}/html/manual
-	fi
-
-	cat > 99R <<-EOF
-		LDPATH=${EROOT}/usr/$(get_libdir)/${PN}/lib
-		R_HOME=${EROOT}/usr/$(get_libdir)/${PN}
-	EOF
-	doenvd 99R
-	newbashcomp "${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
-		for mod in $(find . -name "*.dylib") ; do
-			mod=${mod#./}
-			install_name_tool -id "${EPREFIX}/usr/$(get_libdir)/R/${mod}" \
-				"${mod}"
-		done
-		popd > /dev/null
-	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.
-	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.
-	INTERACTIVE_DATA=(
-		BioC_mirrors.csv
-		CRAN_mirrors.csv
-		KEYWORDS.db
-		NEWS.rds
-	)
-
-	NOCOMPRESS_DOCS=( "${INTERACTIVE_DOCS[@]}" "${INTERACTIVE_DATA[@]}" )
-
-	for f in "${NOCOMPRESS_DOCS[@]}"; do
-		docompress -x "/usr/share/doc/${PF}/${f}"
-	done
-}
-
-pkg_postinst() {
-	if use java; then
-		einfo "Re-initializing java paths for ${P}"
-		R CMD javareconf
-	fi
-}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2021-04-11 18:41 Sergei Trofimovich
  0 siblings, 0 replies; 99+ messages in thread
From: Sergei Trofimovich @ 2021-04-11 18:41 UTC (permalink / raw
  To: gentoo-commits

commit:     a39bc917b6868a3ac54f76c881bb6abc74a50744
Author:     Rolf Eike Beer <eike <AT> sf-mail <DOT> de>
AuthorDate: Sun Apr 11 16:34:27 2021 +0000
Commit:     Sergei Trofimovich <slyfox <AT> gentoo <DOT> org>
CommitDate: Sun Apr 11 18:41:12 2021 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=a39bc917

dev-lang/R: stable 4.0.4 for sparc, bug #765361

Package-Manager: Portage-3.0.17, Repoman-3.0.2
RepoMan-Options: --include-arches="sparc"
Signed-off-by: Rolf Eike Beer <eike <AT> sf-mail.de>
Signed-off-by: Sergei Trofimovich <slyfox <AT> gentoo.org>

 dev-lang/R/R-4.0.4.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.0.4.ebuild b/dev-lang/R/R-4.0.4.ebuild
index df95c6aa5ae..e85bf329f62 100644
--- a/dev-lang/R/R-4.0.4.ebuild
+++ b/dev-lang/R/R-4.0.4.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 arm64 ~hppa ~ia64 ~sparc x86 ~amd64-linux ~x86-linux"
+KEYWORDS="amd64 arm64 ~hppa ~ia64 sparc x86 ~amd64-linux ~x86-linux"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs test tiff tk X"
 
 # One test required profiling in v4.0.2, check the upstream bug:


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2021-04-10 13:33 Mikle Kolyada
  0 siblings, 0 replies; 99+ messages in thread
From: Mikle Kolyada @ 2021-04-10 13:33 UTC (permalink / raw
  To: gentoo-commits

commit:     39ea7b8baaf4a59680f07475e64fbce2b6a36e05
Author:     Mikle Kolyada <zlogene <AT> gentoo <DOT> org>
AuthorDate: Sat Apr 10 13:32:39 2021 +0000
Commit:     Mikle Kolyada <zlogene <AT> gentoo <DOT> org>
CommitDate: Sat Apr 10 13:33:07 2021 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=39ea7b8b

dev-lang/R: Version bump (v4.0.5)

Package-Manager: Portage-3.0.17, Repoman-3.0.2
Signed-off-by: Mikle Kolyada <zlogene <AT> gentoo.org>

 dev-lang/R/Manifest       |   1 +
 dev-lang/R/R-4.0.5.ebuild | 243 ++++++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 244 insertions(+)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index fa930a03bf5..5a48a7b4c96 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -2,4 +2,5 @@ DIST R-3.4.1.tar.gz 30200109 BLAKE2B 03602e9a48759caee8ce047fa6273df7a54af089de4
 DIST R-3.6.3.tar.gz 33308185 BLAKE2B f82751e21d3b502132f8f27d4fc47a921fb085a50c3da3b45e08fbbdd1ab3d42e89b4fa6653a570c21176d79f492277b1d0b86c3c9f4da1386d8b6e4771d4d2c SHA512 9b1dc78922e431bd1af81e6e560b10ad04d121718f680fed32db735d561fd40ea6028759976722db11559f1a78fe684119b766f0567128cb2ee5003aa87a0931
 DIST R-4.0.2.tar.gz 33191186 BLAKE2B 2d5b99c17a9df48a36871f18701efacfaa1e6bb89c0e5c6516fc20966547f34f9079dc52ab18ac7816e0fed25d6230076246e83dc648501553fa2d0cad67b8e4 SHA512 b7330613ee9795f54cde3dd9f7509be83d9156fb8577c17179727ee01450db27704249f68bd48e0331e2df09c2d9833d8bb019c4f9ce9ba669df74650ff2e842
 DIST R-4.0.4.tar.gz 33687611 BLAKE2B 40cdfd98fe6c9193deb729d151631c2b0f935accf5ea6251704b633d2688278af1a5a67317152be023fb4a10315c64e473f58276bb0c3fadb1141c35391ad22e SHA512 811c4407a083eb776f92c3cbacb1dc7eada8890a8c27678c6c82bef9db52b1afaefeb408fbe11e46922740adee498f32e7ddf7451b3ab89cf60773737e47f8be
+DIST R-4.0.5.tar.gz 32466444 BLAKE2B 5dbbd289f4fd6347b4109eecaf65b50b5793a83edddd2cb391c20473607f136d91a8e9f4ab9e453f6927d2ca9145762920424e3a1dcea89309afde56efd5d32c SHA512 6ff5b0f9cb6b17f66cde1f5585d1b33659dbae8919d34c2e593f68a0bff4d0425aa9704d99284d103702a9cd42f613311f3a87af6b939b1af65dcec80bf2ca8c
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06

diff --git a/dev-lang/R/R-4.0.5.ebuild b/dev-lang/R/R-4.0.5.ebuild
new file mode 100644
index 00000000000..560e83d01f7
--- /dev/null
+++ b/dev-lang/R/R-4.0.5.ebuild
@@ -0,0 +1,243 @@
+# Copyright 1999-2021 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=7
+
+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="http://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 minimal nls openmp perl png prefix profile readline static-libs test tiff tk X"
+
+# One test required profiling in v4.0.2, check the upstream bug:
+#
+#   https://bugs.r-project.org/bugzilla/show_bug.cgi?id=17836
+#
+REQUIRED_USE="png? ( || ( cairo X ) )
+	jpeg? ( || ( cairo X ) )
+	tiff? ( || ( cairo X ) )
+	test? ( profile )
+"
+
+# At least one package installation in the test suite requires TeX,
+# and will fail without it (bug #718056).
+BDEPEND="virtual/pkgconfig
+	doc? (
+		virtual/latex-base
+		dev-texlive/texlive-fontsrecommended
+	)
+	test? ( virtual/latex-base )"
+DEPEND="
+	app-arch/bzip2:0=
+	app-arch/xz-utils:0=
+	app-text/ghostscript-gpl
+	dev-libs/libpcre2:=
+	net-libs/libtirpc
+	net-misc/curl
+	virtual/blas:0
+	|| ( sys-apps/coreutils app-misc/realpath )
+	cairo? ( x11-libs/cairo:0=[X=] x11-libs/pango:0= )
+	icu? ( dev-libs/icu:= )
+	jpeg? ( virtual/jpeg:0 )
+	lapack? ( virtual/lapack:0 )
+	perl? ( dev-lang/perl )
+	png? ( media-libs/libpng:0= )
+	readline? ( sys-libs/readline:0= )
+	tiff? ( media-libs/tiff:0= )
+	tk? ( dev-lang/tk:0= )
+	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
+
+RDEPEND="${DEPEND}
+	sys-libs/zlib:0[minizip]
+	java? ( >=virtual/jre-1.5 )"
+
+RESTRICT="minimal? ( test )
+	!test? ( test )"
+
+PATCHES=(
+	"${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 [[ ${MERGE_TYPE} != binary ]] && use openmp; then
+		FORTRAN_NEED_OPENMP=1
+	fi
+	fortran-2_pkg_setup
+	filter-ldflags -Wl,-Bdirect -Bdirect
+	# avoid using existing R installation
+	unset R_HOME
+	# Temporary fix for bug #419761
+	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
+		append-flags -fno-ipa-cp-clone
+	fi
+}
+
+src_prepare() {
+	default
+
+	# fix packages.html for doc (gentoo bug #205103)
+	sed -e "s:../../../library:../../../../$(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='\"${EROOT}/usr/$(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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
+
+	use lapack && \
+		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+	if use X; then
+		export R_BROWSER="$(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 (OS X)
+	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 ${EROOT}/usr/$(get_libdir)/libRmath.dylib:" \
+				-i src/nmath/standalone/Makefile.in || die
+		else
+			append-ldflags -Wl,-rpath="${EROOT}/usr/$(get_libdir)/R/lib"
+		fi
+	fi
+	AT_M4DIR=m4
+	eautoreconf
+}
+
+src_configure() {
+	#	--with-system-tre \
+	# tre is patched from upstream
+	econf \
+		--enable-byte-compiled-packages \
+		--enable-R-shlib \
+		--disable-R-framework \
+		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
+		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
+		$(use_enable java) \
+		$(use_enable nls) \
+		$(use_enable openmp) \
+		$(use_enable profile R-profiling) \
+		$(use_enable profile memory-profiling) \
+		$(use_enable static-libs static) \
+		$(use_enable static-libs R-static-lib) \
+		$(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) \
+		$(use_with tk tk-config "${EPREFIX}"/usr/$(get_libdir)/tkConfig.sh) \
+		$(use_with tk tcl-config "${EPREFIX}"/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 $(use static-libs && echo static) AR="$(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/${PF}/html/manual
+	fi
+
+	cat > 99R <<-EOF
+		LDPATH=${EROOT}/usr/$(get_libdir)/${PN}/lib
+		R_HOME=${EROOT}/usr/$(get_libdir)/${PN}
+	EOF
+	doenvd 99R
+	newbashcomp "${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
+		for mod in $(find . -name "*.dylib") ; do
+			mod=${mod#./}
+			install_name_tool -id "${EPREFIX}/usr/$(get_libdir)/R/${mod}" \
+				"${mod}"
+		done
+		popd > /dev/null
+	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.
+	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.
+	INTERACTIVE_DATA=(
+		BioC_mirrors.csv
+		CRAN_mirrors.csv
+		KEYWORDS.db
+		NEWS.rds
+	)
+
+	NOCOMPRESS_DOCS=( "${INTERACTIVE_DOCS[@]}" "${INTERACTIVE_DATA[@]}" )
+
+	for f in "${NOCOMPRESS_DOCS[@]}"; do
+		docompress -x "/usr/share/doc/${PF}/${f}"
+	done
+}
+
+pkg_postinst() {
+	if use java; then
+		einfo "Re-initializing java paths for ${P}"
+		R CMD javareconf
+	fi
+}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2021-03-28 19:44 Sam James
  0 siblings, 0 replies; 99+ messages in thread
From: Sam James @ 2021-03-28 19:44 UTC (permalink / raw
  To: gentoo-commits

commit:     98619693ef1b38fb8827852e88bb1b3155b46eca
Author:     Sam James <sam <AT> gentoo <DOT> org>
AuthorDate: Sun Mar 28 19:43:00 2021 +0000
Commit:     Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Sun Mar 28 19:44:00 2021 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=98619693

dev-lang/R: Stabilize 4.0.4 arm64, #765361

Signed-off-by: Sam James <sam <AT> gentoo.org>

 dev-lang/R/R-4.0.4.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.0.4.ebuild b/dev-lang/R/R-4.0.4.ebuild
index f5bd6158058..df95c6aa5ae 100644
--- a/dev-lang/R/R-4.0.4.ebuild
+++ b/dev-lang/R/R-4.0.4.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 ~arm64 ~hppa ~ia64 ~sparc x86 ~amd64-linux ~x86-linux"
+KEYWORDS="amd64 arm64 ~hppa ~ia64 ~sparc x86 ~amd64-linux ~x86-linux"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs test tiff tk X"
 
 # One test required profiling in v4.0.2, check the upstream bug:


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2021-03-28 11:00 Sam James
  0 siblings, 0 replies; 99+ messages in thread
From: Sam James @ 2021-03-28 11:00 UTC (permalink / raw
  To: gentoo-commits

commit:     9aff795bd153681fe94f999cfd9f8a9263807ac4
Author:     Sam James <sam <AT> gentoo <DOT> org>
AuthorDate: Sun Mar 28 10:58:59 2021 +0000
Commit:     Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Sun Mar 28 10:58:59 2021 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=9aff795b

dev-lang/R: Stabilize 4.0.4 x86, #765361

Signed-off-by: Sam James <sam <AT> gentoo.org>

 dev-lang/R/R-4.0.4.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.0.4.ebuild b/dev-lang/R/R-4.0.4.ebuild
index 71c2eb33b3f..f5bd6158058 100644
--- a/dev-lang/R/R-4.0.4.ebuild
+++ b/dev-lang/R/R-4.0.4.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 ~arm64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux"
+KEYWORDS="amd64 ~arm64 ~hppa ~ia64 ~sparc x86 ~amd64-linux ~x86-linux"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs test tiff tk X"
 
 # One test required profiling in v4.0.2, check the upstream bug:


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2021-03-19 18:07 Mikle Kolyada
  0 siblings, 0 replies; 99+ messages in thread
From: Mikle Kolyada @ 2021-03-19 18:07 UTC (permalink / raw
  To: gentoo-commits

commit:     3acd15634da49904ebabf38298715ac1a9d07b7f
Author:     Mikle Kolyada <zlogene <AT> gentoo <DOT> org>
AuthorDate: Fri Mar 19 18:07:52 2021 +0000
Commit:     Mikle Kolyada <zlogene <AT> gentoo <DOT> org>
CommitDate: Fri Mar 19 18:07:52 2021 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=3acd1563

dev-lang/R: Stabilize 4.0.4 amd64, #765361

Signed-off-by: Mikle Kolyada <zlogene <AT> gentoo.org>

 dev-lang/R/R-4.0.4.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-4.0.4.ebuild b/dev-lang/R/R-4.0.4.ebuild
index 560e83d01f7..71c2eb33b3f 100644
--- a/dev-lang/R/R-4.0.4.ebuild
+++ b/dev-lang/R/R-4.0.4.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 ~arm64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux"
+KEYWORDS="amd64 ~arm64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs test tiff tk X"
 
 # One test required profiling in v4.0.2, check the upstream bug:


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2021-03-05 13:46 Mikle Kolyada
  0 siblings, 0 replies; 99+ messages in thread
From: Mikle Kolyada @ 2021-03-05 13:46 UTC (permalink / raw
  To: gentoo-commits

commit:     ce6e78601bb5c33852051754f575272a05ef9c5c
Author:     Mikle Kolyada <zlogene <AT> gentoo <DOT> org>
AuthorDate: Fri Mar  5 12:55:15 2021 +0000
Commit:     Mikle Kolyada <zlogene <AT> gentoo <DOT> org>
CommitDate: Fri Mar  5 13:35:11 2021 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=ce6e7860

dev-lang/R: Version bump (v4.0.4)

Package-Manager: Portage-3.0.13, Repoman-3.0.2
Signed-off-by: Mikle Kolyada <zlogene <AT> gentoo.org>

 dev-lang/R/Manifest       |   1 +
 dev-lang/R/R-4.0.4.ebuild | 243 ++++++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 244 insertions(+)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index 4e4ba5f0d22..fa930a03bf5 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,4 +1,5 @@
 DIST R-3.4.1.tar.gz 30200109 BLAKE2B 03602e9a48759caee8ce047fa6273df7a54af089de4489e21953c0e3fc7bfdf720d924f1e0167d3dbf65f63ed42ac10dea8b45289b921cda1c0e6d25a0063ebb SHA512 19bd50c87dc001ef947c15c1760f27ac8986ff6b43c6d90d3093ae184e42963027ef06faf31ec57ac9e519af7a35a2f53f8ea23ef75d800ebbd02945cedc4651
 DIST R-3.6.3.tar.gz 33308185 BLAKE2B f82751e21d3b502132f8f27d4fc47a921fb085a50c3da3b45e08fbbdd1ab3d42e89b4fa6653a570c21176d79f492277b1d0b86c3c9f4da1386d8b6e4771d4d2c SHA512 9b1dc78922e431bd1af81e6e560b10ad04d121718f680fed32db735d561fd40ea6028759976722db11559f1a78fe684119b766f0567128cb2ee5003aa87a0931
 DIST R-4.0.2.tar.gz 33191186 BLAKE2B 2d5b99c17a9df48a36871f18701efacfaa1e6bb89c0e5c6516fc20966547f34f9079dc52ab18ac7816e0fed25d6230076246e83dc648501553fa2d0cad67b8e4 SHA512 b7330613ee9795f54cde3dd9f7509be83d9156fb8577c17179727ee01450db27704249f68bd48e0331e2df09c2d9833d8bb019c4f9ce9ba669df74650ff2e842
+DIST R-4.0.4.tar.gz 33687611 BLAKE2B 40cdfd98fe6c9193deb729d151631c2b0f935accf5ea6251704b633d2688278af1a5a67317152be023fb4a10315c64e473f58276bb0c3fadb1141c35391ad22e SHA512 811c4407a083eb776f92c3cbacb1dc7eada8890a8c27678c6c82bef9db52b1afaefeb408fbe11e46922740adee498f32e7ddf7451b3ab89cf60773737e47f8be
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06

diff --git a/dev-lang/R/R-4.0.4.ebuild b/dev-lang/R/R-4.0.4.ebuild
new file mode 100644
index 00000000000..560e83d01f7
--- /dev/null
+++ b/dev-lang/R/R-4.0.4.ebuild
@@ -0,0 +1,243 @@
+# Copyright 1999-2021 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=7
+
+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="http://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 minimal nls openmp perl png prefix profile readline static-libs test tiff tk X"
+
+# One test required profiling in v4.0.2, check the upstream bug:
+#
+#   https://bugs.r-project.org/bugzilla/show_bug.cgi?id=17836
+#
+REQUIRED_USE="png? ( || ( cairo X ) )
+	jpeg? ( || ( cairo X ) )
+	tiff? ( || ( cairo X ) )
+	test? ( profile )
+"
+
+# At least one package installation in the test suite requires TeX,
+# and will fail without it (bug #718056).
+BDEPEND="virtual/pkgconfig
+	doc? (
+		virtual/latex-base
+		dev-texlive/texlive-fontsrecommended
+	)
+	test? ( virtual/latex-base )"
+DEPEND="
+	app-arch/bzip2:0=
+	app-arch/xz-utils:0=
+	app-text/ghostscript-gpl
+	dev-libs/libpcre2:=
+	net-libs/libtirpc
+	net-misc/curl
+	virtual/blas:0
+	|| ( sys-apps/coreutils app-misc/realpath )
+	cairo? ( x11-libs/cairo:0=[X=] x11-libs/pango:0= )
+	icu? ( dev-libs/icu:= )
+	jpeg? ( virtual/jpeg:0 )
+	lapack? ( virtual/lapack:0 )
+	perl? ( dev-lang/perl )
+	png? ( media-libs/libpng:0= )
+	readline? ( sys-libs/readline:0= )
+	tiff? ( media-libs/tiff:0= )
+	tk? ( dev-lang/tk:0= )
+	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
+
+RDEPEND="${DEPEND}
+	sys-libs/zlib:0[minizip]
+	java? ( >=virtual/jre-1.5 )"
+
+RESTRICT="minimal? ( test )
+	!test? ( test )"
+
+PATCHES=(
+	"${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 [[ ${MERGE_TYPE} != binary ]] && use openmp; then
+		FORTRAN_NEED_OPENMP=1
+	fi
+	fortran-2_pkg_setup
+	filter-ldflags -Wl,-Bdirect -Bdirect
+	# avoid using existing R installation
+	unset R_HOME
+	# Temporary fix for bug #419761
+	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
+		append-flags -fno-ipa-cp-clone
+	fi
+}
+
+src_prepare() {
+	default
+
+	# fix packages.html for doc (gentoo bug #205103)
+	sed -e "s:../../../library:../../../../$(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='\"${EROOT}/usr/$(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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
+
+	use lapack && \
+		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+	if use X; then
+		export R_BROWSER="$(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 (OS X)
+	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 ${EROOT}/usr/$(get_libdir)/libRmath.dylib:" \
+				-i src/nmath/standalone/Makefile.in || die
+		else
+			append-ldflags -Wl,-rpath="${EROOT}/usr/$(get_libdir)/R/lib"
+		fi
+	fi
+	AT_M4DIR=m4
+	eautoreconf
+}
+
+src_configure() {
+	#	--with-system-tre \
+	# tre is patched from upstream
+	econf \
+		--enable-byte-compiled-packages \
+		--enable-R-shlib \
+		--disable-R-framework \
+		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
+		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
+		$(use_enable java) \
+		$(use_enable nls) \
+		$(use_enable openmp) \
+		$(use_enable profile R-profiling) \
+		$(use_enable profile memory-profiling) \
+		$(use_enable static-libs static) \
+		$(use_enable static-libs R-static-lib) \
+		$(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) \
+		$(use_with tk tk-config "${EPREFIX}"/usr/$(get_libdir)/tkConfig.sh) \
+		$(use_with tk tcl-config "${EPREFIX}"/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 $(use static-libs && echo static) AR="$(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/${PF}/html/manual
+	fi
+
+	cat > 99R <<-EOF
+		LDPATH=${EROOT}/usr/$(get_libdir)/${PN}/lib
+		R_HOME=${EROOT}/usr/$(get_libdir)/${PN}
+	EOF
+	doenvd 99R
+	newbashcomp "${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
+		for mod in $(find . -name "*.dylib") ; do
+			mod=${mod#./}
+			install_name_tool -id "${EPREFIX}/usr/$(get_libdir)/R/${mod}" \
+				"${mod}"
+		done
+		popd > /dev/null
+	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.
+	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.
+	INTERACTIVE_DATA=(
+		BioC_mirrors.csv
+		CRAN_mirrors.csv
+		KEYWORDS.db
+		NEWS.rds
+	)
+
+	NOCOMPRESS_DOCS=( "${INTERACTIVE_DOCS[@]}" "${INTERACTIVE_DATA[@]}" )
+
+	for f in "${NOCOMPRESS_DOCS[@]}"; do
+		docompress -x "/usr/share/doc/${PF}/${f}"
+	done
+}
+
+pkg_postinst() {
+	if use java; then
+		einfo "Re-initializing java paths for ${P}"
+		R CMD javareconf
+	fi
+}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2020-12-13 16:59 Fabian Groffen
  0 siblings, 0 replies; 99+ messages in thread
From: Fabian Groffen @ 2020-12-13 16:59 UTC (permalink / raw
  To: gentoo-commits

commit:     8a27553c3b1915174847f348f4e7b42f358308f5
Author:     Fabian Groffen <grobian <AT> gentoo <DOT> org>
AuthorDate: Sun Dec 13 16:59:30 2020 +0000
Commit:     Fabian Groffen <grobian <AT> gentoo <DOT> org>
CommitDate: Sun Dec 13 16:59:30 2020 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=8a27553c

dev-lang/R: drop ~x64-macos keyword

Closes: https://bugs.gentoo.org/575860
Package-Manager: Portage-3.0.9, Repoman-3.0.2
Signed-off-by: Fabian Groffen <grobian <AT> gentoo.org>

 dev-lang/R/R-3.4.1.ebuild    | 2 +-
 dev-lang/R/R-3.6.3-r1.ebuild | 2 +-
 dev-lang/R/R-4.0.2.ebuild    | 2 +-
 3 files changed, 3 insertions(+), 3 deletions(-)

diff --git a/dev-lang/R/R-3.4.1.ebuild b/dev-lang/R/R-3.4.1.ebuild
index b5406437114..39b6d57442c 100644
--- a/dev-lang/R/R-3.4.1.ebuild
+++ b/dev-lang/R/R-3.4.1.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 arm64 ~hppa ~ia64 sparc x86 ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="amd64 arm64 ~hppa ~ia64 sparc x86 ~amd64-linux ~x86-linux"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 

diff --git a/dev-lang/R/R-3.6.3-r1.ebuild b/dev-lang/R/R-3.6.3-r1.ebuild
index 274948dece1..bd149544e48 100644
--- a/dev-lang/R/R-3.6.3-r1.ebuild
+++ b/dev-lang/R/R-3.6.3-r1.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 ~arm64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="~amd64 ~arm64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs test tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 

diff --git a/dev-lang/R/R-4.0.2.ebuild b/dev-lang/R/R-4.0.2.ebuild
index 83d1ecd9385..f900a51189f 100644
--- a/dev-lang/R/R-4.0.2.ebuild
+++ b/dev-lang/R/R-4.0.2.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 ~arm64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="~amd64 ~arm64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs test tiff tk X"
 
 # One test required profiling in v4.0.2, check the upstream bug:


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2020-06-22 23:38 Michael Orlitzky
  0 siblings, 0 replies; 99+ messages in thread
From: Michael Orlitzky @ 2020-06-22 23:38 UTC (permalink / raw
  To: gentoo-commits

commit:     62b3e0341e86460cb0d3c1abbfe79342cd606035
Author:     Michael Orlitzky <mjo <AT> gentoo <DOT> org>
AuthorDate: Mon Jun 22 23:35:56 2020 +0000
Commit:     Michael Orlitzky <mjo <AT> gentoo <DOT> org>
CommitDate: Mon Jun 22 23:38:28 2020 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=62b3e034

dev-lang/R: new version 4.0.2.

I swapped out pcre for pcre2 and had to require USE=profile to run the
test suite, but other than that a copy/paste.

Package-Manager: Portage-2.3.99, Repoman-2.3.22
Signed-off-by: Michael Orlitzky <mjo <AT> gentoo.org>

 dev-lang/R/Manifest                           |  2 +-
 dev-lang/R/{R-4.0.0.ebuild => R-4.0.2.ebuild} | 13 +++++++++++--
 2 files changed, 12 insertions(+), 3 deletions(-)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index 18eb82e449d..4e4ba5f0d22 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,4 +1,4 @@
 DIST R-3.4.1.tar.gz 30200109 BLAKE2B 03602e9a48759caee8ce047fa6273df7a54af089de4489e21953c0e3fc7bfdf720d924f1e0167d3dbf65f63ed42ac10dea8b45289b921cda1c0e6d25a0063ebb SHA512 19bd50c87dc001ef947c15c1760f27ac8986ff6b43c6d90d3093ae184e42963027ef06faf31ec57ac9e519af7a35a2f53f8ea23ef75d800ebbd02945cedc4651
 DIST R-3.6.3.tar.gz 33308185 BLAKE2B f82751e21d3b502132f8f27d4fc47a921fb085a50c3da3b45e08fbbdd1ab3d42e89b4fa6653a570c21176d79f492277b1d0b86c3c9f4da1386d8b6e4771d4d2c SHA512 9b1dc78922e431bd1af81e6e560b10ad04d121718f680fed32db735d561fd40ea6028759976722db11559f1a78fe684119b766f0567128cb2ee5003aa87a0931
-DIST R-4.0.0.tar.gz 33173947 BLAKE2B 6b67ba5b008f1fd3d5fa3c92805c1e206ece64e821124e3b2d6f72a550ed8084699916b88d41dcc1985b57a286518dcf63d240503aeb2ae7fe31e66c0d30396d SHA512 fa8b684fd0c8a1c9784b8e0e749b34141e513a83d4f3b6792cdf97826264191e7484f6705014974c9268570e717e1a1d39f6a88225fc751189b6f51e1a303163
+DIST R-4.0.2.tar.gz 33191186 BLAKE2B 2d5b99c17a9df48a36871f18701efacfaa1e6bb89c0e5c6516fc20966547f34f9079dc52ab18ac7816e0fed25d6230076246e83dc648501553fa2d0cad67b8e4 SHA512 b7330613ee9795f54cde3dd9f7509be83d9156fb8577c17179727ee01450db27704249f68bd48e0331e2df09c2d9833d8bb019c4f9ce9ba669df74650ff2e842
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06

diff --git a/dev-lang/R/R-4.0.0.ebuild b/dev-lang/R/R-4.0.2.ebuild
similarity index 96%
rename from dev-lang/R/R-4.0.0.ebuild
rename to dev-lang/R/R-4.0.2.ebuild
index 64a0a4e0b49..83d1ecd9385 100644
--- a/dev-lang/R/R-4.0.0.ebuild
+++ b/dev-lang/R/R-4.0.2.ebuild
@@ -18,7 +18,16 @@ LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
 KEYWORDS="~amd64 ~arm64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs test tiff tk X"
-REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
+
+# One test required profiling in v4.0.2, check the upstream bug:
+#
+#   https://bugs.r-project.org/bugzilla/show_bug.cgi?id=17836
+#
+REQUIRED_USE="png? ( || ( cairo X ) )
+	jpeg? ( || ( cairo X ) )
+	tiff? ( || ( cairo X ) )
+	test? ( profile )
+"
 
 # At least one package installation in the test suite requires TeX,
 # and will fail without it (bug #718056).
@@ -32,7 +41,7 @@ DEPEND="
 	app-arch/bzip2:0=
 	app-arch/xz-utils:0=
 	app-text/ghostscript-gpl
-	dev-libs/libpcre:3=
+	dev-libs/libpcre2:=
 	net-libs/libtirpc
 	net-misc/curl
 	virtual/blas:0


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2020-05-24  5:04 Mark Wright
  0 siblings, 0 replies; 99+ messages in thread
From: Mark Wright @ 2020-05-24  5:04 UTC (permalink / raw
  To: gentoo-commits

commit:     c50d7c8594743247a9df75e21ad0dd6dc3747911
Author:     Mark Wright <gienah <AT> gentoo <DOT> org>
AuthorDate: Sun May 24 05:00:04 2020 +0000
Commit:     Mark Wright <gienah <AT> gentoo <DOT> org>
CommitDate: Sun May 24 05:00:04 2020 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=c50d7c85

dev-lang/R: Thanks to Neil for help with bump to 4.0.0

Closes: https://bugs.gentoo.org/719210
Package-Manager: Portage-2.3.99, Repoman-2.3.22
Signed-off-by: Mark Wright <gienah <AT> gentoo.org>

 dev-lang/R/Manifest       |   1 +
 dev-lang/R/R-4.0.0.ebuild | 234 ++++++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 235 insertions(+)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index 7fd12a8b015..18eb82e449d 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,3 +1,4 @@
 DIST R-3.4.1.tar.gz 30200109 BLAKE2B 03602e9a48759caee8ce047fa6273df7a54af089de4489e21953c0e3fc7bfdf720d924f1e0167d3dbf65f63ed42ac10dea8b45289b921cda1c0e6d25a0063ebb SHA512 19bd50c87dc001ef947c15c1760f27ac8986ff6b43c6d90d3093ae184e42963027ef06faf31ec57ac9e519af7a35a2f53f8ea23ef75d800ebbd02945cedc4651
 DIST R-3.6.3.tar.gz 33308185 BLAKE2B f82751e21d3b502132f8f27d4fc47a921fb085a50c3da3b45e08fbbdd1ab3d42e89b4fa6653a570c21176d79f492277b1d0b86c3c9f4da1386d8b6e4771d4d2c SHA512 9b1dc78922e431bd1af81e6e560b10ad04d121718f680fed32db735d561fd40ea6028759976722db11559f1a78fe684119b766f0567128cb2ee5003aa87a0931
+DIST R-4.0.0.tar.gz 33173947 BLAKE2B 6b67ba5b008f1fd3d5fa3c92805c1e206ece64e821124e3b2d6f72a550ed8084699916b88d41dcc1985b57a286518dcf63d240503aeb2ae7fe31e66c0d30396d SHA512 fa8b684fd0c8a1c9784b8e0e749b34141e513a83d4f3b6792cdf97826264191e7484f6705014974c9268570e717e1a1d39f6a88225fc751189b6f51e1a303163
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06

diff --git a/dev-lang/R/R-4.0.0.ebuild b/dev-lang/R/R-4.0.0.ebuild
new file mode 100644
index 00000000000..64a0a4e0b49
--- /dev/null
+++ b/dev-lang/R/R-4.0.0.ebuild
@@ -0,0 +1,234 @@
+# Copyright 1999-2020 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=7
+
+inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib 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="http://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 ~x64-macos"
+IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs test tiff tk X"
+REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
+
+# At least one package installation in the test suite requires TeX,
+# and will fail without it (bug #718056).
+BDEPEND="virtual/pkgconfig
+	doc? (
+		virtual/latex-base
+		dev-texlive/texlive-fontsrecommended
+	)
+	test? ( virtual/latex-base )"
+DEPEND="
+	app-arch/bzip2:0=
+	app-arch/xz-utils:0=
+	app-text/ghostscript-gpl
+	dev-libs/libpcre:3=
+	net-libs/libtirpc
+	net-misc/curl
+	virtual/blas:0
+	|| ( sys-apps/coreutils app-misc/realpath )
+	cairo? ( x11-libs/cairo:0=[X=] x11-libs/pango:0= )
+	icu? ( dev-libs/icu:= )
+	jpeg? ( virtual/jpeg:0 )
+	lapack? ( virtual/lapack:0 )
+	perl? ( dev-lang/perl )
+	png? ( media-libs/libpng:0= )
+	readline? ( sys-libs/readline:0= )
+	tiff? ( media-libs/tiff:0= )
+	tk? ( dev-lang/tk:0= )
+	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
+
+RDEPEND="${DEPEND}
+	sys-libs/zlib:0[minizip]
+	java? ( >=virtual/jre-1.5 )"
+
+RESTRICT="minimal? ( test )
+	!test? ( test )"
+
+PATCHES=(
+	"${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 [[ ${MERGE_TYPE} != binary ]] && use openmp; then
+		FORTRAN_NEED_OPENMP=1
+	fi
+	fortran-2_pkg_setup
+	filter-ldflags -Wl,-Bdirect -Bdirect
+	# avoid using existing R installation
+	unset R_HOME
+	# Temporary fix for bug #419761
+	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
+		append-flags -fno-ipa-cp-clone
+	fi
+}
+
+src_prepare() {
+	default
+
+	# fix packages.html for doc (gentoo bug #205103)
+	sed -e "s:../../../library:../../../../$(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='\"${EROOT}/usr/$(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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
+
+	use lapack && \
+		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+	if use X; then
+		export R_BROWSER="$(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 (OS X)
+	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 ${EROOT}/usr/$(get_libdir)/libRmath.dylib:" \
+				-i src/nmath/standalone/Makefile.in || die
+		else
+			append-ldflags -Wl,-rpath="${EROOT}/usr/$(get_libdir)/R/lib"
+		fi
+	fi
+	AT_M4DIR=m4
+	eautoreconf
+}
+
+src_configure() {
+	#	--with-system-tre \
+	# tre is patched from upstream
+	econf \
+		--enable-byte-compiled-packages \
+		--enable-R-shlib \
+		--disable-R-framework \
+		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
+		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
+		$(use_enable java) \
+		$(use_enable nls) \
+		$(use_enable openmp) \
+		$(use_enable profile R-profiling) \
+		$(use_enable profile memory-profiling) \
+		$(use_enable static-libs static) \
+		$(use_enable static-libs R-static-lib) \
+		$(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) \
+		$(use_with tk tk-config "${EPREFIX}"/usr/$(get_libdir)/tkConfig.sh) \
+		$(use_with tk tcl-config "${EPREFIX}"/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 $(use static-libs && echo static) AR="$(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/${PF}/html/manual
+	fi
+
+	cat > 99R <<-EOF
+		LDPATH=${EROOT}/usr/$(get_libdir)/${PN}/lib
+		R_HOME=${EROOT}/usr/$(get_libdir)/${PN}
+	EOF
+	doenvd 99R
+	newbashcomp "${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
+		for mod in $(find . -name "*.dylib") ; do
+			mod=${mod#./}
+			install_name_tool -id "${EPREFIX}/usr/$(get_libdir)/R/${mod}" \
+				"${mod}"
+		done
+		popd > /dev/null
+	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.
+	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.
+	INTERACTIVE_DATA=(
+		BioC_mirrors.csv
+		CRAN_mirrors.csv
+		KEYWORDS.db
+		NEWS.rds
+	)
+
+	NOCOMPRESS_DOCS=( "${INTERACTIVE_DOCS[@]}" "${INTERACTIVE_DATA[@]}" )
+
+	for f in "${NOCOMPRESS_DOCS[@]}"; do
+		docompress -x "/usr/share/doc/${PF}/${f}"
+	done
+}
+
+pkg_postinst() {
+	if use java; then
+		einfo "Re-initializing java paths for ${P}"
+		R CMD javareconf
+	fi
+}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2020-04-28 15:34 Michael Orlitzky
  0 siblings, 0 replies; 99+ messages in thread
From: Michael Orlitzky @ 2020-04-28 15:34 UTC (permalink / raw
  To: gentoo-commits

commit:     8f4f964350c4e5aa6f31af96c7271d39d2a7794a
Author:     Michael Orlitzky <mjo <AT> gentoo <DOT> org>
AuthorDate: Tue Apr 28 15:27:27 2020 +0000
Commit:     Michael Orlitzky <mjo <AT> gentoo <DOT> org>
CommitDate: Tue Apr 28 15:33:52 2020 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=8f4f9643

dev-lang/R: pull in LaTeX stuff for the test suite.

At least one test (reg-packages.R) tries to run texi2dvi which in turn
looks for /usr/bin/tex, and will fail without it. This commit adds
IUSE=test, and pulls in virtual/latex-base when it is set.

Bug: https://bugs.gentoo.org/718056
Package-Manager: Portage-2.3.89, Repoman-2.3.20
Signed-off-by: Michael Orlitzky <mjo <AT> gentoo.org>

 dev-lang/R/R-3.6.3-r1.ebuild | 10 +++++++---
 1 file changed, 7 insertions(+), 3 deletions(-)

diff --git a/dev-lang/R/R-3.6.3-r1.ebuild b/dev-lang/R/R-3.6.3-r1.ebuild
index 0f45bd0490e..274948dece1 100644
--- a/dev-lang/R/R-3.6.3-r1.ebuild
+++ b/dev-lang/R/R-3.6.3-r1.ebuild
@@ -17,14 +17,17 @@ SRC_URI="
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
 KEYWORDS="~amd64 ~arm64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux ~x64-macos"
-IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
+IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs test tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 
+# At least one package installation in the test suite requires TeX,
+# and will fail without it (bug #718056).
 BDEPEND="virtual/pkgconfig
 	doc? (
 		virtual/latex-base
 		dev-texlive/texlive-fontsrecommended
-	)"
+	)
+	test? ( virtual/latex-base )"
 DEPEND="
 	app-arch/bzip2:0=
 	app-arch/xz-utils:0=
@@ -49,7 +52,8 @@ RDEPEND="${DEPEND}
 	sys-libs/zlib:0[minizip]
 	java? ( >=virtual/jre-1.5 )"
 
-RESTRICT="minimal? ( test )"
+RESTRICT="minimal? ( test )
+	!test? ( test )"
 
 PATCHES=(
 	"${FILESDIR}"/${PN}-3.4.1-parallel.patch


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2020-04-18  1:33 Michael Orlitzky
  0 siblings, 0 replies; 99+ messages in thread
From: Michael Orlitzky @ 2020-04-18  1:33 UTC (permalink / raw
  To: gentoo-commits

commit:     de035788fb8ceddd4a7b3fd038537f2e530009f1
Author:     Michael Orlitzky <mjo <AT> gentoo <DOT> org>
AuthorDate: Fri Apr 17 23:23:38 2020 +0000
Commit:     Michael Orlitzky <mjo <AT> gentoo <DOT> org>
CommitDate: Sat Apr 18 01:31:10 2020 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=de035788

dev-lang/R: new revision that leaves more docs uncompressed.

The R interactive shell encourages users to read several documentation
files using functions like contributors() and RShowDoc() that rely on
the files being installed with their god-given names. This new revision
tries to fix a few of the more common ones with docompress -x.

Closes: https://bugs.gentoo.org/556706
Package-Manager: Portage-2.3.89, Repoman-2.3.20
Signed-off-by: Michael Orlitzky <mjo <AT> gentoo.org>

 dev-lang/R/{R-3.6.3.ebuild => R-3.6.3-r1.ebuild} | 32 +++++++++++++++++++++++-
 1 file changed, 31 insertions(+), 1 deletion(-)

diff --git a/dev-lang/R/R-3.6.3.ebuild b/dev-lang/R/R-3.6.3-r1.ebuild
similarity index 86%
rename from dev-lang/R/R-3.6.3.ebuild
rename to dev-lang/R/R-3.6.3-r1.ebuild
index f797705dcd7..0f45bd0490e 100644
--- a/dev-lang/R/R-3.6.3.ebuild
+++ b/dev-lang/R/R-3.6.3-r1.ebuild
@@ -189,7 +189,37 @@ src_install() {
 		done
 		popd > /dev/null
 	fi
-	docompress -x /usr/share/doc/${PF}/{BioC_mirrors.csv,CRAN_mirrors.csv,KEYWORDS.db,NEWS.rds}
+
+	# Users are encouraged to access some of the the R documentation
+	# interactively, through functions like "contributors()" that
+	# tries to open the "AUTHORS" file. Other files can be accessed
+	# by name with RShowDoc(), and the documentation for e.g. license()
+	# and RShowDoc() suggests a few of these names. Here we try to
+	# collect as many names as possible that a user might actually
+	# try to view through R, because if we don't decompress them,
+	# then R doesn't know what to do with 'em. Bug #556706.
+	INTERACTIVE_DOCS=(
+		AUTHORS
+		COPYING
+		FAQ
+		NEWS
+		THANKS
+	)
+
+	# Other data sources that are shipped as "documentation," but which
+	# need to be accessible via their original unmolested filenames.
+	INTERACTIVE_DATA=(
+		BioC_mirrors.csv
+		CRAN_mirrors.csv
+		KEYWORDS.db
+		NEWS.rds
+	)
+
+	NOCOMPRESS_DOCS=( "${INTERACTIVE_DOCS[@]}" "${INTERACTIVE_DATA[@]}" )
+
+	for f in "${NOCOMPRESS_DOCS[@]}"; do
+		docompress -x "/usr/share/doc/${PF}/${f}"
+	done
 }
 
 pkg_postinst() {


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2020-03-25 15:13 Michael Orlitzky
  0 siblings, 0 replies; 99+ messages in thread
From: Michael Orlitzky @ 2020-03-25 15:13 UTC (permalink / raw
  To: gentoo-commits

commit:     e8c9f87bd5ebdcf7ebc5af973abe52c0a9084e97
Author:     Michael Orlitzky <mjo <AT> gentoo <DOT> org>
AuthorDate: Wed Mar 25 15:06:10 2020 +0000
Commit:     Michael Orlitzky <mjo <AT> gentoo <DOT> org>
CommitDate: Wed Mar 25 15:10:12 2020 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=e8c9f87b

dev-lang/R: remove old "unused" versions.

Package-Manager: Portage-2.3.89, Repoman-2.3.20
Signed-off-by: Michael Orlitzky <mjo <AT> gentoo.org>

 dev-lang/R/Manifest       |   3 -
 dev-lang/R/R-3.5.3.ebuild | 204 ---------------------------------------------
 dev-lang/R/R-3.6.0.ebuild | 204 ---------------------------------------------
 dev-lang/R/R-3.6.2.ebuild | 206 ----------------------------------------------
 4 files changed, 617 deletions(-)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index 9db20651cde..7fd12a8b015 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,6 +1,3 @@
 DIST R-3.4.1.tar.gz 30200109 BLAKE2B 03602e9a48759caee8ce047fa6273df7a54af089de4489e21953c0e3fc7bfdf720d924f1e0167d3dbf65f63ed42ac10dea8b45289b921cda1c0e6d25a0063ebb SHA512 19bd50c87dc001ef947c15c1760f27ac8986ff6b43c6d90d3093ae184e42963027ef06faf31ec57ac9e519af7a35a2f53f8ea23ef75d800ebbd02945cedc4651
-DIST R-3.5.3.tar.gz 30205979 BLAKE2B 60dde4c1a7874df0b113630577d943d581d9e0844383a5cb7eda7f62470177d541704a888c33ded216f8b1f088cda493d7716693f5e2451effe3639ce2286dd1 SHA512 077cbd4bc9f19a3a2485afbd4d8e08e0754ddcb9a10164cbc8478f239d5ed0ffaf6796929f154cce1c8aea549c32d460049fc036dc326174d1dbb0a1ddb5f5ef
-DIST R-3.6.0.tar.gz 30449618 BLAKE2B 2fb2f1252f5ead97ab42eb1f71fa0be1e8aec2f6cce182956ec1c35b43b70b58f579faf5f3ca11efb8e9c24a9ed836b5b690cb23858249bc7f575aca4709bc3b SHA512 b2e17b909b6387abb964492e2e9370f913295ca7ac99bab0e965c43ed3c4635e27468c326fb2bca3c529b03c731b0170d9e777a194ad4d6c5a983c050223d8c8
-DIST R-3.6.2.tar.gz 33311930 BLAKE2B 53f344e80e017064a275c271d98be714e210193931a120e7ebc79ee6cf0ebc0c24c090acc25560998f26600c05305147816ab782632d99beaea83b3a9b5e2a21 SHA512 17513e9f4dd27c61c11f7aa45227aeeeefb375bf5d4e193b471724f379a1b2da33e127cbe91aa175cbbbb048b892047e2f610280585c8159242a6c94790b07f9
 DIST R-3.6.3.tar.gz 33308185 BLAKE2B f82751e21d3b502132f8f27d4fc47a921fb085a50c3da3b45e08fbbdd1ab3d42e89b4fa6653a570c21176d79f492277b1d0b86c3c9f4da1386d8b6e4771d4d2c SHA512 9b1dc78922e431bd1af81e6e560b10ad04d121718f680fed32db735d561fd40ea6028759976722db11559f1a78fe684119b766f0567128cb2ee5003aa87a0931
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06

diff --git a/dev-lang/R/R-3.5.3.ebuild b/dev-lang/R/R-3.5.3.ebuild
deleted file mode 100644
index 66c38fbe2f1..00000000000
--- a/dev-lang/R/R-3.5.3.ebuild
+++ /dev/null
@@ -1,204 +0,0 @@
-# Copyright 1999-2020 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=7
-
-inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib 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="http://www.r-project.org/"
-SRC_URI="
-	mirror://cran/src/base/R-3/${P}.tar.gz
-	https://raw.githubusercontent.com/deepayan/rcompletion/${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 ~x64-macos"
-IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
-REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
-
-CDEPEND="
-	app-arch/bzip2:0=
-	app-arch/xz-utils:0=
-	app-text/ghostscript-gpl
-	>=dev-libs/libpcre-8.35:3=
-	net-libs/libtirpc
-	net-misc/curl
-	virtual/blas:0
-	|| ( >=sys-apps/coreutils-8.15 app-misc/realpath )
-	cairo? ( x11-libs/cairo:0=[X=] x11-libs/pango:0= )
-	icu? ( dev-libs/icu:= )
-	jpeg? ( virtual/jpeg:0 )
-	lapack? ( virtual/lapack:0 )
-	perl? ( dev-lang/perl )
-	png? ( media-libs/libpng:0= )
-	readline? ( sys-libs/readline:0= )
-	tiff? ( media-libs/tiff:0= )
-	tk? ( dev-lang/tk:0= )
-	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
-
-DEPEND="${CDEPEND}
-	virtual/pkgconfig
-	doc? (
-		virtual/latex-base
-		dev-texlive/texlive-fontsrecommended
-	)"
-
-RDEPEND="${CDEPEND}
-	>=sys-libs/zlib-1.2.5.1-r2:0[minizip]
-	java? ( >=virtual/jre-1.5 )"
-
-RESTRICT="minimal? ( test )"
-
-PATCHES=(
-	"${FILESDIR}"/${PN}-3.4.1-parallel.patch
-	"${FILESDIR}"/${PN}-3.4.1-rmath-shared.patch
-)
-
-pkg_pretend() {
-	[[ ${MERGE_TYPE} != binary ]] && use openmp && tc-check-openmp
-}
-
-pkg_setup() {
-	if [[ ${MERGE_TYPE} != binary ]] && use openmp; then
-		if ! tc-check-openmp; then
-			ewarn "OpenMP is not available in your current selected compiler"
-			die "need openmp capable compiler"
-		fi
-		FORTRAN_NEED_OPENMP=1
-	fi
-	fortran-2_pkg_setup
-	filter-ldflags -Wl,-Bdirect -Bdirect
-	# avoid using existing R installation
-	unset R_HOME
-	# Temporary fix for bug #419761
-	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
-		append-flags -fno-ipa-cp-clone
-	fi
-}
-
-src_prepare() {
-	default
-
-	# fix packages.html for doc (gentoo bug #205103)
-	sed -e "s:../../../library:../../../../$(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='\"${EROOT}/usr/$(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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
-
-	use lapack && \
-		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
-
-	if use X; then
-		export R_BROWSER="$(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 (OS X)
-	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 ${EROOT}/usr/$(get_libdir)/libRmath.dylib:" \
-				-i src/nmath/standalone/Makefile.in || die
-		else
-			append-ldflags -Wl,-rpath="${EROOT}/usr/$(get_libdir)/R/lib"
-		fi
-	fi
-	AT_M4DIR=m4
-	eautoreconf
-}
-
-src_configure() {
-	#	--with-system-tre \
-	# tre is patched from upstream
-	econf \
-		--enable-byte-compiled-packages \
-		--enable-R-shlib \
-		--disable-R-framework \
-		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
-		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
-		$(use_enable java) \
-		$(use_enable nls) \
-		$(use_enable openmp) \
-		$(use_enable profile R-profiling) \
-		$(use_enable profile memory-profiling) \
-		$(use_enable static-libs static) \
-		$(use_enable static-libs R-static-lib) \
-		$(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) \
-		$(use_with tk tk-config "${EPREFIX}"/usr/$(get_libdir)/tkConfig.sh) \
-		$(use_with tk tcl-config "${EPREFIX}"/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 $(use static-libs && echo static) AR="$(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/${PF}/html/manual
-	fi
-
-	cat > 99R <<-EOF
-		LDPATH=${EROOT}/usr/$(get_libdir)/${PN}/lib
-		R_HOME=${EROOT}/usr/$(get_libdir)/${PN}
-	EOF
-	doenvd 99R
-	newbashcomp "${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
-		for mod in $(find . -name "*.dylib") ; do
-			mod=${mod#./}
-			install_name_tool -id "${EPREFIX}/usr/$(get_libdir)/R/${mod}" \
-				"${mod}"
-		done
-		popd > /dev/null
-	fi
-	docompress -x /usr/share/doc/${PF}/{BioC_mirrors.csv,CRAN_mirrors.csv,KEYWORDS.db,NEWS.rds}
-}
-
-pkg_postinst() {
-	if use java; then
-		einfo "Re-initializing java paths for ${P}"
-		R CMD javareconf
-	fi
-}

diff --git a/dev-lang/R/R-3.6.0.ebuild b/dev-lang/R/R-3.6.0.ebuild
deleted file mode 100644
index 66c38fbe2f1..00000000000
--- a/dev-lang/R/R-3.6.0.ebuild
+++ /dev/null
@@ -1,204 +0,0 @@
-# Copyright 1999-2020 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=7
-
-inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib 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="http://www.r-project.org/"
-SRC_URI="
-	mirror://cran/src/base/R-3/${P}.tar.gz
-	https://raw.githubusercontent.com/deepayan/rcompletion/${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 ~x64-macos"
-IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
-REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
-
-CDEPEND="
-	app-arch/bzip2:0=
-	app-arch/xz-utils:0=
-	app-text/ghostscript-gpl
-	>=dev-libs/libpcre-8.35:3=
-	net-libs/libtirpc
-	net-misc/curl
-	virtual/blas:0
-	|| ( >=sys-apps/coreutils-8.15 app-misc/realpath )
-	cairo? ( x11-libs/cairo:0=[X=] x11-libs/pango:0= )
-	icu? ( dev-libs/icu:= )
-	jpeg? ( virtual/jpeg:0 )
-	lapack? ( virtual/lapack:0 )
-	perl? ( dev-lang/perl )
-	png? ( media-libs/libpng:0= )
-	readline? ( sys-libs/readline:0= )
-	tiff? ( media-libs/tiff:0= )
-	tk? ( dev-lang/tk:0= )
-	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
-
-DEPEND="${CDEPEND}
-	virtual/pkgconfig
-	doc? (
-		virtual/latex-base
-		dev-texlive/texlive-fontsrecommended
-	)"
-
-RDEPEND="${CDEPEND}
-	>=sys-libs/zlib-1.2.5.1-r2:0[minizip]
-	java? ( >=virtual/jre-1.5 )"
-
-RESTRICT="minimal? ( test )"
-
-PATCHES=(
-	"${FILESDIR}"/${PN}-3.4.1-parallel.patch
-	"${FILESDIR}"/${PN}-3.4.1-rmath-shared.patch
-)
-
-pkg_pretend() {
-	[[ ${MERGE_TYPE} != binary ]] && use openmp && tc-check-openmp
-}
-
-pkg_setup() {
-	if [[ ${MERGE_TYPE} != binary ]] && use openmp; then
-		if ! tc-check-openmp; then
-			ewarn "OpenMP is not available in your current selected compiler"
-			die "need openmp capable compiler"
-		fi
-		FORTRAN_NEED_OPENMP=1
-	fi
-	fortran-2_pkg_setup
-	filter-ldflags -Wl,-Bdirect -Bdirect
-	# avoid using existing R installation
-	unset R_HOME
-	# Temporary fix for bug #419761
-	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
-		append-flags -fno-ipa-cp-clone
-	fi
-}
-
-src_prepare() {
-	default
-
-	# fix packages.html for doc (gentoo bug #205103)
-	sed -e "s:../../../library:../../../../$(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='\"${EROOT}/usr/$(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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
-
-	use lapack && \
-		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
-
-	if use X; then
-		export R_BROWSER="$(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 (OS X)
-	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 ${EROOT}/usr/$(get_libdir)/libRmath.dylib:" \
-				-i src/nmath/standalone/Makefile.in || die
-		else
-			append-ldflags -Wl,-rpath="${EROOT}/usr/$(get_libdir)/R/lib"
-		fi
-	fi
-	AT_M4DIR=m4
-	eautoreconf
-}
-
-src_configure() {
-	#	--with-system-tre \
-	# tre is patched from upstream
-	econf \
-		--enable-byte-compiled-packages \
-		--enable-R-shlib \
-		--disable-R-framework \
-		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
-		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
-		$(use_enable java) \
-		$(use_enable nls) \
-		$(use_enable openmp) \
-		$(use_enable profile R-profiling) \
-		$(use_enable profile memory-profiling) \
-		$(use_enable static-libs static) \
-		$(use_enable static-libs R-static-lib) \
-		$(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) \
-		$(use_with tk tk-config "${EPREFIX}"/usr/$(get_libdir)/tkConfig.sh) \
-		$(use_with tk tcl-config "${EPREFIX}"/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 $(use static-libs && echo static) AR="$(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/${PF}/html/manual
-	fi
-
-	cat > 99R <<-EOF
-		LDPATH=${EROOT}/usr/$(get_libdir)/${PN}/lib
-		R_HOME=${EROOT}/usr/$(get_libdir)/${PN}
-	EOF
-	doenvd 99R
-	newbashcomp "${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
-		for mod in $(find . -name "*.dylib") ; do
-			mod=${mod#./}
-			install_name_tool -id "${EPREFIX}/usr/$(get_libdir)/R/${mod}" \
-				"${mod}"
-		done
-		popd > /dev/null
-	fi
-	docompress -x /usr/share/doc/${PF}/{BioC_mirrors.csv,CRAN_mirrors.csv,KEYWORDS.db,NEWS.rds}
-}
-
-pkg_postinst() {
-	if use java; then
-		einfo "Re-initializing java paths for ${P}"
-		R CMD javareconf
-	fi
-}

diff --git a/dev-lang/R/R-3.6.2.ebuild b/dev-lang/R/R-3.6.2.ebuild
deleted file mode 100644
index d9a391d0f87..00000000000
--- a/dev-lang/R/R-3.6.2.ebuild
+++ /dev/null
@@ -1,206 +0,0 @@
-# Copyright 1999-2020 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=7
-
-inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib 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="http://www.r-project.org/"
-SRC_URI="
-	mirror://cran/src/base/R-3/${P}.tar.gz
-	https://raw.githubusercontent.com/deepayan/rcompletion/${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 ~x64-macos"
-IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
-REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
-
-CDEPEND="
-	app-arch/bzip2:0=
-	app-arch/xz-utils:0=
-	app-text/ghostscript-gpl
-	dev-libs/libpcre:3=
-	net-libs/libtirpc
-	net-misc/curl
-	virtual/blas:0
-	|| ( sys-apps/coreutils app-misc/realpath )
-	cairo? ( x11-libs/cairo:0=[X=] x11-libs/pango:0= )
-	icu? ( dev-libs/icu:= )
-	jpeg? ( virtual/jpeg:0 )
-	lapack? ( virtual/lapack:0 )
-	perl? ( dev-lang/perl )
-	png? ( media-libs/libpng:0= )
-	readline? ( sys-libs/readline:0= )
-	tiff? ( media-libs/tiff:0= )
-	tk? ( dev-lang/tk:0= )
-	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
-
-DEPEND="${CDEPEND}
-	virtual/pkgconfig
-	doc? (
-		virtual/latex-base
-		dev-texlive/texlive-fontsrecommended
-	)"
-
-RDEPEND="${CDEPEND}
-	sys-libs/zlib:0[minizip]
-	java? ( >=virtual/jre-1.5 )"
-
-RESTRICT="minimal? ( test )"
-
-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 [[ ${MERGE_TYPE} != binary ]] && use openmp; then
-		if ! tc-check-openmp; then
-			ewarn "OpenMP is not available in your current selected compiler"
-			die "need openmp capable compiler"
-		fi
-		FORTRAN_NEED_OPENMP=1
-	fi
-	fortran-2_pkg_setup
-	filter-ldflags -Wl,-Bdirect -Bdirect
-	# avoid using existing R installation
-	unset R_HOME
-	# Temporary fix for bug #419761
-	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
-		append-flags -fno-ipa-cp-clone
-	fi
-}
-
-src_prepare() {
-	default
-
-	# fix packages.html for doc (gentoo bug #205103)
-	sed -e "s:../../../library:../../../../$(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='\"${EROOT}/usr/$(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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
-
-	use lapack && \
-		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
-
-	if use X; then
-		export R_BROWSER="$(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 (OS X)
-	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 ${EROOT}/usr/$(get_libdir)/libRmath.dylib:" \
-				-i src/nmath/standalone/Makefile.in || die
-		else
-			append-ldflags -Wl,-rpath="${EROOT}/usr/$(get_libdir)/R/lib"
-		fi
-	fi
-	AT_M4DIR=m4
-	eautoreconf
-}
-
-src_configure() {
-	#	--with-system-tre \
-	# tre is patched from upstream
-	econf \
-		--enable-byte-compiled-packages \
-		--enable-R-shlib \
-		--disable-R-framework \
-		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
-		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
-		$(use_enable java) \
-		$(use_enable nls) \
-		$(use_enable openmp) \
-		$(use_enable profile R-profiling) \
-		$(use_enable profile memory-profiling) \
-		$(use_enable static-libs static) \
-		$(use_enable static-libs R-static-lib) \
-		$(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) \
-		$(use_with tk tk-config "${EPREFIX}"/usr/$(get_libdir)/tkConfig.sh) \
-		$(use_with tk tcl-config "${EPREFIX}"/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 $(use static-libs && echo static) AR="$(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/${PF}/html/manual
-	fi
-
-	cat > 99R <<-EOF
-		LDPATH=${EROOT}/usr/$(get_libdir)/${PN}/lib
-		R_HOME=${EROOT}/usr/$(get_libdir)/${PN}
-	EOF
-	doenvd 99R
-	newbashcomp "${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
-		for mod in $(find . -name "*.dylib") ; do
-			mod=${mod#./}
-			install_name_tool -id "${EPREFIX}/usr/$(get_libdir)/R/${mod}" \
-				"${mod}"
-		done
-		popd > /dev/null
-	fi
-	docompress -x /usr/share/doc/${PF}/{BioC_mirrors.csv,CRAN_mirrors.csv,KEYWORDS.db,NEWS.rds}
-}
-
-pkg_postinst() {
-	if use java; then
-		einfo "Re-initializing java paths for ${P}"
-		R CMD javareconf
-	fi
-}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2020-03-25 15:13 Michael Orlitzky
  0 siblings, 0 replies; 99+ messages in thread
From: Michael Orlitzky @ 2020-03-25 15:13 UTC (permalink / raw
  To: gentoo-commits

commit:     d2c43613675062b8745189186ca02b5922cda150
Author:     Michael Orlitzky <mjo <AT> gentoo <DOT> org>
AuthorDate: Wed Mar 25 14:58:11 2020 +0000
Commit:     Michael Orlitzky <mjo <AT> gentoo <DOT> org>
CommitDate: Wed Mar 25 15:10:12 2020 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=d2c43613

dev-lang/R: new version 3.6.3.

I reorganized some things into BDEPEND, but other than that, a
standard version bump.

Package-Manager: Portage-2.3.89, Repoman-2.3.20
Signed-off-by: Michael Orlitzky <mjo <AT> gentoo.org>

 dev-lang/R/Manifest       |   1 +
 dev-lang/R/R-3.6.3.ebuild | 200 ++++++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 201 insertions(+)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index e02181ffa37..9db20651cde 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -2,4 +2,5 @@ DIST R-3.4.1.tar.gz 30200109 BLAKE2B 03602e9a48759caee8ce047fa6273df7a54af089de4
 DIST R-3.5.3.tar.gz 30205979 BLAKE2B 60dde4c1a7874df0b113630577d943d581d9e0844383a5cb7eda7f62470177d541704a888c33ded216f8b1f088cda493d7716693f5e2451effe3639ce2286dd1 SHA512 077cbd4bc9f19a3a2485afbd4d8e08e0754ddcb9a10164cbc8478f239d5ed0ffaf6796929f154cce1c8aea549c32d460049fc036dc326174d1dbb0a1ddb5f5ef
 DIST R-3.6.0.tar.gz 30449618 BLAKE2B 2fb2f1252f5ead97ab42eb1f71fa0be1e8aec2f6cce182956ec1c35b43b70b58f579faf5f3ca11efb8e9c24a9ed836b5b690cb23858249bc7f575aca4709bc3b SHA512 b2e17b909b6387abb964492e2e9370f913295ca7ac99bab0e965c43ed3c4635e27468c326fb2bca3c529b03c731b0170d9e777a194ad4d6c5a983c050223d8c8
 DIST R-3.6.2.tar.gz 33311930 BLAKE2B 53f344e80e017064a275c271d98be714e210193931a120e7ebc79ee6cf0ebc0c24c090acc25560998f26600c05305147816ab782632d99beaea83b3a9b5e2a21 SHA512 17513e9f4dd27c61c11f7aa45227aeeeefb375bf5d4e193b471724f379a1b2da33e127cbe91aa175cbbbb048b892047e2f610280585c8159242a6c94790b07f9
+DIST R-3.6.3.tar.gz 33308185 BLAKE2B f82751e21d3b502132f8f27d4fc47a921fb085a50c3da3b45e08fbbdd1ab3d42e89b4fa6653a570c21176d79f492277b1d0b86c3c9f4da1386d8b6e4771d4d2c SHA512 9b1dc78922e431bd1af81e6e560b10ad04d121718f680fed32db735d561fd40ea6028759976722db11559f1a78fe684119b766f0567128cb2ee5003aa87a0931
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06

diff --git a/dev-lang/R/R-3.6.3.ebuild b/dev-lang/R/R-3.6.3.ebuild
new file mode 100644
index 00000000000..f797705dcd7
--- /dev/null
+++ b/dev-lang/R/R-3.6.3.ebuild
@@ -0,0 +1,200 @@
+# Copyright 1999-2020 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=7
+
+inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib 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="http://www.r-project.org/"
+SRC_URI="
+	mirror://cran/src/base/R-3/${P}.tar.gz
+	https://raw.githubusercontent.com/deepayan/rcompletion/${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 ~x64-macos"
+IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
+REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
+
+BDEPEND="virtual/pkgconfig
+	doc? (
+		virtual/latex-base
+		dev-texlive/texlive-fontsrecommended
+	)"
+DEPEND="
+	app-arch/bzip2:0=
+	app-arch/xz-utils:0=
+	app-text/ghostscript-gpl
+	dev-libs/libpcre:3=
+	net-libs/libtirpc
+	net-misc/curl
+	virtual/blas:0
+	|| ( sys-apps/coreutils app-misc/realpath )
+	cairo? ( x11-libs/cairo:0=[X=] x11-libs/pango:0= )
+	icu? ( dev-libs/icu:= )
+	jpeg? ( virtual/jpeg:0 )
+	lapack? ( virtual/lapack:0 )
+	perl? ( dev-lang/perl )
+	png? ( media-libs/libpng:0= )
+	readline? ( sys-libs/readline:0= )
+	tiff? ( media-libs/tiff:0= )
+	tk? ( dev-lang/tk:0= )
+	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
+
+RDEPEND="${DEPEND}
+	sys-libs/zlib:0[minizip]
+	java? ( >=virtual/jre-1.5 )"
+
+RESTRICT="minimal? ( test )"
+
+PATCHES=(
+	"${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 [[ ${MERGE_TYPE} != binary ]] && use openmp; then
+		FORTRAN_NEED_OPENMP=1
+	fi
+	fortran-2_pkg_setup
+	filter-ldflags -Wl,-Bdirect -Bdirect
+	# avoid using existing R installation
+	unset R_HOME
+	# Temporary fix for bug #419761
+	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
+		append-flags -fno-ipa-cp-clone
+	fi
+}
+
+src_prepare() {
+	default
+
+	# fix packages.html for doc (gentoo bug #205103)
+	sed -e "s:../../../library:../../../../$(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='\"${EROOT}/usr/$(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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
+
+	use lapack && \
+		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+	if use X; then
+		export R_BROWSER="$(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 (OS X)
+	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 ${EROOT}/usr/$(get_libdir)/libRmath.dylib:" \
+				-i src/nmath/standalone/Makefile.in || die
+		else
+			append-ldflags -Wl,-rpath="${EROOT}/usr/$(get_libdir)/R/lib"
+		fi
+	fi
+	AT_M4DIR=m4
+	eautoreconf
+}
+
+src_configure() {
+	#	--with-system-tre \
+	# tre is patched from upstream
+	econf \
+		--enable-byte-compiled-packages \
+		--enable-R-shlib \
+		--disable-R-framework \
+		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
+		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
+		$(use_enable java) \
+		$(use_enable nls) \
+		$(use_enable openmp) \
+		$(use_enable profile R-profiling) \
+		$(use_enable profile memory-profiling) \
+		$(use_enable static-libs static) \
+		$(use_enable static-libs R-static-lib) \
+		$(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) \
+		$(use_with tk tk-config "${EPREFIX}"/usr/$(get_libdir)/tkConfig.sh) \
+		$(use_with tk tcl-config "${EPREFIX}"/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 $(use static-libs && echo static) AR="$(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/${PF}/html/manual
+	fi
+
+	cat > 99R <<-EOF
+		LDPATH=${EROOT}/usr/$(get_libdir)/${PN}/lib
+		R_HOME=${EROOT}/usr/$(get_libdir)/${PN}
+	EOF
+	doenvd 99R
+	newbashcomp "${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
+		for mod in $(find . -name "*.dylib") ; do
+			mod=${mod#./}
+			install_name_tool -id "${EPREFIX}/usr/$(get_libdir)/R/${mod}" \
+				"${mod}"
+		done
+		popd > /dev/null
+	fi
+	docompress -x /usr/share/doc/${PF}/{BioC_mirrors.csv,CRAN_mirrors.csv,KEYWORDS.db,NEWS.rds}
+}
+
+pkg_postinst() {
+	if use java; then
+		einfo "Re-initializing java paths for ${P}"
+		R CMD javareconf
+	fi
+}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2020-01-13  9:49 Mark Wright
  0 siblings, 0 replies; 99+ messages in thread
From: Mark Wright @ 2020-01-13  9:49 UTC (permalink / raw
  To: gentoo-commits

commit:     88c4286ddda1134307f43fbd565492539b0002e6
Author:     Mark Wright <gienah <AT> gentoo <DOT> org>
AuthorDate: Mon Jan 13 09:33:37 2020 +0000
Commit:     Mark Wright <gienah <AT> gentoo <DOT> org>
CommitDate: Mon Jan 13 09:49:35 2020 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=88c4286d

dev-lang/R: Remove dep sys-freebsd/freebsd-bin

Package-Manager: Portage-2.3.84, Repoman-2.3.20
Signed-off-by: Mark Wright <gienah <AT> gentoo.org>

 dev-lang/R/R-3.4.1.ebuild | 4 ++--
 dev-lang/R/R-3.5.3.ebuild | 4 ++--
 dev-lang/R/R-3.6.0.ebuild | 4 ++--
 3 files changed, 6 insertions(+), 6 deletions(-)

diff --git a/dev-lang/R/R-3.4.1.ebuild b/dev-lang/R/R-3.4.1.ebuild
index 703845547de..7c3401e2fc9 100644
--- a/dev-lang/R/R-3.4.1.ebuild
+++ b/dev-lang/R/R-3.4.1.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2019 Gentoo Authors
+# Copyright 1999-2020 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=6
@@ -27,7 +27,7 @@ CDEPEND="
 	>=dev-libs/libpcre-8.35:3=
 	net-misc/curl
 	virtual/blas:0
-	|| ( >=sys-apps/coreutils-8.15 sys-freebsd/freebsd-bin app-misc/realpath )
+	|| ( >=sys-apps/coreutils-8.15 app-misc/realpath )
 	cairo? ( x11-libs/cairo:0=[X] x11-libs/pango:0= )
 	icu? ( dev-libs/icu:= )
 	jpeg? ( virtual/jpeg:0 )

diff --git a/dev-lang/R/R-3.5.3.ebuild b/dev-lang/R/R-3.5.3.ebuild
index 1d09832746b..47ea21402fb 100644
--- a/dev-lang/R/R-3.5.3.ebuild
+++ b/dev-lang/R/R-3.5.3.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2019 Gentoo Authors
+# Copyright 1999-2020 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=7
@@ -28,7 +28,7 @@ CDEPEND="
 	net-libs/libtirpc
 	net-misc/curl
 	virtual/blas:0
-	|| ( >=sys-apps/coreutils-8.15 sys-freebsd/freebsd-bin app-misc/realpath )
+	|| ( >=sys-apps/coreutils-8.15 app-misc/realpath )
 	cairo? ( x11-libs/cairo:0=[X=] x11-libs/pango:0= )
 	icu? ( dev-libs/icu:= )
 	jpeg? ( virtual/jpeg:0 )

diff --git a/dev-lang/R/R-3.6.0.ebuild b/dev-lang/R/R-3.6.0.ebuild
index 1d09832746b..47ea21402fb 100644
--- a/dev-lang/R/R-3.6.0.ebuild
+++ b/dev-lang/R/R-3.6.0.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2019 Gentoo Authors
+# Copyright 1999-2020 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=7
@@ -28,7 +28,7 @@ CDEPEND="
 	net-libs/libtirpc
 	net-misc/curl
 	virtual/blas:0
-	|| ( >=sys-apps/coreutils-8.15 sys-freebsd/freebsd-bin app-misc/realpath )
+	|| ( >=sys-apps/coreutils-8.15 app-misc/realpath )
 	cairo? ( x11-libs/cairo:0=[X=] x11-libs/pango:0= )
 	icu? ( dev-libs/icu:= )
 	jpeg? ( virtual/jpeg:0 )


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2020-01-13  9:49 Mark Wright
  0 siblings, 0 replies; 99+ messages in thread
From: Mark Wright @ 2020-01-13  9:49 UTC (permalink / raw
  To: gentoo-commits

commit:     18e931904a9ee33e5ee0a0e9bb1fdfff1ca19402
Author:     Mark Wright <gienah <AT> gentoo <DOT> org>
AuthorDate: Mon Jan 13 09:36:37 2020 +0000
Commit:     Mark Wright <gienah <AT> gentoo <DOT> org>
CommitDate: Mon Jan 13 09:49:36 2020 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=18e93190

dev-lang/R: Add ~arm64 since 3.4.1 has arm64

Package-Manager: Portage-2.3.84, Repoman-2.3.20
Signed-off-by: Mark Wright <gienah <AT> gentoo.org>

 dev-lang/R/R-3.5.3.ebuild | 2 +-
 dev-lang/R/R-3.6.0.ebuild | 2 +-
 2 files changed, 2 insertions(+), 2 deletions(-)

diff --git a/dev-lang/R/R-3.5.3.ebuild b/dev-lang/R/R-3.5.3.ebuild
index 47ea21402fb..df86d706389 100644
--- a/dev-lang/R/R-3.5.3.ebuild
+++ b/dev-lang/R/R-3.5.3.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="~amd64 ~arm64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 

diff --git a/dev-lang/R/R-3.6.0.ebuild b/dev-lang/R/R-3.6.0.ebuild
index 47ea21402fb..df86d706389 100644
--- a/dev-lang/R/R-3.6.0.ebuild
+++ b/dev-lang/R/R-3.6.0.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="~amd64 ~arm64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2019-10-16 12:43 Jeroen Roovers
  0 siblings, 0 replies; 99+ messages in thread
From: Jeroen Roovers @ 2019-10-16 12:43 UTC (permalink / raw
  To: gentoo-commits

commit:     b03399b1e18580f7f8303912145a6074afb949d1
Author:     Jeroen Roovers <jer <AT> gentoo <DOT> org>
AuthorDate: Wed Oct 16 12:01:02 2019 +0000
Commit:     Jeroen Roovers <jer <AT> gentoo <DOT> org>
CommitDate: Wed Oct 16 12:43:18 2019 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=b03399b1

dev-lang/R: Mark ~hppa too

Package-Manager: Portage-2.3.77, Repoman-2.3.17
RepoMan-Options: --ignore-arches
Signed-off-by: Jeroen Roovers <jer <AT> gentoo.org>

 dev-lang/R/R-3.4.1.ebuild | 2 +-
 dev-lang/R/R-3.5.3.ebuild | 2 +-
 dev-lang/R/R-3.6.0.ebuild | 2 +-
 3 files changed, 3 insertions(+), 3 deletions(-)

diff --git a/dev-lang/R/R-3.4.1.ebuild b/dev-lang/R/R-3.4.1.ebuild
index 52d611535b4..703845547de 100644
--- a/dev-lang/R/R-3.4.1.ebuild
+++ b/dev-lang/R/R-3.4.1.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 arm64 ia64 sparc x86 ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="amd64 arm64 ~hppa ia64 sparc x86 ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 

diff --git a/dev-lang/R/R-3.5.3.ebuild b/dev-lang/R/R-3.5.3.ebuild
index b9a1b267e51..1d09832746b 100644
--- a/dev-lang/R/R-3.5.3.ebuild
+++ b/dev-lang/R/R-3.5.3.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="~amd64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 

diff --git a/dev-lang/R/R-3.6.0.ebuild b/dev-lang/R/R-3.6.0.ebuild
index b9a1b267e51..1d09832746b 100644
--- a/dev-lang/R/R-3.6.0.ebuild
+++ b/dev-lang/R/R-3.6.0.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="~amd64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2019-07-26 20:41 Aaron Bauman
  0 siblings, 0 replies; 99+ messages in thread
From: Aaron Bauman @ 2019-07-26 20:41 UTC (permalink / raw
  To: gentoo-commits

commit:     cc01a76566918b5a02ae9f40d8c88a71fadf57ed
Author:     Aaron Bauman <bman <AT> gentoo <DOT> org>
AuthorDate: Fri Jul 26 20:39:54 2019 +0000
Commit:     Aaron Bauman <bman <AT> gentoo <DOT> org>
CommitDate: Fri Jul 26 20:41:09 2019 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=cc01a765

dev-lang/R: arm64 stable

Signed-off-by: Aaron Bauman <bman <AT> gentoo.org>
Package-Manager: Portage-2.3.69, Repoman-2.3.16
RepoMan-Options: --include-arches="arm64"

 dev-lang/R/R-3.4.1.ebuild | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/dev-lang/R/R-3.4.1.ebuild b/dev-lang/R/R-3.4.1.ebuild
index e273a93fab8..6c503c77a1a 100644
--- a/dev-lang/R/R-3.4.1.ebuild
+++ b/dev-lang/R/R-3.4.1.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2018 Gentoo Authors
+# Copyright 1999-2019 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=6
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 ia64 sparc x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="amd64 arm64 ia64 sparc x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2019-06-04 17:47 Amy Liffey
  0 siblings, 0 replies; 99+ messages in thread
From: Amy Liffey @ 2019-06-04 17:47 UTC (permalink / raw
  To: gentoo-commits

commit:     50d096e6d14f2c60b6d7f07267f386b8fbfc702f
Author:     Amy Liffey <amynka <AT> gentoo <DOT> org>
AuthorDate: Tue Jun  4 17:41:45 2019 +0000
Commit:     Amy Liffey <amynka <AT> gentoo <DOT> org>
CommitDate: Tue Jun  4 17:41:45 2019 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=50d096e6

dev-lang/R: version bump 3.6.0

Bug: https://bugs.gentoo.org/684526
Signed-off-by: Amy Liffey <amynka <AT> gentoo.org>
Package-Manager: Portage-2.3.62, Repoman-2.3.11

 dev-lang/R/Manifest       |   1 +
 dev-lang/R/R-3.6.0.ebuild | 205 ++++++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 206 insertions(+)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index ef092e2cf42..f85c3d58315 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -4,4 +4,5 @@ DIST R-3.3.2.tar.gz 29440670 BLAKE2B 37308fb0caf19c33196b496d5b6f2f1b5b6f75e3ed9
 DIST R-3.4.1.tar.gz 30200109 BLAKE2B 03602e9a48759caee8ce047fa6273df7a54af089de4489e21953c0e3fc7bfdf720d924f1e0167d3dbf65f63ed42ac10dea8b45289b921cda1c0e6d25a0063ebb SHA512 19bd50c87dc001ef947c15c1760f27ac8986ff6b43c6d90d3093ae184e42963027ef06faf31ec57ac9e519af7a35a2f53f8ea23ef75d800ebbd02945cedc4651
 DIST R-3.5.1.tar.gz 29812849 BLAKE2B 9390934e5da5bd223eee717d4e4c5bd7d47291811318b2fdeac59216081cf9e63119f17bc8fee7235e2426852c50eb5948e6a2a3a632047f41b36460e2584967 SHA512 382cc6e200469dd168799948edcf3a0b869d7ef3b3176fdfc60752f3f37e6ba356323c47d8815a4d9ab6ad3a21cd045d26ef5e75107c8685328e0ffcfd172f7f
 DIST R-3.5.3.tar.gz 30205979 BLAKE2B 60dde4c1a7874df0b113630577d943d581d9e0844383a5cb7eda7f62470177d541704a888c33ded216f8b1f088cda493d7716693f5e2451effe3639ce2286dd1 SHA512 077cbd4bc9f19a3a2485afbd4d8e08e0754ddcb9a10164cbc8478f239d5ed0ffaf6796929f154cce1c8aea549c32d460049fc036dc326174d1dbb0a1ddb5f5ef
+DIST R-3.6.0.tar.gz 30449618 BLAKE2B 2fb2f1252f5ead97ab42eb1f71fa0be1e8aec2f6cce182956ec1c35b43b70b58f579faf5f3ca11efb8e9c24a9ed836b5b690cb23858249bc7f575aca4709bc3b SHA512 b2e17b909b6387abb964492e2e9370f913295ca7ac99bab0e965c43ed3c4635e27468c326fb2bca3c529b03c731b0170d9e777a194ad4d6c5a983c050223d8c8
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06

diff --git a/dev-lang/R/R-3.6.0.ebuild b/dev-lang/R/R-3.6.0.ebuild
new file mode 100644
index 00000000000..39eee89799d
--- /dev/null
+++ b/dev-lang/R/R-3.6.0.ebuild
@@ -0,0 +1,205 @@
+# Copyright 1999-2019 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=7
+
+inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib 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="http://www.r-project.org/"
+SRC_URI="
+	mirror://cran/src/base/R-3/${P}.tar.gz
+	https://raw.githubusercontent.com/deepayan/rcompletion/${BCPV}/bash_completion/R -> ${PN}-${BCPV}.bash_completion"
+
+LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
+SLOT="0"
+KEYWORDS="~amd64 ~ia64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
+REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
+
+CDEPEND="
+	app-arch/bzip2:0=
+	app-arch/xz-utils:0=
+	app-text/ghostscript-gpl
+	>=dev-libs/libpcre-8.35:3=
+	net-libs/libtirpc
+	net-misc/curl
+	virtual/blas:0
+	|| ( >=sys-apps/coreutils-8.15 sys-freebsd/freebsd-bin app-misc/realpath )
+	cairo? ( x11-libs/cairo:0=[X=] x11-libs/pango:0= )
+	icu? ( dev-libs/icu:= )
+	jpeg? ( virtual/jpeg:0 )
+	lapack? ( virtual/lapack:0 )
+	perl? ( dev-lang/perl )
+	png? ( media-libs/libpng:0= )
+	readline? ( sys-libs/readline:0= )
+	tiff? ( media-libs/tiff:0= )
+	tk? ( dev-lang/tk:0= )
+	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
+
+DEPEND="${CDEPEND}
+	virtual/pkgconfig
+	doc? (
+		virtual/latex-base
+		dev-texlive/texlive-fontsrecommended
+	)"
+
+RDEPEND="${CDEPEND}
+	>=sys-libs/zlib-1.2.5.1-r2:0[minizip]
+	java? ( >=virtual/jre-1.5 )"
+
+RESTRICT="minimal? ( test )"
+
+PATCHES=(
+	"${FILESDIR}"/${PN}-3.4.1-parallel.patch
+	"${FILESDIR}"/${PN}-3.4.1-rmath-shared.patch
+)
+
+pkg_pretend() {
+	[[ ${MERGE_TYPE} != binary ]] && use openmp && tc-check-openmp
+}
+
+pkg_setup() {
+	if [[ ${MERGE_TYPE} != binary ]] && use openmp; then
+		if ! tc-check-openmp; then
+			ewarn "OpenMP is not available in your current selected compiler"
+			die "need openmp capable compiler"
+		fi
+		FORTRAN_NEED_OPENMP=1
+	fi
+	fortran-2_pkg_setup
+	filter-ldflags -Wl,-Bdirect -Bdirect
+	# avoid using existing R installation
+	unset R_HOME
+	# Temporary fix for bug #419761
+	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
+		append-flags -fno-ipa-cp-clone
+	fi
+}
+
+src_prepare() {
+	default
+
+	# fix packages.html for doc (gentoo bug #205103)
+	sed -e "s:../../../library:../../../../$(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='\"${EROOT%/}/usr/$(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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
+
+	use lapack && \
+		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+	if use X; then
+		export R_BROWSER="$(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 (OS X)
+	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 ${EROOT%/}/usr/$(get_libdir)/libRmath.dylib:" \
+				-i src/nmath/standalone/Makefile.in || die
+		else
+			append-ldflags -Wl,-rpath="${EROOT%/}/usr/$(get_libdir)/R/lib"
+		fi
+	fi
+	AT_M4DIR=m4
+	eautoreconf
+}
+
+src_configure() {
+	#	--with-system-tre \
+	# tre is patched from upstream
+	econf \
+		--enable-byte-compiled-packages \
+		--enable-R-shlib \
+		--disable-R-framework \
+		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
+		--docdir="${EPREFIX}/usr/share/doc/${PF}" \
+		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
+		$(use_enable java) \
+		$(use_enable nls) \
+		$(use_enable openmp) \
+		$(use_enable profile R-profiling) \
+		$(use_enable profile memory-profiling) \
+		$(use_enable static-libs static) \
+		$(use_enable static-libs R-static-lib) \
+		$(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) \
+		$(use_with tk tk-config "${EPREFIX}"/usr/$(get_libdir)/tkConfig.sh) \
+		$(use_with tk tcl-config "${EPREFIX}"/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 $(use static-libs && echo static) AR="$(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/${PF}/html/manual
+	fi
+
+	cat > 99R <<-EOF
+		LDPATH=${EROOT%/}/usr/$(get_libdir)/${PN}/lib
+		R_HOME=${EROOT%/}/usr/$(get_libdir)/${PN}
+	EOF
+	doenvd 99R
+	newbashcomp "${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
+		for mod in $(find . -name "*.dylib") ; do
+			mod=${mod#./}
+			install_name_tool -id "${EPREFIX}/usr/$(get_libdir)/R/${mod}" \
+				"${mod}"
+		done
+		popd > /dev/null
+	fi
+	docompress -x /usr/share/doc/${PF}/{BioC_mirrors.csv,CRAN_mirrors.csv,KEYWORDS.db,NEWS.rds}
+}
+
+pkg_postinst() {
+	if use java; then
+		einfo "Re-initializing java paths for ${P}"
+		R CMD javareconf
+	fi
+}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2019-06-04 17:47 Amy Liffey
  0 siblings, 0 replies; 99+ messages in thread
From: Amy Liffey @ 2019-06-04 17:47 UTC (permalink / raw
  To: gentoo-commits

commit:     cd121187300053974c222d584f34fc99abd5b577
Author:     Amy Liffey <amynka <AT> gentoo <DOT> org>
AuthorDate: Tue Jun  4 17:45:46 2019 +0000
Commit:     Amy Liffey <amynka <AT> gentoo <DOT> org>
CommitDate: Tue Jun  4 17:45:51 2019 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=cd121187

dev-lang/R: remove old 3.2.2, 3.3.2, 3.5.1

Signed-off-by: Amy Liffey <amynka <AT> gentoo.org>
Package-Manager: Portage-2.3.62, Repoman-2.3.11

 dev-lang/R/Manifest       |   4 -
 dev-lang/R/R-3.2.2.ebuild | 205 ----------------------------------------------
 dev-lang/R/R-3.3.2.ebuild | 201 ---------------------------------------------
 dev-lang/R/R-3.5.1.ebuild | 204 ---------------------------------------------
 4 files changed, 614 deletions(-)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index f85c3d58315..32412abdb94 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,8 +1,4 @@
-DIST R-20130129.bash_completion.bz2 4209 BLAKE2B 0afbe9548641cb68a521e4140c48019d21288e32061abba227f8dfcb1398febe7132cc60ebaf9e4e1a226aaca0587d13f982c59e5bd6921fbe932238d6bb96d7 SHA512 910b26e16cfebe677f438abfa5f2652e582db143d91dbf0e7d4b1ea33462c7e5c89c3a3619c63ae98bba26b11a5adb16eda9d344f8cdbe4f0feabc546993c1a5
-DIST R-3.2.2.tar.gz 29772864 BLAKE2B f3f7ff9b9bd3cf685712e8997dd5a511a47e56ed261c1039b0540c29e4dd3131cc3052dad2c9a89af04b7bd595d9be7b9c8310206dd5b82244bb274f5a274603 SHA512 71ba470875262b9f00fb6970f209788df4dad30e0a28373b824b60d8bc6401afb7786e65387663c6490c7ddcd2bfd7f808a270a3e63238f3d7565d5f93607138
-DIST R-3.3.2.tar.gz 29440670 BLAKE2B 37308fb0caf19c33196b496d5b6f2f1b5b6f75e3ed985f2f0c4b0633d6191181de7f4cbd1ec986d76089a101d8895493cfe3b8563cfbc36f0b72a1ea14c748c5 SHA512 06a98687c0b180cb0bfd57440ea26088212d9f48948d503136475bf54b42d72cfec5bea7e333c0cedd60733bd614dd0f8c2eced7e24478b6c89f48e8d0c43482
 DIST R-3.4.1.tar.gz 30200109 BLAKE2B 03602e9a48759caee8ce047fa6273df7a54af089de4489e21953c0e3fc7bfdf720d924f1e0167d3dbf65f63ed42ac10dea8b45289b921cda1c0e6d25a0063ebb SHA512 19bd50c87dc001ef947c15c1760f27ac8986ff6b43c6d90d3093ae184e42963027ef06faf31ec57ac9e519af7a35a2f53f8ea23ef75d800ebbd02945cedc4651
-DIST R-3.5.1.tar.gz 29812849 BLAKE2B 9390934e5da5bd223eee717d4e4c5bd7d47291811318b2fdeac59216081cf9e63119f17bc8fee7235e2426852c50eb5948e6a2a3a632047f41b36460e2584967 SHA512 382cc6e200469dd168799948edcf3a0b869d7ef3b3176fdfc60752f3f37e6ba356323c47d8815a4d9ab6ad3a21cd045d26ef5e75107c8685328e0ffcfd172f7f
 DIST R-3.5.3.tar.gz 30205979 BLAKE2B 60dde4c1a7874df0b113630577d943d581d9e0844383a5cb7eda7f62470177d541704a888c33ded216f8b1f088cda493d7716693f5e2451effe3639ce2286dd1 SHA512 077cbd4bc9f19a3a2485afbd4d8e08e0754ddcb9a10164cbc8478f239d5ed0ffaf6796929f154cce1c8aea549c32d460049fc036dc326174d1dbb0a1ddb5f5ef
 DIST R-3.6.0.tar.gz 30449618 BLAKE2B 2fb2f1252f5ead97ab42eb1f71fa0be1e8aec2f6cce182956ec1c35b43b70b58f579faf5f3ca11efb8e9c24a9ed836b5b690cb23858249bc7f575aca4709bc3b SHA512 b2e17b909b6387abb964492e2e9370f913295ca7ac99bab0e965c43ed3c4635e27468c326fb2bca3c529b03c731b0170d9e777a194ad4d6c5a983c050223d8c8
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06

diff --git a/dev-lang/R/R-3.2.2.ebuild b/dev-lang/R/R-3.2.2.ebuild
deleted file mode 100644
index df833c293e4..00000000000
--- a/dev-lang/R/R-3.2.2.ebuild
+++ /dev/null
@@ -1,205 +0,0 @@
-# Copyright 1999-2018 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=5
-
-inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib versionator toolchain-funcs
-
-BCP=${PN}-20130129.bash_completion
-DESCRIPTION="Language and environment for statistical computing and graphics"
-HOMEPAGE="http://www.r-project.org/"
-SRC_URI="
-	mirror://cran/src/base/R-3/${P}.tar.gz
-	https://dev.gentoo.org/~bicatali/distfiles/${BCP}.bz2"
-
-LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
-SLOT="0"
-KEYWORDS="amd64 ia64 sparc x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
-IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
-REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
-
-CDEPEND="
-	app-arch/bzip2:0=
-	app-arch/xz-utils:0=
-	app-text/ghostscript-gpl
-	>=dev-libs/libpcre-8.35:3=
-	virtual/blas:0
-	|| ( >=sys-apps/coreutils-8.15 sys-freebsd/freebsd-bin app-misc/realpath )
-	cairo? ( x11-libs/cairo:0=[X] x11-libs/pango:0= )
-	icu? ( dev-libs/icu:= )
-	jpeg? ( virtual/jpeg:0 )
-	lapack? ( virtual/lapack:0 )
-	perl? ( dev-lang/perl )
-	png? ( media-libs/libpng:0= )
-	readline? ( sys-libs/readline:0= )
-	tiff? ( media-libs/tiff:0= )
-	tk? ( dev-lang/tk:0= )
-	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
-
-DEPEND="${CDEPEND}
-	virtual/pkgconfig
-	doc? (
-		virtual/latex-base
-		dev-texlive/texlive-fontsrecommended
-	)"
-
-RDEPEND="${CDEPEND}
-	>=sys-libs/zlib-1.2.5.1-r2:0[minizip]
-	java? ( >=virtual/jre-1.5 )"
-
-RESTRICT="minimal? ( test )"
-
-R_DIR="${EROOT%/}/usr/$(get_libdir)/${PN}"
-
-pkg_setup() {
-	if use openmp; then
-		if [[ $(tc-getCC) == *gcc ]] && ! tc-has-openmp; then
-			ewarn "OpenMP is not available in your current selected gcc"
-			die "need openmp capable gcc"
-		fi
-		FORTRAN_NEED_OPENMP=1
-	fi
-	fortran-2_pkg_setup
-	filter-ldflags -Wl,-Bdirect -Bdirect
-	# avoid using existing R installation
-	unset R_HOME
-	# Temporary fix for bug #419761
-	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
-		append-flags -fno-ipa-cp-clone
-	fi
-}
-
-src_prepare() {
-	epatch \
-		"${FILESDIR}"/${PN}-2.11.1-parallel.patch \
-		"${FILESDIR}"/${PN}-2.13.1-zlib_header_fix.patch \
-		"${FILESDIR}"/${PN}-3.0.0-rmath-shared.patch
-
-	# fix packages.html for doc (gentoo bug #205103)
-	sed -i \
-		-e "s:../../../library:../../../../$(get_libdir)/R/library:g" \
-		src/library/tools/R/Rd.R || die
-
-	# fix Rscript path when installed (gentoo bug #221061)
-	sed -i \
-		-e "s:-DR_HOME='\"\$(rhome)\"':-DR_HOME='\"${R_DIR}\"':" \
-		src/unix/Makefile.in || die "sed unix Makefile failed"
-
-	# fix HTML links to manual (gentoo bug #273957)
-	sed -i \
-		-e 's:\.\./manual/:manual/:g' \
-		$(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
-
-	use lapack && \
-		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
-
-	if use X; then
-		export R_BROWSER="$(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 (OS X)
-	if use prefix; then
-		if [[ ${CHOST} == *-darwin* ]] ; then
-			sed -i \
-				-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/" \
-				configure.ac || die
-			# sort of "undo" 2.14.1-rmath-shared.patch
-			sed -i \
-				-e "s:-Wl,-soname=libRmath.so:-install_name ${EROOT%/}/usr/$(get_libdir)/libRmath.dylib:" \
-				src/nmath/standalone/Makefile.in || die
-		else
-			append-ldflags -Wl,-rpath="${EROOT%/}/usr/$(get_libdir)/R/lib"
-		fi
-	fi
-	AT_M4DIR=m4 eaclocal
-	eautoconf
-}
-
-src_configure() {
-	#	--with-system-tre \
-	# tre is patched from upstream
-	econf \
-		--enable-byte-compiled-packages \
-		--enable-R-shlib \
-		--disable-R-framework \
-		--with-system-zlib \
-		--with-system-bzlib \
-		--with-system-pcre \
-		--with-system-xz \
-		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
-		--docdir="${EPREFIX}/usr/share/doc/${PF}" \
-		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
-		$(use_enable nls) \
-		$(use_enable openmp) \
-		$(use_enable profile R-profiling) \
-		$(use_enable profile memory-profiling) \
-		$(use_enable static-libs static) \
-		$(use_enable static-libs R-static-lib) \
-		$(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) \
-		$(use_with tk tk-config "${EPREFIX}"/usr/lib/tkConfig.sh) \
-		$(use_with tk tcl-config "${EPREFIX}"/usr/lib/tclConfig.sh) \
-		$(use_with X x)
-}
-
-src_compile() {
-	export VARTEXFONTS="${T}/fonts"
-	emake AR="$(tc-getAR)"
-	emake -C src/nmath/standalone \
-		shared $(use static-libs && echo static) AR="$(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/${PF}/html/manual
-	fi
-
-	cat > 99R <<-EOF
-		LDPATH=${R_DIR}/lib
-		R_HOME=${R_DIR}
-	EOF
-	doenvd 99R
-	newbashcomp "${WORKDIR}"/${BCP} ${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/lib/R > /dev/null
-		for mod in $(find . -name "*.dylib") ; do
-			mod=${mod#./}
-			install_name_tool -id "${EPREFIX}/usr/lib/R/${mod}" \
-				"${mod}"
-		done
-		popd > /dev/null
-	fi
-	docompress -x /usr/share/doc/${PF}/NEWS.rds
-}
-
-pkg_postinst() {
-	if use java; then
-		einfo "Re-initializing java paths for ${P}"
-		R CMD javareconf
-	fi
-}

diff --git a/dev-lang/R/R-3.3.2.ebuild b/dev-lang/R/R-3.3.2.ebuild
deleted file mode 100644
index 6ca1d812f3e..00000000000
--- a/dev-lang/R/R-3.3.2.ebuild
+++ /dev/null
@@ -1,201 +0,0 @@
-# Copyright 1999-2018 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=5
-
-inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib versionator toolchain-funcs
-
-BCP=${PN}-20130129.bash_completion
-DESCRIPTION="Language and environment for statistical computing and graphics"
-HOMEPAGE="http://www.r-project.org/"
-SRC_URI="
-	mirror://cran/src/base/R-3/${P}.tar.gz
-	https://dev.gentoo.org/~bicatali/distfiles/${BCP}.bz2"
-
-LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
-SLOT="0"
-KEYWORDS="~amd64 ~ia64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
-IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
-REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
-
-CDEPEND="
-	app-arch/bzip2:0=
-	app-arch/xz-utils:0=
-	app-text/ghostscript-gpl
-	>=dev-libs/libpcre-8.35:3=
-	virtual/blas:0
-	|| ( >=sys-apps/coreutils-8.15 sys-freebsd/freebsd-bin app-misc/realpath )
-	cairo? ( x11-libs/cairo:0=[X] x11-libs/pango:0= )
-	icu? ( dev-libs/icu:= )
-	jpeg? ( virtual/jpeg:0 )
-	lapack? ( virtual/lapack:0 )
-	perl? ( dev-lang/perl )
-	png? ( media-libs/libpng:0= )
-	readline? ( sys-libs/readline:0= )
-	tiff? ( media-libs/tiff:0= )
-	tk? ( dev-lang/tk:0= )
-	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
-
-DEPEND="${CDEPEND}
-	virtual/pkgconfig
-	doc? (
-		virtual/latex-base
-		dev-texlive/texlive-fontsrecommended
-	)"
-
-RDEPEND="${CDEPEND}
-	>=sys-libs/zlib-1.2.5.1-r2:0[minizip]
-	java? ( >=virtual/jre-1.5 )"
-
-RESTRICT="minimal? ( test )"
-
-pkg_setup() {
-	if use openmp; then
-		if [[ $(tc-getCC) == *gcc ]] && ! tc-has-openmp; then
-			ewarn "OpenMP is not available in your current selected gcc"
-			die "need openmp capable gcc"
-		fi
-		FORTRAN_NEED_OPENMP=1
-	fi
-	fortran-2_pkg_setup
-	filter-ldflags -Wl,-Bdirect -Bdirect
-	# avoid using existing R installation
-	unset R_HOME
-	# Temporary fix for bug #419761
-	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
-		append-flags -fno-ipa-cp-clone
-	fi
-}
-
-src_prepare() {
-	epatch \
-		"${FILESDIR}"/${PN}-2.11.1-parallel.patch \
-		"${FILESDIR}"/${PN}-2.13.1-zlib_header_fix.patch \
-		"${FILESDIR}"/${PN}-3.0.0-rmath-shared.patch \
-		"${FILESDIR}"/${P}-zlib-1.2.10-backport.patch
-
-	# fix packages.html for doc (gentoo bug #205103)
-	sed -i \
-		-e "s:../../../library:../../../../$(get_libdir)/R/library:g" \
-		src/library/tools/R/Rd.R || die
-
-	# fix Rscript path when installed (gentoo bug #221061)
-	sed -i \
-		-e "s:-DR_HOME='\"\$(rhome)\"':-DR_HOME='\"${EROOT%/}/usr/$(get_libdir)/${PN}\"':" \
-		src/unix/Makefile.in || die "sed unix Makefile failed"
-
-	# fix HTML links to manual (gentoo bug #273957)
-	sed -i \
-		-e 's:\.\./manual/:manual/:g' \
-		$(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
-
-	use lapack && \
-		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
-
-	if use X; then
-		export R_BROWSER="$(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 (OS X)
-	if use prefix; then
-		if [[ ${CHOST} == *-darwin* ]] ; then
-			sed -i \
-				-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/" \
-				configure.ac || die
-			# sort of "undo" 2.14.1-rmath-shared.patch
-			sed -i \
-				-e "s:-Wl,-soname=libRmath.so:-install_name ${EROOT%/}/usr/$(get_libdir)/libRmath.dylib:" \
-				src/nmath/standalone/Makefile.in || die
-		else
-			append-ldflags -Wl,-rpath="${EROOT%/}/usr/$(get_libdir)/R/lib"
-		fi
-	fi
-	AT_M4DIR=m4 eaclocal
-	eautoconf
-}
-
-src_configure() {
-	#	--with-system-tre \
-	# tre is patched from upstream
-	econf \
-		--enable-byte-compiled-packages \
-		--enable-R-shlib \
-		--disable-R-framework \
-		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
-		--docdir="${EPREFIX}/usr/share/doc/${PF}" \
-		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
-		$(use_enable java) \
-		$(use_enable nls) \
-		$(use_enable openmp) \
-		$(use_enable profile R-profiling) \
-		$(use_enable profile memory-profiling) \
-		$(use_enable static-libs static) \
-		$(use_enable static-libs R-static-lib) \
-		$(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) \
-		$(use_with tk tk-config "${EPREFIX}"/usr/lib/tkConfig.sh) \
-		$(use_with tk tcl-config "${EPREFIX}"/usr/lib/tclConfig.sh) \
-		$(use_with X x)
-}
-
-src_compile() {
-	export VARTEXFONTS="${T}/fonts"
-	emake AR="$(tc-getAR)"
-	emake -C src/nmath/standalone \
-		shared $(use static-libs && echo static) AR="$(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/${PF}/html/manual
-	fi
-
-	cat > 99R <<-EOF
-		LDPATH=${EROOT%/}/usr/$(get_libdir)/${PN}/lib
-		R_HOME=${EROOT%/}/usr/$(get_libdir)/${PN}
-	EOF
-	doenvd 99R
-	newbashcomp "${WORKDIR}"/${BCP} ${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/lib/R > /dev/null
-		for mod in $(find . -name "*.dylib") ; do
-			mod=${mod#./}
-			install_name_tool -id "${EPREFIX}/usr/lib/R/${mod}" \
-				"${mod}"
-		done
-		popd > /dev/null
-	fi
-	docompress -x /usr/share/doc/${PF}/{BioC_mirrors.csv,CRAN_mirrors.csv,KEYWORDS.db,NEWS.rds}
-}
-
-pkg_postinst() {
-	if use java; then
-		einfo "Re-initializing java paths for ${P}"
-		R CMD javareconf
-	fi
-}

diff --git a/dev-lang/R/R-3.5.1.ebuild b/dev-lang/R/R-3.5.1.ebuild
deleted file mode 100644
index 6c443c1bd29..00000000000
--- a/dev-lang/R/R-3.5.1.ebuild
+++ /dev/null
@@ -1,204 +0,0 @@
-# Copyright 1999-2018 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib versionator 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="http://www.r-project.org/"
-SRC_URI="
-	mirror://cran/src/base/R-3/${P}.tar.gz
-	https://raw.githubusercontent.com/deepayan/rcompletion/${BCPV}/bash_completion/R -> ${PN}-${BCPV}.bash_completion"
-
-LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
-SLOT="0"
-KEYWORDS="~amd64 ~ia64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
-IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
-REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
-
-CDEPEND="
-	app-arch/bzip2:0=
-	app-arch/xz-utils:0=
-	app-text/ghostscript-gpl
-	>=dev-libs/libpcre-8.35:3=
-	net-misc/curl
-	virtual/blas:0
-	|| ( >=sys-apps/coreutils-8.15 sys-freebsd/freebsd-bin app-misc/realpath )
-	cairo? ( x11-libs/cairo:0=[X] x11-libs/pango:0= )
-	icu? ( dev-libs/icu:= )
-	jpeg? ( virtual/jpeg:0 )
-	lapack? ( virtual/lapack:0 )
-	perl? ( dev-lang/perl )
-	png? ( media-libs/libpng:0= )
-	readline? ( sys-libs/readline:0= )
-	tiff? ( media-libs/tiff:0= )
-	tk? ( dev-lang/tk:0= )
-	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
-
-DEPEND="${CDEPEND}
-	virtual/pkgconfig
-	doc? (
-		virtual/latex-base
-		dev-texlive/texlive-fontsrecommended
-	)"
-
-RDEPEND="${CDEPEND}
-	>=sys-libs/zlib-1.2.5.1-r2:0[minizip]
-	java? ( >=virtual/jre-1.5 )"
-
-RESTRICT="minimal? ( test )"
-
-PATCHES=(
-	"${FILESDIR}"/${PN}-3.4.1-parallel.patch
-	"${FILESDIR}"/${PN}-3.4.1-rmath-shared.patch
-)
-
-pkg_pretend() {
-	[[ ${MERGE_TYPE} != binary ]] && use openmp && tc-check-openmp
-}
-
-pkg_setup() {
-	if [[ ${MERGE_TYPE} != binary ]] && use openmp; then
-		if ! tc-check-openmp; then
-			ewarn "OpenMP is not available in your current selected compiler"
-			die "need openmp capable compiler"
-		fi
-		FORTRAN_NEED_OPENMP=1
-	fi
-	fortran-2_pkg_setup
-	filter-ldflags -Wl,-Bdirect -Bdirect
-	# avoid using existing R installation
-	unset R_HOME
-	# Temporary fix for bug #419761
-	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
-		append-flags -fno-ipa-cp-clone
-	fi
-}
-
-src_prepare() {
-	default
-
-	# fix packages.html for doc (gentoo bug #205103)
-	sed -e "s:../../../library:../../../../$(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='\"${EROOT%/}/usr/$(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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
-
-	use lapack && \
-		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
-
-	if use X; then
-		export R_BROWSER="$(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 (OS X)
-	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 ${EROOT%/}/usr/$(get_libdir)/libRmath.dylib:" \
-				-i src/nmath/standalone/Makefile.in || die
-		else
-			append-ldflags -Wl,-rpath="${EROOT%/}/usr/$(get_libdir)/R/lib"
-		fi
-	fi
-	AT_M4DIR=m4
-	eautoreconf
-}
-
-src_configure() {
-	#	--with-system-tre \
-	# tre is patched from upstream
-	econf \
-		--enable-byte-compiled-packages \
-		--enable-R-shlib \
-		--disable-R-framework \
-		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
-		--docdir="${EPREFIX}/usr/share/doc/${PF}" \
-		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
-		$(use_enable java) \
-		$(use_enable nls) \
-		$(use_enable openmp) \
-		$(use_enable profile R-profiling) \
-		$(use_enable profile memory-profiling) \
-		$(use_enable static-libs static) \
-		$(use_enable static-libs R-static-lib) \
-		$(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) \
-		$(use_with tk tk-config "${EPREFIX}"/usr/$(get_libdir)/tkConfig.sh) \
-		$(use_with tk tcl-config "${EPREFIX}"/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 $(use static-libs && echo static) AR="$(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/${PF}/html/manual
-	fi
-
-	cat > 99R <<-EOF
-		LDPATH=${EROOT%/}/usr/$(get_libdir)/${PN}/lib
-		R_HOME=${EROOT%/}/usr/$(get_libdir)/${PN}
-	EOF
-	doenvd 99R
-	newbashcomp "${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
-		for mod in $(find . -name "*.dylib") ; do
-			mod=${mod#./}
-			install_name_tool -id "${EPREFIX}/usr/$(get_libdir)/R/${mod}" \
-				"${mod}"
-		done
-		popd > /dev/null
-	fi
-	docompress -x /usr/share/doc/${PF}/{BioC_mirrors.csv,CRAN_mirrors.csv,KEYWORDS.db,NEWS.rds}
-}
-
-pkg_postinst() {
-	if use java; then
-		einfo "Re-initializing java paths for ${P}"
-		R CMD javareconf
-	fi
-}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2019-04-07 10:00 Mark Wright
  0 siblings, 0 replies; 99+ messages in thread
From: Mark Wright @ 2019-04-07 10:00 UTC (permalink / raw
  To: gentoo-commits

commit:     408cbc8406b0ca0f91f46052b3a9e1f6bb4f71f9
Author:     Mark Wright <gienah <AT> gentoo <DOT> org>
AuthorDate: Sun Apr  7 09:59:43 2019 +0000
Commit:     Mark Wright <gienah <AT> gentoo <DOT> org>
CommitDate: Sun Apr  7 09:59:43 2019 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=408cbc84

sci-mathematics/R: Bump to 3.5.3, thanks Neil for reporting

Add missing dependency net-libs/libtirpc, thanks to Victor Kustov for
reporting.

Change dependency from x11-libs/cairo[X] to x11-libs/cairo[X=],
thanks to Cedric Sodhi for reporting, Felix W for helping.

Closes: https://bugs.gentoo.org/674858
Closes: https://bugs.gentoo.org/661878
Closes: https://bugs.gentoo.org/638778
Package-Manager: Portage-2.3.62, Repoman-2.3.12
Signed-off-by: Mark Wright <gienah <AT> gentoo.org>

 dev-lang/R/Manifest       |   1 +
 dev-lang/R/R-3.5.3.ebuild | 205 ++++++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 206 insertions(+)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index dd164dbdc77..ef092e2cf42 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -3,4 +3,5 @@ DIST R-3.2.2.tar.gz 29772864 BLAKE2B f3f7ff9b9bd3cf685712e8997dd5a511a47e56ed261
 DIST R-3.3.2.tar.gz 29440670 BLAKE2B 37308fb0caf19c33196b496d5b6f2f1b5b6f75e3ed985f2f0c4b0633d6191181de7f4cbd1ec986d76089a101d8895493cfe3b8563cfbc36f0b72a1ea14c748c5 SHA512 06a98687c0b180cb0bfd57440ea26088212d9f48948d503136475bf54b42d72cfec5bea7e333c0cedd60733bd614dd0f8c2eced7e24478b6c89f48e8d0c43482
 DIST R-3.4.1.tar.gz 30200109 BLAKE2B 03602e9a48759caee8ce047fa6273df7a54af089de4489e21953c0e3fc7bfdf720d924f1e0167d3dbf65f63ed42ac10dea8b45289b921cda1c0e6d25a0063ebb SHA512 19bd50c87dc001ef947c15c1760f27ac8986ff6b43c6d90d3093ae184e42963027ef06faf31ec57ac9e519af7a35a2f53f8ea23ef75d800ebbd02945cedc4651
 DIST R-3.5.1.tar.gz 29812849 BLAKE2B 9390934e5da5bd223eee717d4e4c5bd7d47291811318b2fdeac59216081cf9e63119f17bc8fee7235e2426852c50eb5948e6a2a3a632047f41b36460e2584967 SHA512 382cc6e200469dd168799948edcf3a0b869d7ef3b3176fdfc60752f3f37e6ba356323c47d8815a4d9ab6ad3a21cd045d26ef5e75107c8685328e0ffcfd172f7f
+DIST R-3.5.3.tar.gz 30205979 BLAKE2B 60dde4c1a7874df0b113630577d943d581d9e0844383a5cb7eda7f62470177d541704a888c33ded216f8b1f088cda493d7716693f5e2451effe3639ce2286dd1 SHA512 077cbd4bc9f19a3a2485afbd4d8e08e0754ddcb9a10164cbc8478f239d5ed0ffaf6796929f154cce1c8aea549c32d460049fc036dc326174d1dbb0a1ddb5f5ef
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06

diff --git a/dev-lang/R/R-3.5.3.ebuild b/dev-lang/R/R-3.5.3.ebuild
new file mode 100644
index 00000000000..39eee89799d
--- /dev/null
+++ b/dev-lang/R/R-3.5.3.ebuild
@@ -0,0 +1,205 @@
+# Copyright 1999-2019 Gentoo Authors
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=7
+
+inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib 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="http://www.r-project.org/"
+SRC_URI="
+	mirror://cran/src/base/R-3/${P}.tar.gz
+	https://raw.githubusercontent.com/deepayan/rcompletion/${BCPV}/bash_completion/R -> ${PN}-${BCPV}.bash_completion"
+
+LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
+SLOT="0"
+KEYWORDS="~amd64 ~ia64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
+REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
+
+CDEPEND="
+	app-arch/bzip2:0=
+	app-arch/xz-utils:0=
+	app-text/ghostscript-gpl
+	>=dev-libs/libpcre-8.35:3=
+	net-libs/libtirpc
+	net-misc/curl
+	virtual/blas:0
+	|| ( >=sys-apps/coreutils-8.15 sys-freebsd/freebsd-bin app-misc/realpath )
+	cairo? ( x11-libs/cairo:0=[X=] x11-libs/pango:0= )
+	icu? ( dev-libs/icu:= )
+	jpeg? ( virtual/jpeg:0 )
+	lapack? ( virtual/lapack:0 )
+	perl? ( dev-lang/perl )
+	png? ( media-libs/libpng:0= )
+	readline? ( sys-libs/readline:0= )
+	tiff? ( media-libs/tiff:0= )
+	tk? ( dev-lang/tk:0= )
+	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
+
+DEPEND="${CDEPEND}
+	virtual/pkgconfig
+	doc? (
+		virtual/latex-base
+		dev-texlive/texlive-fontsrecommended
+	)"
+
+RDEPEND="${CDEPEND}
+	>=sys-libs/zlib-1.2.5.1-r2:0[minizip]
+	java? ( >=virtual/jre-1.5 )"
+
+RESTRICT="minimal? ( test )"
+
+PATCHES=(
+	"${FILESDIR}"/${PN}-3.4.1-parallel.patch
+	"${FILESDIR}"/${PN}-3.4.1-rmath-shared.patch
+)
+
+pkg_pretend() {
+	[[ ${MERGE_TYPE} != binary ]] && use openmp && tc-check-openmp
+}
+
+pkg_setup() {
+	if [[ ${MERGE_TYPE} != binary ]] && use openmp; then
+		if ! tc-check-openmp; then
+			ewarn "OpenMP is not available in your current selected compiler"
+			die "need openmp capable compiler"
+		fi
+		FORTRAN_NEED_OPENMP=1
+	fi
+	fortran-2_pkg_setup
+	filter-ldflags -Wl,-Bdirect -Bdirect
+	# avoid using existing R installation
+	unset R_HOME
+	# Temporary fix for bug #419761
+	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
+		append-flags -fno-ipa-cp-clone
+	fi
+}
+
+src_prepare() {
+	default
+
+	# fix packages.html for doc (gentoo bug #205103)
+	sed -e "s:../../../library:../../../../$(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='\"${EROOT%/}/usr/$(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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
+
+	use lapack && \
+		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+	if use X; then
+		export R_BROWSER="$(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 (OS X)
+	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 ${EROOT%/}/usr/$(get_libdir)/libRmath.dylib:" \
+				-i src/nmath/standalone/Makefile.in || die
+		else
+			append-ldflags -Wl,-rpath="${EROOT%/}/usr/$(get_libdir)/R/lib"
+		fi
+	fi
+	AT_M4DIR=m4
+	eautoreconf
+}
+
+src_configure() {
+	#	--with-system-tre \
+	# tre is patched from upstream
+	econf \
+		--enable-byte-compiled-packages \
+		--enable-R-shlib \
+		--disable-R-framework \
+		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
+		--docdir="${EPREFIX}/usr/share/doc/${PF}" \
+		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
+		$(use_enable java) \
+		$(use_enable nls) \
+		$(use_enable openmp) \
+		$(use_enable profile R-profiling) \
+		$(use_enable profile memory-profiling) \
+		$(use_enable static-libs static) \
+		$(use_enable static-libs R-static-lib) \
+		$(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) \
+		$(use_with tk tk-config "${EPREFIX}"/usr/$(get_libdir)/tkConfig.sh) \
+		$(use_with tk tcl-config "${EPREFIX}"/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 $(use static-libs && echo static) AR="$(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/${PF}/html/manual
+	fi
+
+	cat > 99R <<-EOF
+		LDPATH=${EROOT%/}/usr/$(get_libdir)/${PN}/lib
+		R_HOME=${EROOT%/}/usr/$(get_libdir)/${PN}
+	EOF
+	doenvd 99R
+	newbashcomp "${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
+		for mod in $(find . -name "*.dylib") ; do
+			mod=${mod#./}
+			install_name_tool -id "${EPREFIX}/usr/$(get_libdir)/R/${mod}" \
+				"${mod}"
+		done
+		popd > /dev/null
+	fi
+	docompress -x /usr/share/doc/${PF}/{BioC_mirrors.csv,CRAN_mirrors.csv,KEYWORDS.db,NEWS.rds}
+}
+
+pkg_postinst() {
+	if use java; then
+		einfo "Re-initializing java paths for ${P}"
+		R CMD javareconf
+	fi
+}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2018-10-12 12:43 Mikle Kolyada
  0 siblings, 0 replies; 99+ messages in thread
From: Mikle Kolyada @ 2018-10-12 12:43 UTC (permalink / raw
  To: gentoo-commits

commit:     94eaf39e89ff0cb86aced3d5bd35c78d6b368a65
Author:     Mikle Kolyada <zlogene <AT> gentoo <DOT> org>
AuthorDate: Fri Oct 12 12:42:57 2018 +0000
Commit:     Mikle Kolyada <zlogene <AT> gentoo <DOT> org>
CommitDate: Fri Oct 12 12:42:57 2018 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=94eaf39e

dev-lang/R: Drop hppa keyword

Signed-off-by: Mikle Kolyada <zlogene <AT> gentoo.org>
Package-Manager: Portage-2.3.49, Repoman-2.3.11

 dev-lang/R/R-3.2.2.ebuild | 4 ++--
 dev-lang/R/R-3.3.2.ebuild | 4 ++--
 dev-lang/R/R-3.4.1.ebuild | 4 ++--
 dev-lang/R/R-3.5.1.ebuild | 4 ++--
 4 files changed, 8 insertions(+), 8 deletions(-)

diff --git a/dev-lang/R/R-3.2.2.ebuild b/dev-lang/R/R-3.2.2.ebuild
index a4ca3845b1e..df833c293e4 100644
--- a/dev-lang/R/R-3.2.2.ebuild
+++ b/dev-lang/R/R-3.2.2.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2015 Gentoo Foundation
+# Copyright 1999-2018 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=5
@@ -14,7 +14,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 hppa ia64 sparc x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="amd64 ia64 sparc x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 

diff --git a/dev-lang/R/R-3.3.2.ebuild b/dev-lang/R/R-3.3.2.ebuild
index 2a3cb85b5ce..6ca1d812f3e 100644
--- a/dev-lang/R/R-3.3.2.ebuild
+++ b/dev-lang/R/R-3.3.2.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2017 Gentoo Foundation
+# Copyright 1999-2018 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=5
@@ -14,7 +14,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 ~hppa ~ia64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="~amd64 ~ia64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 

diff --git a/dev-lang/R/R-3.4.1.ebuild b/dev-lang/R/R-3.4.1.ebuild
index 87ba2dd8f31..e273a93fab8 100644
--- a/dev-lang/R/R-3.4.1.ebuild
+++ b/dev-lang/R/R-3.4.1.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2018 Gentoo Foundation
+# Copyright 1999-2018 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=6
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 ~hppa ia64 sparc x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="amd64 ia64 sparc x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 

diff --git a/dev-lang/R/R-3.5.1.ebuild b/dev-lang/R/R-3.5.1.ebuild
index 23d0c99a327..6c443c1bd29 100644
--- a/dev-lang/R/R-3.5.1.ebuild
+++ b/dev-lang/R/R-3.5.1.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2018 Gentoo Foundation
+# Copyright 1999-2018 Gentoo Authors
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=6
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 ~hppa ~ia64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="~amd64 ~ia64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2018-09-27 18:33 Sergei Trofimovich
  0 siblings, 0 replies; 99+ messages in thread
From: Sergei Trofimovich @ 2018-09-27 18:33 UTC (permalink / raw
  To: gentoo-commits

commit:     479544eccd70bd42ceb466d8fb6ae0f3c60c4d5f
Author:     Rolf Eike Beer <eike <AT> sf-mail <DOT> de>
AuthorDate: Thu Sep 27 16:15:02 2018 +0000
Commit:     Sergei Trofimovich <slyfox <AT> gentoo <DOT> org>
CommitDate: Thu Sep 27 18:33:43 2018 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=479544ec

dev-lang/R: stable 3.4.1 for sparc, bug #641284

Signed-off-by: Rolf Eike Beer <eike <AT> sf-mail.de>
Package-Manager: Portage-2.3.49, Repoman-2.3.10
RepoMan-Options: --include-arches="sparc"
Signed-off-by: Sergei Trofimovich <slyfox <AT> gentoo.org>

 dev-lang/R/R-3.4.1.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-3.4.1.ebuild b/dev-lang/R/R-3.4.1.ebuild
index a3e84cc1fd8..87ba2dd8f31 100644
--- a/dev-lang/R/R-3.4.1.ebuild
+++ b/dev-lang/R/R-3.4.1.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 ~hppa ia64 ~sparc x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="amd64 ~hppa ia64 sparc x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2018-09-18  1:09 Matt Turner
  0 siblings, 0 replies; 99+ messages in thread
From: Matt Turner @ 2018-09-18  1:09 UTC (permalink / raw
  To: gentoo-commits

commit:     e3f170042c4e4b15fc035c39a8c00e03e147f3b0
Author:     Matt Turner <mattst88 <AT> gentoo <DOT> org>
AuthorDate: Tue Sep 18 01:08:23 2018 +0000
Commit:     Matt Turner <mattst88 <AT> gentoo <DOT> org>
CommitDate: Tue Sep 18 01:09:23 2018 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=e3f17004

dev-lang/R: drop ppc/ppc64 keywords, bug 641284

 dev-lang/R/R-3.2.2.ebuild | 2 +-
 dev-lang/R/R-3.3.2.ebuild | 2 +-
 dev-lang/R/R-3.4.1.ebuild | 2 +-
 dev-lang/R/R-3.5.1.ebuild | 2 +-
 4 files changed, 4 insertions(+), 4 deletions(-)

diff --git a/dev-lang/R/R-3.2.2.ebuild b/dev-lang/R/R-3.2.2.ebuild
index ae27f02d702..a4ca3845b1e 100644
--- a/dev-lang/R/R-3.2.2.ebuild
+++ b/dev-lang/R/R-3.2.2.ebuild
@@ -14,7 +14,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 hppa ia64 ppc ppc64 sparc x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="amd64 hppa ia64 sparc x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 

diff --git a/dev-lang/R/R-3.3.2.ebuild b/dev-lang/R/R-3.3.2.ebuild
index fb9bde8c312..2a3cb85b5ce 100644
--- a/dev-lang/R/R-3.3.2.ebuild
+++ b/dev-lang/R/R-3.3.2.ebuild
@@ -14,7 +14,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 ~hppa ~ia64 ~ppc ~ppc64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="~amd64 ~hppa ~ia64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 

diff --git a/dev-lang/R/R-3.4.1.ebuild b/dev-lang/R/R-3.4.1.ebuild
index 45c84fd3649..a3e84cc1fd8 100644
--- a/dev-lang/R/R-3.4.1.ebuild
+++ b/dev-lang/R/R-3.4.1.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 ~hppa ia64 ~ppc ~ppc64 ~sparc x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="amd64 ~hppa ia64 ~sparc x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 

diff --git a/dev-lang/R/R-3.5.1.ebuild b/dev-lang/R/R-3.5.1.ebuild
index 96c6fe5ac78..23d0c99a327 100644
--- a/dev-lang/R/R-3.5.1.ebuild
+++ b/dev-lang/R/R-3.5.1.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 ~hppa ~ia64 ~ppc ~ppc64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="~amd64 ~hppa ~ia64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2018-07-04  0:10 Mark Wright
  0 siblings, 0 replies; 99+ messages in thread
From: Mark Wright @ 2018-07-04  0:10 UTC (permalink / raw
  To: gentoo-commits

commit:     a95fb2c43f530843ab8db95718278e2539f77f62
Author:     Mark Wright <gienah <AT> gentoo <DOT> org>
AuthorDate: Wed Jul  4 00:09:32 2018 +0000
Commit:     Mark Wright <gienah <AT> gentoo <DOT> org>
CommitDate: Wed Jul  4 00:09:32 2018 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=a95fb2c4

dev-lang/R: Bump to 3.5.1

Thanks to Neil for reporting, Daniel M. Weeks, John Dough and Marcel Schilling
for commenting.

Closes: https://bugs.gentoo.org/632364
Closes: https://bugs.gentoo.org/660294
Package-Manager: Portage-2.3.41, Repoman-2.3.9

 dev-lang/R/Manifest                              | 2 +-
 dev-lang/R/{R-3.5.1_rc.ebuild => R-3.5.1.ebuild} | 5 +----
 2 files changed, 2 insertions(+), 5 deletions(-)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index d69ac509af6..dd164dbdc77 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -2,5 +2,5 @@ DIST R-20130129.bash_completion.bz2 4209 BLAKE2B 0afbe9548641cb68a521e4140c48019
 DIST R-3.2.2.tar.gz 29772864 BLAKE2B f3f7ff9b9bd3cf685712e8997dd5a511a47e56ed261c1039b0540c29e4dd3131cc3052dad2c9a89af04b7bd595d9be7b9c8310206dd5b82244bb274f5a274603 SHA512 71ba470875262b9f00fb6970f209788df4dad30e0a28373b824b60d8bc6401afb7786e65387663c6490c7ddcd2bfd7f808a270a3e63238f3d7565d5f93607138
 DIST R-3.3.2.tar.gz 29440670 BLAKE2B 37308fb0caf19c33196b496d5b6f2f1b5b6f75e3ed985f2f0c4b0633d6191181de7f4cbd1ec986d76089a101d8895493cfe3b8563cfbc36f0b72a1ea14c748c5 SHA512 06a98687c0b180cb0bfd57440ea26088212d9f48948d503136475bf54b42d72cfec5bea7e333c0cedd60733bd614dd0f8c2eced7e24478b6c89f48e8d0c43482
 DIST R-3.4.1.tar.gz 30200109 BLAKE2B 03602e9a48759caee8ce047fa6273df7a54af089de4489e21953c0e3fc7bfdf720d924f1e0167d3dbf65f63ed42ac10dea8b45289b921cda1c0e6d25a0063ebb SHA512 19bd50c87dc001ef947c15c1760f27ac8986ff6b43c6d90d3093ae184e42963027ef06faf31ec57ac9e519af7a35a2f53f8ea23ef75d800ebbd02945cedc4651
+DIST R-3.5.1.tar.gz 29812849 BLAKE2B 9390934e5da5bd223eee717d4e4c5bd7d47291811318b2fdeac59216081cf9e63119f17bc8fee7235e2426852c50eb5948e6a2a3a632047f41b36460e2584967 SHA512 382cc6e200469dd168799948edcf3a0b869d7ef3b3176fdfc60752f3f37e6ba356323c47d8815a4d9ab6ad3a21cd045d26ef5e75107c8685328e0ffcfd172f7f
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06
-DIST R-patched_2018-06-29.tar.gz 29775566 BLAKE2B 905f2cacd01d151f4d35f1dcba5cdc850958f1dae2ecb334932ec652dad5f964ed861c54878dfee2b6c2880d4ea7894e1e71384975d90a2653f9289fa94e6f82 SHA512 2dafcd57e7821f5ccbce44915e312d24f13de35e6c9ece13185c941de1f4c71e52151a44dc0ad801fac90e0955a26d5c6b47d89656c07cddf4959b34a935d0f9

diff --git a/dev-lang/R/R-3.5.1_rc.ebuild b/dev-lang/R/R-3.5.1.ebuild
similarity index 97%
rename from dev-lang/R/R-3.5.1_rc.ebuild
rename to dev-lang/R/R-3.5.1.ebuild
index c77d3ebacb4..96c6fe5ac78 100644
--- a/dev-lang/R/R-3.5.1_rc.ebuild
+++ b/dev-lang/R/R-3.5.1.ebuild
@@ -10,9 +10,8 @@ BCPV=78d6830e28ea90a046da79a9b4f70c39594bb6d6
 
 DESCRIPTION="Language and environment for statistical computing and graphics"
 HOMEPAGE="http://www.r-project.org/"
-# This release candidate is not on the CRAN mirrors
 SRC_URI="
-	https://stat.ethz.ch/R/daily/R-patched_2018-06-29.tar.gz
+	mirror://cran/src/base/R-3/${P}.tar.gz
 	https://raw.githubusercontent.com/deepayan/rcompletion/${BCPV}/bash_completion/R -> ${PN}-${BCPV}.bash_completion"
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
@@ -58,8 +57,6 @@ PATCHES=(
 	"${FILESDIR}"/${PN}-3.4.1-rmath-shared.patch
 )
 
-S="${WORKDIR}/R-rc"
-
 pkg_pretend() {
 	[[ ${MERGE_TYPE} != binary ]] && use openmp && tc-check-openmp
 }


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2018-07-03  0:48 Mark Wright
  0 siblings, 0 replies; 99+ messages in thread
From: Mark Wright @ 2018-07-03  0:48 UTC (permalink / raw
  To: gentoo-commits

commit:     c13cb5aef5770ba3e947fb4891b955ce1ebd6b71
Author:     Mark Wright <gienah <AT> gentoo <DOT> org>
AuthorDate: Mon Jul  2 11:28:58 2018 +0000
Commit:     Mark Wright <gienah <AT> gentoo <DOT> org>
CommitDate: Tue Jul  3 00:47:24 2018 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=c13cb5ae

dev-lang/R: Bump to 3.5.1 RC

Thanks to Neil for reporting, John Dough and Daniel M. Weeks for commenting.
Bug: https://bugs.gentoo.org/632364
Package-Manager: Portage-2.3.41, Repoman-2.3.9

 dev-lang/R/Manifest          |   1 +
 dev-lang/R/R-3.5.1_rc.ebuild | 207 +++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 208 insertions(+)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index bf671c6578e..d69ac509af6 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -3,3 +3,4 @@ DIST R-3.2.2.tar.gz 29772864 BLAKE2B f3f7ff9b9bd3cf685712e8997dd5a511a47e56ed261
 DIST R-3.3.2.tar.gz 29440670 BLAKE2B 37308fb0caf19c33196b496d5b6f2f1b5b6f75e3ed985f2f0c4b0633d6191181de7f4cbd1ec986d76089a101d8895493cfe3b8563cfbc36f0b72a1ea14c748c5 SHA512 06a98687c0b180cb0bfd57440ea26088212d9f48948d503136475bf54b42d72cfec5bea7e333c0cedd60733bd614dd0f8c2eced7e24478b6c89f48e8d0c43482
 DIST R-3.4.1.tar.gz 30200109 BLAKE2B 03602e9a48759caee8ce047fa6273df7a54af089de4489e21953c0e3fc7bfdf720d924f1e0167d3dbf65f63ed42ac10dea8b45289b921cda1c0e6d25a0063ebb SHA512 19bd50c87dc001ef947c15c1760f27ac8986ff6b43c6d90d3093ae184e42963027ef06faf31ec57ac9e519af7a35a2f53f8ea23ef75d800ebbd02945cedc4651
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06
+DIST R-patched_2018-06-29.tar.gz 29775566 BLAKE2B 905f2cacd01d151f4d35f1dcba5cdc850958f1dae2ecb334932ec652dad5f964ed861c54878dfee2b6c2880d4ea7894e1e71384975d90a2653f9289fa94e6f82 SHA512 2dafcd57e7821f5ccbce44915e312d24f13de35e6c9ece13185c941de1f4c71e52151a44dc0ad801fac90e0955a26d5c6b47d89656c07cddf4959b34a935d0f9

diff --git a/dev-lang/R/R-3.5.1_rc.ebuild b/dev-lang/R/R-3.5.1_rc.ebuild
new file mode 100644
index 00000000000..c77d3ebacb4
--- /dev/null
+++ b/dev-lang/R/R-3.5.1_rc.ebuild
@@ -0,0 +1,207 @@
+# Copyright 1999-2018 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+
+EAPI=6
+
+inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib versionator 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="http://www.r-project.org/"
+# This release candidate is not on the CRAN mirrors
+SRC_URI="
+	https://stat.ethz.ch/R/daily/R-patched_2018-06-29.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 ~hppa ~ia64 ~ppc ~ppc64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
+REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
+
+CDEPEND="
+	app-arch/bzip2:0=
+	app-arch/xz-utils:0=
+	app-text/ghostscript-gpl
+	>=dev-libs/libpcre-8.35:3=
+	net-misc/curl
+	virtual/blas:0
+	|| ( >=sys-apps/coreutils-8.15 sys-freebsd/freebsd-bin app-misc/realpath )
+	cairo? ( x11-libs/cairo:0=[X] x11-libs/pango:0= )
+	icu? ( dev-libs/icu:= )
+	jpeg? ( virtual/jpeg:0 )
+	lapack? ( virtual/lapack:0 )
+	perl? ( dev-lang/perl )
+	png? ( media-libs/libpng:0= )
+	readline? ( sys-libs/readline:0= )
+	tiff? ( media-libs/tiff:0= )
+	tk? ( dev-lang/tk:0= )
+	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
+
+DEPEND="${CDEPEND}
+	virtual/pkgconfig
+	doc? (
+		virtual/latex-base
+		dev-texlive/texlive-fontsrecommended
+	)"
+
+RDEPEND="${CDEPEND}
+	>=sys-libs/zlib-1.2.5.1-r2:0[minizip]
+	java? ( >=virtual/jre-1.5 )"
+
+RESTRICT="minimal? ( test )"
+
+PATCHES=(
+	"${FILESDIR}"/${PN}-3.4.1-parallel.patch
+	"${FILESDIR}"/${PN}-3.4.1-rmath-shared.patch
+)
+
+S="${WORKDIR}/R-rc"
+
+pkg_pretend() {
+	[[ ${MERGE_TYPE} != binary ]] && use openmp && tc-check-openmp
+}
+
+pkg_setup() {
+	if [[ ${MERGE_TYPE} != binary ]] && use openmp; then
+		if ! tc-check-openmp; then
+			ewarn "OpenMP is not available in your current selected compiler"
+			die "need openmp capable compiler"
+		fi
+		FORTRAN_NEED_OPENMP=1
+	fi
+	fortran-2_pkg_setup
+	filter-ldflags -Wl,-Bdirect -Bdirect
+	# avoid using existing R installation
+	unset R_HOME
+	# Temporary fix for bug #419761
+	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
+		append-flags -fno-ipa-cp-clone
+	fi
+}
+
+src_prepare() {
+	default
+
+	# fix packages.html for doc (gentoo bug #205103)
+	sed -e "s:../../../library:../../../../$(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='\"${EROOT%/}/usr/$(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 $(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
+
+	use lapack && \
+		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+	if use X; then
+		export R_BROWSER="$(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 (OS X)
+	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 ${EROOT%/}/usr/$(get_libdir)/libRmath.dylib:" \
+				-i src/nmath/standalone/Makefile.in || die
+		else
+			append-ldflags -Wl,-rpath="${EROOT%/}/usr/$(get_libdir)/R/lib"
+		fi
+	fi
+	AT_M4DIR=m4
+	eautoreconf
+}
+
+src_configure() {
+	#	--with-system-tre \
+	# tre is patched from upstream
+	econf \
+		--enable-byte-compiled-packages \
+		--enable-R-shlib \
+		--disable-R-framework \
+		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
+		--docdir="${EPREFIX}/usr/share/doc/${PF}" \
+		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
+		$(use_enable java) \
+		$(use_enable nls) \
+		$(use_enable openmp) \
+		$(use_enable profile R-profiling) \
+		$(use_enable profile memory-profiling) \
+		$(use_enable static-libs static) \
+		$(use_enable static-libs R-static-lib) \
+		$(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) \
+		$(use_with tk tk-config "${EPREFIX}"/usr/$(get_libdir)/tkConfig.sh) \
+		$(use_with tk tcl-config "${EPREFIX}"/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 $(use static-libs && echo static) AR="$(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/${PF}/html/manual
+	fi
+
+	cat > 99R <<-EOF
+		LDPATH=${EROOT%/}/usr/$(get_libdir)/${PN}/lib
+		R_HOME=${EROOT%/}/usr/$(get_libdir)/${PN}
+	EOF
+	doenvd 99R
+	newbashcomp "${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
+		for mod in $(find . -name "*.dylib") ; do
+			mod=${mod#./}
+			install_name_tool -id "${EPREFIX}/usr/$(get_libdir)/R/${mod}" \
+				"${mod}"
+		done
+		popd > /dev/null
+	fi
+	docompress -x /usr/share/doc/${PF}/{BioC_mirrors.csv,CRAN_mirrors.csv,KEYWORDS.db,NEWS.rds}
+}
+
+pkg_postinst() {
+	if use java; then
+		einfo "Re-initializing java paths for ${P}"
+		R CMD javareconf
+	fi
+}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2018-04-19 20:19 Mikle Kolyada
  0 siblings, 0 replies; 99+ messages in thread
From: Mikle Kolyada @ 2018-04-19 20:19 UTC (permalink / raw
  To: gentoo-commits

commit:     f119e75354336d3ebce8a8d9e400b36a9c11f635
Author:     Mikle Kolyada <zlogene <AT> gentoo <DOT> org>
AuthorDate: Thu Apr 19 20:19:00 2018 +0000
Commit:     Mikle Kolyada <zlogene <AT> gentoo <DOT> org>
CommitDate: Thu Apr 19 20:19:00 2018 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=f119e753

dev-lang/R: amd64 stable wrt bug #641284

Package-Manager: Portage-2.3.24, Repoman-2.3.6

 dev-lang/R/R-3.4.1.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-3.4.1.ebuild b/dev-lang/R/R-3.4.1.ebuild
index 38fe2e291be..3334adcbe8d 100644
--- a/dev-lang/R/R-3.4.1.ebuild
+++ b/dev-lang/R/R-3.4.1.ebuild
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 ~hppa ia64 ~ppc ~ppc64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="amd64 ~hppa ia64 ~ppc ~ppc64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2018-04-18 21:04 Sergei Trofimovich
  0 siblings, 0 replies; 99+ messages in thread
From: Sergei Trofimovich @ 2018-04-18 21:04 UTC (permalink / raw
  To: gentoo-commits

commit:     387b672826ddb3b0b272f52b1b03d8fb37a43c80
Author:     Sergei Trofimovich <slyfox <AT> gentoo <DOT> org>
AuthorDate: Wed Apr 18 21:02:08 2018 +0000
Commit:     Sergei Trofimovich <slyfox <AT> gentoo <DOT> org>
CommitDate: Wed Apr 18 21:04:08 2018 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=387b6728

dev-lang/R: stable 3.4.1 for ia64, bug #641284

Bug: https://bugs.gentoo.org/641284
Package-Manager: Portage-2.3.28, Repoman-2.3.9
RepoMan-Options: --include-arches="ia64"

 dev-lang/R/R-3.4.1.ebuild | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/dev-lang/R/R-3.4.1.ebuild b/dev-lang/R/R-3.4.1.ebuild
index 85556b03670..38fe2e291be 100644
--- a/dev-lang/R/R-3.4.1.ebuild
+++ b/dev-lang/R/R-3.4.1.ebuild
@@ -1,4 +1,4 @@
-# Copyright 1999-2017 Gentoo Foundation
+# Copyright 1999-2018 Gentoo Foundation
 # Distributed under the terms of the GNU General Public License v2
 
 EAPI=6
@@ -16,7 +16,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 ~hppa ~ia64 ~ppc ~ppc64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="~amd64 ~hppa ia64 ~ppc ~ppc64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2017-07-27 21:19 Denis Dupeyron
  0 siblings, 0 replies; 99+ messages in thread
From: Denis Dupeyron @ 2017-07-27 21:19 UTC (permalink / raw
  To: gentoo-commits

commit:     7a407ebe8625949ede4b7532b95363b2061f7904
Author:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
AuthorDate: Thu Jul 27 21:19:02 2017 +0000
Commit:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
CommitDate: Thu Jul 27 21:19:47 2017 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=7a407ebe

dev-lang/R: remove calchan from maintainer list

 dev-lang/R/metadata.xml | 4 ----
 1 file changed, 4 deletions(-)

diff --git a/dev-lang/R/metadata.xml b/dev-lang/R/metadata.xml
index 30cef9895e3..8972d9ed88c 100644
--- a/dev-lang/R/metadata.xml
+++ b/dev-lang/R/metadata.xml
@@ -1,10 +1,6 @@
 <?xml version="1.0" encoding="UTF-8"?>
 <!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
 <pkgmetadata>
-  <maintainer type="person">
-    <email>calchan@gentoo.org</email>
-    <name>Denis Dupeyron</name>
-  </maintainer>
   <maintainer type="project">
     <email>sci-mathematics@gentoo.org</email>
     <name>Gentoo Mathematics Project</name>


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2017-07-11 19:30 Justin Lecher
  0 siblings, 0 replies; 99+ messages in thread
From: Justin Lecher @ 2017-07-11 19:30 UTC (permalink / raw
  To: gentoo-commits

commit:     4b6dbfc8fecf27837182a473fb5635df3ba977e6
Author:     Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Tue Jul 11 19:29:09 2017 +0000
Commit:     Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Tue Jul 11 19:30:21 2017 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=4b6dbfc8

dev-lang/R: Drop version failing with only zlib in tree

Package-Manager: Portage-2.3.6-prefix, Repoman-2.3.2
Signed-off-by: Justin Lecher <jlec <AT> gentoo.org>

 dev-lang/R/Manifest       |   1 -
 dev-lang/R/R-3.3.1.ebuild | 200 ----------------------------------------------
 2 files changed, 201 deletions(-)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index 9403f0b02c9..075c16f710d 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,6 +1,5 @@
 DIST R-20130129.bash_completion.bz2 4209 SHA256 487e969b94563fec98ec58de7e6142e9361d4219088add0fca282b482a9e01b1 SHA512 910b26e16cfebe677f438abfa5f2652e582db143d91dbf0e7d4b1ea33462c7e5c89c3a3619c63ae98bba26b11a5adb16eda9d344f8cdbe4f0feabc546993c1a5 WHIRLPOOL 2368efaed37fcb6e010f6a234864631f68549bd8e3f733561170cc5b28f5557e546d8561246fb265a481a47991a262fec3acf6abc1dc3929a9357405e0d3c6fc
 DIST R-3.2.2.tar.gz 29772864 SHA256 9c9152e74134b68b0f3a1c7083764adc1cb56fd8336bec003fd0ca550cd2461d SHA512 71ba470875262b9f00fb6970f209788df4dad30e0a28373b824b60d8bc6401afb7786e65387663c6490c7ddcd2bfd7f808a270a3e63238f3d7565d5f93607138 WHIRLPOOL fea59929ada1d67dafc6ad89409d18ad173af7990384033f490a00e0f794d9919aecf7cd37089d105fe03b9cf64d079e5d148622571cec3eb924c1c5bd00081e
-DIST R-3.3.1.tar.gz 29848329 SHA256 3dc59ae5831f5380f83c169bac2103ad052efe0ecec4ffa74bde4d85a0fda9e2 SHA512 d0ff85e99b9ec9cac672aa30d7d1a854778c6a610bcc5336e8c60c8c74f20856f2bfeae085af793fad646ff45cb4677d9d6dcbaa18212591f72f00a02339f4cd WHIRLPOOL 6e2edb60173a54c8b25d16201c24176b3ea837287e6d306c9d2e2c4578764b0d469d9c17228b6be67dda646a4272f30b331dbbc6238a6e851eb5320f04c7f151
 DIST R-3.3.2.tar.gz 29440670 SHA256 d294ad21e9f574fb4828ebb3a94b8cb34f4f304a41687a994be00dd41a4e514c SHA512 06a98687c0b180cb0bfd57440ea26088212d9f48948d503136475bf54b42d72cfec5bea7e333c0cedd60733bd614dd0f8c2eced7e24478b6c89f48e8d0c43482 WHIRLPOOL a68112df87552cc6ca8cd6b78b99dda2a22b8f4cfcd87a4512d541d25ef21358ede1ba71b4d7e9f274bf4e4340de18355a777d9af2ed41c0a498fa11d91cf0d8
 DIST R-3.4.1.tar.gz 30200109 SHA256 02b1135d15ea969a3582caeb95594a05e830a6debcdb5b85ed2d5836a6a3fc78 SHA512 19bd50c87dc001ef947c15c1760f27ac8986ff6b43c6d90d3093ae184e42963027ef06faf31ec57ac9e519af7a35a2f53f8ea23ef75d800ebbd02945cedc4651 WHIRLPOOL 1396303a7ef7a0e8920af867e6b68e171152578231c9a7ad5020b494124922aae634c1ce6d0f2b2f8441481736b93c3abffe142f2af78dbb0dbc754c4faec3f1
 DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 SHA256 7e452a23e0bd96b1076280448d130adab229b8ea37cd4531db77391868a31e97 SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06 WHIRLPOOL 49fd55e6a52d55f0aa15d3a117394793b6fba6f1b69a26911a2b2d7c40a65c8ec2246851edc3abb52849930c48e817ee62319ae8bc1db0a9b802c95fcb1554e0

diff --git a/dev-lang/R/R-3.3.1.ebuild b/dev-lang/R/R-3.3.1.ebuild
deleted file mode 100644
index 05155cdb3ca..00000000000
--- a/dev-lang/R/R-3.3.1.ebuild
+++ /dev/null
@@ -1,200 +0,0 @@
-# Copyright 1999-2016 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=5
-
-inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib versionator toolchain-funcs
-
-BCP=${PN}-20130129.bash_completion
-DESCRIPTION="Language and environment for statistical computing and graphics"
-HOMEPAGE="http://www.r-project.org/"
-SRC_URI="
-	mirror://cran/src/base/R-3/${P}.tar.gz
-	https://dev.gentoo.org/~bicatali/distfiles/${BCP}.bz2"
-
-LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
-SLOT="0"
-KEYWORDS="~amd64 ~hppa ~ia64 ~ppc ~ppc64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
-IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
-REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
-
-CDEPEND="
-	app-arch/bzip2:0=
-	app-arch/xz-utils:0=
-	app-text/ghostscript-gpl
-	>=dev-libs/libpcre-8.35:3=
-	virtual/blas:0
-	|| ( >=sys-apps/coreutils-8.15 sys-freebsd/freebsd-bin app-misc/realpath )
-	cairo? ( x11-libs/cairo:0=[X] x11-libs/pango:0= )
-	icu? ( dev-libs/icu:= )
-	jpeg? ( virtual/jpeg:0 )
-	lapack? ( virtual/lapack:0 )
-	perl? ( dev-lang/perl )
-	png? ( media-libs/libpng:0= )
-	readline? ( sys-libs/readline:0= )
-	tiff? ( media-libs/tiff:0= )
-	tk? ( dev-lang/tk:0= )
-	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
-
-DEPEND="${CDEPEND}
-	virtual/pkgconfig
-	doc? (
-		virtual/latex-base
-		dev-texlive/texlive-fontsrecommended
-	)"
-
-RDEPEND="${CDEPEND}
-	>=sys-libs/zlib-1.2.5.1-r2:0[minizip]
-	java? ( >=virtual/jre-1.5 )"
-
-RESTRICT="minimal? ( test )"
-
-pkg_setup() {
-	if use openmp; then
-		if [[ $(tc-getCC) == *gcc ]] && ! tc-has-openmp; then
-			ewarn "OpenMP is not available in your current selected gcc"
-			die "need openmp capable gcc"
-		fi
-		FORTRAN_NEED_OPENMP=1
-	fi
-	fortran-2_pkg_setup
-	filter-ldflags -Wl,-Bdirect -Bdirect
-	# avoid using existing R installation
-	unset R_HOME
-	# Temporary fix for bug #419761
-	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
-		append-flags -fno-ipa-cp-clone
-	fi
-}
-
-src_prepare() {
-	epatch \
-		"${FILESDIR}"/${PN}-2.11.1-parallel.patch \
-		"${FILESDIR}"/${PN}-2.13.1-zlib_header_fix.patch \
-		"${FILESDIR}"/${PN}-3.0.0-rmath-shared.patch
-
-	# fix packages.html for doc (gentoo bug #205103)
-	sed -i \
-		-e "s:../../../library:../../../../$(get_libdir)/R/library:g" \
-		src/library/tools/R/Rd.R || die
-
-	# fix Rscript path when installed (gentoo bug #221061)
-	sed -i \
-		-e "s:-DR_HOME='\"\$(rhome)\"':-DR_HOME='\"${EROOT%/}/usr/$(get_libdir)/${PN}\"':" \
-		src/unix/Makefile.in || die "sed unix Makefile failed"
-
-	# fix HTML links to manual (gentoo bug #273957)
-	sed -i \
-		-e 's:\.\./manual/:manual/:g' \
-		$(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
-
-	use lapack && \
-		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
-
-	if use X; then
-		export R_BROWSER="$(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 (OS X)
-	if use prefix; then
-		if [[ ${CHOST} == *-darwin* ]] ; then
-			sed -i \
-				-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/" \
-				configure.ac || die
-			# sort of "undo" 2.14.1-rmath-shared.patch
-			sed -i \
-				-e "s:-Wl,-soname=libRmath.so:-install_name ${EROOT%/}/usr/$(get_libdir)/libRmath.dylib:" \
-				src/nmath/standalone/Makefile.in || die
-		else
-			append-ldflags -Wl,-rpath="${EROOT%/}/usr/$(get_libdir)/R/lib"
-		fi
-	fi
-	AT_M4DIR=m4 eaclocal
-	eautoconf
-}
-
-src_configure() {
-	#	--with-system-tre \
-	# tre is patched from upstream
-	econf \
-		--enable-byte-compiled-packages \
-		--enable-R-shlib \
-		--disable-R-framework \
-		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
-		--docdir="${EPREFIX}/usr/share/doc/${PF}" \
-		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
-		$(use_enable java) \
-		$(use_enable nls) \
-		$(use_enable openmp) \
-		$(use_enable profile R-profiling) \
-		$(use_enable profile memory-profiling) \
-		$(use_enable static-libs static) \
-		$(use_enable static-libs R-static-lib) \
-		$(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) \
-		$(use_with tk tk-config "${EPREFIX}"/usr/lib/tkConfig.sh) \
-		$(use_with tk tcl-config "${EPREFIX}"/usr/lib/tclConfig.sh) \
-		$(use_with X x)
-}
-
-src_compile() {
-	export VARTEXFONTS="${T}/fonts"
-	emake AR="$(tc-getAR)"
-	emake -C src/nmath/standalone \
-		shared $(use static-libs && echo static) AR="$(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/${PF}/html/manual
-	fi
-
-	cat > 99R <<-EOF
-		LDPATH=${EROOT%/}/usr/$(get_libdir)/${PN}/lib
-		R_HOME=${EROOT%/}/usr/$(get_libdir)/${PN}
-	EOF
-	doenvd 99R
-	newbashcomp "${WORKDIR}"/${BCP} ${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/lib/R > /dev/null
-		for mod in $(find . -name "*.dylib") ; do
-			mod=${mod#./}
-			install_name_tool -id "${EPREFIX}/usr/lib/R/${mod}" \
-				"${mod}"
-		done
-		popd > /dev/null
-	fi
-	docompress -x /usr/share/doc/${PF}/{BioC_mirrors.csv,CRAN_mirrors.csv,KEYWORDS.db,NEWS.rds}
-}
-
-pkg_postinst() {
-	if use java; then
-		einfo "Re-initializing java paths for ${P}"
-		R CMD javareconf
-	fi
-}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2016-12-08 16:35 Denis Dupeyron
  0 siblings, 0 replies; 99+ messages in thread
From: Denis Dupeyron @ 2016-12-08 16:35 UTC (permalink / raw
  To: gentoo-commits

commit:     bda3e8cccb530a8f31303bd14a9b8cef8a58832d
Author:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
AuthorDate: Thu Dec  8 16:34:25 2016 +0000
Commit:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
CommitDate: Thu Dec  8 16:34:25 2016 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=bda3e8cc

dev-lang/R: bump to 3.3.2, thanks to Neil Shephard (bug #598834)

Package-Manager: portage-2.3.3

 dev-lang/R/Manifest       |   1 +
 dev-lang/R/R-3.3.2.ebuild | 201 ++++++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 202 insertions(+)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index 39b08f5..9ee4c15 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,3 +1,4 @@
 DIST R-20130129.bash_completion.bz2 4209 SHA256 487e969b94563fec98ec58de7e6142e9361d4219088add0fca282b482a9e01b1 SHA512 910b26e16cfebe677f438abfa5f2652e582db143d91dbf0e7d4b1ea33462c7e5c89c3a3619c63ae98bba26b11a5adb16eda9d344f8cdbe4f0feabc546993c1a5 WHIRLPOOL 2368efaed37fcb6e010f6a234864631f68549bd8e3f733561170cc5b28f5557e546d8561246fb265a481a47991a262fec3acf6abc1dc3929a9357405e0d3c6fc
 DIST R-3.2.2.tar.gz 29772864 SHA256 9c9152e74134b68b0f3a1c7083764adc1cb56fd8336bec003fd0ca550cd2461d SHA512 71ba470875262b9f00fb6970f209788df4dad30e0a28373b824b60d8bc6401afb7786e65387663c6490c7ddcd2bfd7f808a270a3e63238f3d7565d5f93607138 WHIRLPOOL fea59929ada1d67dafc6ad89409d18ad173af7990384033f490a00e0f794d9919aecf7cd37089d105fe03b9cf64d079e5d148622571cec3eb924c1c5bd00081e
 DIST R-3.3.1.tar.gz 29848329 SHA256 3dc59ae5831f5380f83c169bac2103ad052efe0ecec4ffa74bde4d85a0fda9e2 SHA512 d0ff85e99b9ec9cac672aa30d7d1a854778c6a610bcc5336e8c60c8c74f20856f2bfeae085af793fad646ff45cb4677d9d6dcbaa18212591f72f00a02339f4cd WHIRLPOOL 6e2edb60173a54c8b25d16201c24176b3ea837287e6d306c9d2e2c4578764b0d469d9c17228b6be67dda646a4272f30b331dbbc6238a6e851eb5320f04c7f151
+DIST R-3.3.2.tar.gz 29440670 SHA256 d294ad21e9f574fb4828ebb3a94b8cb34f4f304a41687a994be00dd41a4e514c SHA512 06a98687c0b180cb0bfd57440ea26088212d9f48948d503136475bf54b42d72cfec5bea7e333c0cedd60733bd614dd0f8c2eced7e24478b6c89f48e8d0c43482 WHIRLPOOL a68112df87552cc6ca8cd6b78b99dda2a22b8f4cfcd87a4512d541d25ef21358ede1ba71b4d7e9f274bf4e4340de18355a777d9af2ed41c0a498fa11d91cf0d8

diff --git a/dev-lang/R/R-3.3.2.ebuild b/dev-lang/R/R-3.3.2.ebuild
new file mode 100644
index 00000000..ceeeaf9
--- /dev/null
+++ b/dev-lang/R/R-3.3.2.ebuild
@@ -0,0 +1,201 @@
+# Copyright 1999-2016 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=5
+
+inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib versionator toolchain-funcs
+
+BCP=${PN}-20130129.bash_completion
+DESCRIPTION="Language and environment for statistical computing and graphics"
+HOMEPAGE="http://www.r-project.org/"
+SRC_URI="
+	mirror://cran/src/base/R-3/${P}.tar.gz
+	https://dev.gentoo.org/~bicatali/distfiles/${BCP}.bz2"
+
+LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
+SLOT="0"
+KEYWORDS="~amd64 ~hppa ~ia64 ~ppc ~ppc64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
+REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
+
+CDEPEND="
+	app-arch/bzip2:0=
+	app-arch/xz-utils:0=
+	app-text/ghostscript-gpl
+	>=dev-libs/libpcre-8.35:3=
+	virtual/blas:0
+	|| ( >=sys-apps/coreutils-8.15 sys-freebsd/freebsd-bin app-misc/realpath )
+	cairo? ( x11-libs/cairo:0=[X] x11-libs/pango:0= )
+	icu? ( dev-libs/icu:= )
+	jpeg? ( virtual/jpeg:0 )
+	lapack? ( virtual/lapack:0 )
+	perl? ( dev-lang/perl )
+	png? ( media-libs/libpng:0= )
+	readline? ( sys-libs/readline:0= )
+	tiff? ( media-libs/tiff:0= )
+	tk? ( dev-lang/tk:0= )
+	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
+
+DEPEND="${CDEPEND}
+	virtual/pkgconfig
+	doc? (
+		virtual/latex-base
+		dev-texlive/texlive-fontsrecommended
+	)"
+
+RDEPEND="${CDEPEND}
+	>=sys-libs/zlib-1.2.5.1-r2:0[minizip]
+	java? ( >=virtual/jre-1.5 )"
+
+RESTRICT="minimal? ( test )"
+
+pkg_setup() {
+	if use openmp; then
+		if [[ $(tc-getCC) == *gcc ]] && ! tc-has-openmp; then
+			ewarn "OpenMP is not available in your current selected gcc"
+			die "need openmp capable gcc"
+		fi
+		FORTRAN_NEED_OPENMP=1
+	fi
+	fortran-2_pkg_setup
+	filter-ldflags -Wl,-Bdirect -Bdirect
+	# avoid using existing R installation
+	unset R_HOME
+	# Temporary fix for bug #419761
+	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
+		append-flags -fno-ipa-cp-clone
+	fi
+}
+
+src_prepare() {
+	epatch \
+		"${FILESDIR}"/${PN}-2.11.1-parallel.patch \
+		"${FILESDIR}"/${PN}-2.13.1-zlib_header_fix.patch \
+		"${FILESDIR}"/${PN}-3.0.0-rmath-shared.patch
+
+	# fix packages.html for doc (gentoo bug #205103)
+	sed -i \
+		-e "s:../../../library:../../../../$(get_libdir)/R/library:g" \
+		src/library/tools/R/Rd.R || die
+
+	# fix Rscript path when installed (gentoo bug #221061)
+	sed -i \
+		-e "s:-DR_HOME='\"\$(rhome)\"':-DR_HOME='\"${EROOT%/}/usr/$(get_libdir)/${PN}\"':" \
+		src/unix/Makefile.in || die "sed unix Makefile failed"
+
+	# fix HTML links to manual (gentoo bug #273957)
+	sed -i \
+		-e 's:\.\./manual/:manual/:g' \
+		$(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
+
+	use lapack && \
+		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+	if use X; then
+		export R_BROWSER="$(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 (OS X)
+	if use prefix; then
+		if [[ ${CHOST} == *-darwin* ]] ; then
+			sed -i \
+				-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/" \
+				configure.ac || die
+			# sort of "undo" 2.14.1-rmath-shared.patch
+			sed -i \
+				-e "s:-Wl,-soname=libRmath.so:-install_name ${EROOT%/}/usr/$(get_libdir)/libRmath.dylib:" \
+				src/nmath/standalone/Makefile.in || die
+		else
+			append-ldflags -Wl,-rpath="${EROOT%/}/usr/$(get_libdir)/R/lib"
+		fi
+	fi
+	AT_M4DIR=m4 eaclocal
+	eautoconf
+}
+
+src_configure() {
+	#	--with-system-tre \
+	# tre is patched from upstream
+	econf \
+		--enable-byte-compiled-packages \
+		--enable-R-shlib \
+		--disable-R-framework \
+		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
+		--docdir="${EPREFIX}/usr/share/doc/${PF}" \
+		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
+		$(use_enable java) \
+		$(use_enable nls) \
+		$(use_enable openmp) \
+		$(use_enable profile R-profiling) \
+		$(use_enable profile memory-profiling) \
+		$(use_enable static-libs static) \
+		$(use_enable static-libs R-static-lib) \
+		$(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) \
+		$(use_with tk tk-config "${EPREFIX}"/usr/lib/tkConfig.sh) \
+		$(use_with tk tcl-config "${EPREFIX}"/usr/lib/tclConfig.sh) \
+		$(use_with X x)
+}
+
+src_compile() {
+	export VARTEXFONTS="${T}/fonts"
+	emake AR="$(tc-getAR)"
+	emake -C src/nmath/standalone \
+		shared $(use static-libs && echo static) AR="$(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/${PF}/html/manual
+	fi
+
+	cat > 99R <<-EOF
+		LDPATH=${EROOT%/}/usr/$(get_libdir)/${PN}/lib
+		R_HOME=${EROOT%/}/usr/$(get_libdir)/${PN}
+	EOF
+	doenvd 99R
+	newbashcomp "${WORKDIR}"/${BCP} ${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/lib/R > /dev/null
+		for mod in $(find . -name "*.dylib") ; do
+			mod=${mod#./}
+			install_name_tool -id "${EPREFIX}/usr/lib/R/${mod}" \
+				"${mod}"
+		done
+		popd > /dev/null
+	fi
+	docompress -x /usr/share/doc/${PF}/{BioC_mirrors.csv,CRAN_mirrors.csv,KEYWORDS.db,NEWS.rds}
+}
+
+pkg_postinst() {
+	if use java; then
+		einfo "Re-initializing java paths for ${P}"
+		R CMD javareconf
+	fi
+}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2016-09-12 20:24 Denis Dupeyron
  0 siblings, 0 replies; 99+ messages in thread
From: Denis Dupeyron @ 2016-09-12 20:24 UTC (permalink / raw
  To: gentoo-commits

commit:     5810a1457dce4349179f2169a4e2bf22a8a7a3ad
Author:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
AuthorDate: Mon Sep 12 20:23:17 2016 +0000
Commit:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
CommitDate: Mon Sep 12 20:23:49 2016 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=5810a145

dev-lang/R: fix manifest

 dev-lang/R/Manifest | 2 --
 1 file changed, 2 deletions(-)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index 4ee64de..39b08f5 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,5 +1,3 @@
 DIST R-20130129.bash_completion.bz2 4209 SHA256 487e969b94563fec98ec58de7e6142e9361d4219088add0fca282b482a9e01b1 SHA512 910b26e16cfebe677f438abfa5f2652e582db143d91dbf0e7d4b1ea33462c7e5c89c3a3619c63ae98bba26b11a5adb16eda9d344f8cdbe4f0feabc546993c1a5 WHIRLPOOL 2368efaed37fcb6e010f6a234864631f68549bd8e3f733561170cc5b28f5557e546d8561246fb265a481a47991a262fec3acf6abc1dc3929a9357405e0d3c6fc
 DIST R-3.2.2.tar.gz 29772864 SHA256 9c9152e74134b68b0f3a1c7083764adc1cb56fd8336bec003fd0ca550cd2461d SHA512 71ba470875262b9f00fb6970f209788df4dad30e0a28373b824b60d8bc6401afb7786e65387663c6490c7ddcd2bfd7f808a270a3e63238f3d7565d5f93607138 WHIRLPOOL fea59929ada1d67dafc6ad89409d18ad173af7990384033f490a00e0f794d9919aecf7cd37089d105fe03b9cf64d079e5d148622571cec3eb924c1c5bd00081e
-DIST R-3.2.5.tar.gz 29876312 SHA256 60745672dce5ddc201806fa59f6d4e0ba6554d8ed78d0f9f0d79a629978f80b5 SHA512 aff7efa84188dfdd486d48095fadb9fbe1ab5897f9f924b9956d21d955d7cba9e50c1d21af6cca8327af8d1465b10761526a3a3be357c08a536831e7f5fc290b WHIRLPOOL 48b232bac4df9d562253fac3527c5786a6b45b3adeb5e91ad586549254ae1a2b53f0d39bc746cfd6d86094201f9d8e29617a9678780c7c58365f484f679fc7e0
-DIST R-3.3.0.tar.gz 29820067 SHA256 9256b154b1a5993d844bee7b1955cd49c99ad72cef03cce3cd1bdca1310311e4 SHA512 81e9ef761bee4d9322ca785fbed843ab13c2f5b55be769d982a81a7e7694e03980cbc7ee067fc850bd7a17ab65d93be81f27db50d428665773174c690383d4cc WHIRLPOOL bbc694374c778d0bb6e8e6ed6b5ef7b2e5c3dca19507ce58f3a544019f9b4aaf55ebbd4759ac0b880c571ca66826bfd8e88f71d164fd07be13c2797930daab07
 DIST R-3.3.1.tar.gz 29848329 SHA256 3dc59ae5831f5380f83c169bac2103ad052efe0ecec4ffa74bde4d85a0fda9e2 SHA512 d0ff85e99b9ec9cac672aa30d7d1a854778c6a610bcc5336e8c60c8c74f20856f2bfeae085af793fad646ff45cb4677d9d6dcbaa18212591f72f00a02339f4cd WHIRLPOOL 6e2edb60173a54c8b25d16201c24176b3ea837287e6d306c9d2e2c4578764b0d469d9c17228b6be67dda646a4272f30b331dbbc6238a6e851eb5320f04c7f151


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2016-09-12 19:47 Denis Dupeyron
  0 siblings, 0 replies; 99+ messages in thread
From: Denis Dupeyron @ 2016-09-12 19:47 UTC (permalink / raw
  To: gentoo-commits

commit:     8b1e2a2a81492a97874b0b86f301aeda2af1df66
Author:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
AuthorDate: Mon Sep 12 19:46:49 2016 +0000
Commit:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
CommitDate: Mon Sep 12 19:46:49 2016 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=8b1e2a2a

dev-lang/R: remove 3.2.5 and 3.3.0

 dev-lang/R/R-3.2.5.ebuild | 206 ----------------------------------------------
 dev-lang/R/R-3.3.0.ebuild | 203 ---------------------------------------------
 2 files changed, 409 deletions(-)

diff --git a/dev-lang/R/R-3.2.5.ebuild b/dev-lang/R/R-3.2.5.ebuild
deleted file mode 100644
index c8227c9..00000000
--- a/dev-lang/R/R-3.2.5.ebuild
+++ /dev/null
@@ -1,206 +0,0 @@
-# Copyright 1999-2016 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Id$
-
-EAPI=5
-
-inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib versionator toolchain-funcs
-
-BCP=${PN}-20130129.bash_completion
-DESCRIPTION="Language and environment for statistical computing and graphics"
-HOMEPAGE="http://www.r-project.org/"
-SRC_URI="
-	mirror://cran/src/base/R-3/${P}.tar.gz
-	https://dev.gentoo.org/~bicatali/distfiles/${BCP}.bz2"
-
-LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
-SLOT="0"
-KEYWORDS="~amd64 ~hppa ~ia64 ~ppc ~ppc64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
-IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
-REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
-
-CDEPEND="
-	app-arch/bzip2:0=
-	app-arch/xz-utils:0=
-	app-text/ghostscript-gpl
-	>=dev-libs/libpcre-8.35:3=
-	virtual/blas:0
-	|| ( >=sys-apps/coreutils-8.15 sys-freebsd/freebsd-bin app-misc/realpath )
-	cairo? ( x11-libs/cairo:0=[X] x11-libs/pango:0= )
-	icu? ( dev-libs/icu:= )
-	jpeg? ( virtual/jpeg:0 )
-	lapack? ( virtual/lapack:0 )
-	perl? ( dev-lang/perl )
-	png? ( media-libs/libpng:0= )
-	readline? ( sys-libs/readline:0= )
-	tiff? ( media-libs/tiff:0= )
-	tk? ( dev-lang/tk:0= )
-	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
-
-DEPEND="${CDEPEND}
-	virtual/pkgconfig
-	doc? (
-		virtual/latex-base
-		dev-texlive/texlive-fontsrecommended
-	)"
-
-RDEPEND="${CDEPEND}
-	>=sys-libs/zlib-1.2.5.1-r2:0[minizip]
-	java? ( >=virtual/jre-1.5 )"
-
-RESTRICT="minimal? ( test )"
-
-R_DIR="${EROOT%/}/usr/$(get_libdir)/${PN}"
-
-pkg_setup() {
-	if use openmp; then
-		if [[ $(tc-getCC) == *gcc ]] && ! tc-has-openmp; then
-			ewarn "OpenMP is not available in your current selected gcc"
-			die "need openmp capable gcc"
-		fi
-		FORTRAN_NEED_OPENMP=1
-	fi
-	fortran-2_pkg_setup
-	filter-ldflags -Wl,-Bdirect -Bdirect
-	# avoid using existing R installation
-	unset R_HOME
-	# Temporary fix for bug #419761
-	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
-		append-flags -fno-ipa-cp-clone
-	fi
-}
-
-src_prepare() {
-	epatch \
-		"${FILESDIR}"/${PN}-2.11.1-parallel.patch \
-		"${FILESDIR}"/${PN}-2.13.1-zlib_header_fix.patch \
-		"${FILESDIR}"/${PN}-3.0.0-rmath-shared.patch
-
-	# fix packages.html for doc (gentoo bug #205103)
-	sed -i \
-		-e "s:../../../library:../../../../$(get_libdir)/R/library:g" \
-		src/library/tools/R/Rd.R || die
-
-	# fix Rscript path when installed (gentoo bug #221061)
-	sed -i \
-		-e "s:-DR_HOME='\"\$(rhome)\"':-DR_HOME='\"${R_DIR}\"':" \
-		src/unix/Makefile.in || die "sed unix Makefile failed"
-
-	# fix HTML links to manual (gentoo bug #273957)
-	sed -i \
-		-e 's:\.\./manual/:manual/:g' \
-		$(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
-
-	use lapack && \
-		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
-
-	if use X; then
-		export R_BROWSER="$(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 (OS X)
-	if use prefix; then
-		if [[ ${CHOST} == *-darwin* ]] ; then
-			sed -i \
-				-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/" \
-				configure.ac || die
-			# sort of "undo" 2.14.1-rmath-shared.patch
-			sed -i \
-				-e "s:-Wl,-soname=libRmath.so:-install_name ${EROOT%/}/usr/$(get_libdir)/libRmath.dylib:" \
-				src/nmath/standalone/Makefile.in || die
-		else
-			append-ldflags -Wl,-rpath="${EROOT%/}/usr/$(get_libdir)/R/lib"
-		fi
-	fi
-	AT_M4DIR=m4 eaclocal
-	eautoconf
-}
-
-src_configure() {
-	#	--with-system-tre \
-	# tre is patched from upstream
-	econf \
-		--enable-byte-compiled-packages \
-		--enable-R-shlib \
-		--disable-R-framework \
-		--with-system-zlib \
-		--with-system-bzlib \
-		--with-system-pcre \
-		--with-system-xz \
-		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
-		--docdir="${EPREFIX}/usr/share/doc/${PF}" \
-		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
-		$(use_enable nls) \
-		$(use_enable openmp) \
-		$(use_enable profile R-profiling) \
-		$(use_enable profile memory-profiling) \
-		$(use_enable static-libs static) \
-		$(use_enable static-libs R-static-lib) \
-		$(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) \
-		$(use_with tk tk-config "${EPREFIX}"/usr/lib/tkConfig.sh) \
-		$(use_with tk tcl-config "${EPREFIX}"/usr/lib/tclConfig.sh) \
-		$(use_with X x)
-}
-
-src_compile() {
-	export VARTEXFONTS="${T}/fonts"
-	emake AR="$(tc-getAR)"
-	emake -C src/nmath/standalone \
-		shared $(use static-libs && echo static) AR="$(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/${PF}/html/manual
-	fi
-
-	cat > 99R <<-EOF
-		LDPATH=${R_DIR}/lib
-		R_HOME=${R_DIR}
-	EOF
-	doenvd 99R
-	newbashcomp "${WORKDIR}"/${BCP} ${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/lib/R > /dev/null
-		for mod in $(find . -name "*.dylib") ; do
-			mod=${mod#./}
-			install_name_tool -id "${EPREFIX}/usr/lib/R/${mod}" \
-				"${mod}"
-		done
-		popd > /dev/null
-	fi
-	docompress -x /usr/share/doc/${PF}/NEWS.rds
-}
-
-pkg_postinst() {
-	if use java; then
-		einfo "Re-initializing java paths for ${P}"
-		R CMD javareconf
-	fi
-}

diff --git a/dev-lang/R/R-3.3.0.ebuild b/dev-lang/R/R-3.3.0.ebuild
deleted file mode 100644
index c7a578a..00000000
--- a/dev-lang/R/R-3.3.0.ebuild
+++ /dev/null
@@ -1,203 +0,0 @@
-# Copyright 1999-2016 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Id$
-
-EAPI=5
-
-inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib versionator toolchain-funcs
-
-BCP=${PN}-20130129.bash_completion
-DESCRIPTION="Language and environment for statistical computing and graphics"
-HOMEPAGE="http://www.r-project.org/"
-SRC_URI="
-	mirror://cran/src/base/R-3/${P}.tar.gz
-	https://dev.gentoo.org/~bicatali/distfiles/${BCP}.bz2"
-
-LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
-SLOT="0"
-KEYWORDS="~amd64 ~hppa ~ia64 ~ppc ~ppc64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
-IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
-REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
-
-CDEPEND="
-	app-arch/bzip2:0=
-	app-arch/xz-utils:0=
-	app-text/ghostscript-gpl
-	>=dev-libs/libpcre-8.35:3=
-	virtual/blas:0
-	|| ( >=sys-apps/coreutils-8.15 sys-freebsd/freebsd-bin app-misc/realpath )
-	cairo? ( x11-libs/cairo:0=[X] x11-libs/pango:0= )
-	icu? ( dev-libs/icu:= )
-	jpeg? ( virtual/jpeg:0 )
-	lapack? ( virtual/lapack:0 )
-	perl? ( dev-lang/perl )
-	png? ( media-libs/libpng:0= )
-	readline? ( sys-libs/readline:0= )
-	tiff? ( media-libs/tiff:0= )
-	tk? ( dev-lang/tk:0= )
-	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
-
-DEPEND="${CDEPEND}
-	virtual/pkgconfig
-	doc? (
-		virtual/latex-base
-		dev-texlive/texlive-fontsrecommended
-	)"
-
-RDEPEND="${CDEPEND}
-	>=sys-libs/zlib-1.2.5.1-r2:0[minizip]
-	java? ( >=virtual/jre-1.5 )"
-
-RESTRICT="minimal? ( test )"
-
-R_DIR="${EROOT%/}/usr/$(get_libdir)/${PN}"
-
-pkg_setup() {
-	if use openmp; then
-		if [[ $(tc-getCC) == *gcc ]] && ! tc-has-openmp; then
-			ewarn "OpenMP is not available in your current selected gcc"
-			die "need openmp capable gcc"
-		fi
-		FORTRAN_NEED_OPENMP=1
-	fi
-	fortran-2_pkg_setup
-	filter-ldflags -Wl,-Bdirect -Bdirect
-	# avoid using existing R installation
-	unset R_HOME
-	# Temporary fix for bug #419761
-	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
-		append-flags -fno-ipa-cp-clone
-	fi
-}
-
-src_prepare() {
-	epatch \
-		"${FILESDIR}"/${PN}-2.11.1-parallel.patch \
-		"${FILESDIR}"/${PN}-2.13.1-zlib_header_fix.patch \
-		"${FILESDIR}"/${PN}-3.0.0-rmath-shared.patch
-
-	# fix packages.html for doc (gentoo bug #205103)
-	sed -i \
-		-e "s:../../../library:../../../../$(get_libdir)/R/library:g" \
-		src/library/tools/R/Rd.R || die
-
-	# fix Rscript path when installed (gentoo bug #221061)
-	sed -i \
-		-e "s:-DR_HOME='\"\$(rhome)\"':-DR_HOME='\"${R_DIR}\"':" \
-		src/unix/Makefile.in || die "sed unix Makefile failed"
-
-	# fix HTML links to manual (gentoo bug #273957)
-	sed -i \
-		-e 's:\.\./manual/:manual/:g' \
-		$(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
-
-	use lapack && \
-		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
-
-	if use X; then
-		export R_BROWSER="$(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 (OS X)
-	if use prefix; then
-		if [[ ${CHOST} == *-darwin* ]] ; then
-			sed -i \
-				-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/" \
-				configure.ac || die
-			# sort of "undo" 2.14.1-rmath-shared.patch
-			sed -i \
-				-e "s:-Wl,-soname=libRmath.so:-install_name ${EROOT%/}/usr/$(get_libdir)/libRmath.dylib:" \
-				src/nmath/standalone/Makefile.in || die
-		else
-			append-ldflags -Wl,-rpath="${EROOT%/}/usr/$(get_libdir)/R/lib"
-		fi
-	fi
-	AT_M4DIR=m4 eaclocal
-	eautoconf
-}
-
-src_configure() {
-	#	--with-system-tre \
-	# tre is patched from upstream
-	econf \
-		--enable-byte-compiled-packages \
-		--enable-R-shlib \
-		--disable-R-framework \
-		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
-		--docdir="${EPREFIX}/usr/share/doc/${PF}" \
-		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
-		$(use_enable java) \
-		$(use_enable nls) \
-		$(use_enable openmp) \
-		$(use_enable profile R-profiling) \
-		$(use_enable profile memory-profiling) \
-		$(use_enable static-libs static) \
-		$(use_enable static-libs R-static-lib) \
-		$(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) \
-		$(use_with tk tk-config "${EPREFIX}"/usr/lib/tkConfig.sh) \
-		$(use_with tk tcl-config "${EPREFIX}"/usr/lib/tclConfig.sh) \
-		$(use_with X x)
-}
-
-src_compile() {
-	export VARTEXFONTS="${T}/fonts"
-	emake AR="$(tc-getAR)"
-	emake -C src/nmath/standalone \
-		shared $(use static-libs && echo static) AR="$(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/${PF}/html/manual
-	fi
-
-	cat > 99R <<-EOF
-		LDPATH=${R_DIR}/lib
-		R_HOME=${R_DIR}
-	EOF
-	doenvd 99R
-	newbashcomp "${WORKDIR}"/${BCP} ${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/lib/R > /dev/null
-		for mod in $(find . -name "*.dylib") ; do
-			mod=${mod#./}
-			install_name_tool -id "${EPREFIX}/usr/lib/R/${mod}" \
-				"${mod}"
-		done
-		popd > /dev/null
-	fi
-	docompress -x /usr/share/doc/${PF}/{BioC_mirrors.csv,CRAN_mirrors.csv,KEYWORDS.db,NEWS.rds}
-}
-
-pkg_postinst() {
-	if use java; then
-		einfo "Re-initializing java paths for ${P}"
-		R CMD javareconf
-	fi
-}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2016-09-12 19:38 Denis Dupeyron
  0 siblings, 0 replies; 99+ messages in thread
From: Denis Dupeyron @ 2016-09-12 19:38 UTC (permalink / raw
  To: gentoo-commits

commit:     49f4aa6a4b60cfd02acd8ac85aa239a38434d560
Author:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
AuthorDate: Mon Sep 12 19:37:22 2016 +0000
Commit:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
CommitDate: Mon Sep 12 19:37:22 2016 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=49f4aa6a

dev-lang/R: 593420

 dev-lang/R/R-3.3.1.ebuild | 8 +++-----
 1 file changed, 3 insertions(+), 5 deletions(-)

diff --git a/dev-lang/R/R-3.3.1.ebuild b/dev-lang/R/R-3.3.1.ebuild
index c7a578a..ceeeaf9 100644
--- a/dev-lang/R/R-3.3.1.ebuild
+++ b/dev-lang/R/R-3.3.1.ebuild
@@ -50,8 +50,6 @@ RDEPEND="${CDEPEND}
 
 RESTRICT="minimal? ( test )"
 
-R_DIR="${EROOT%/}/usr/$(get_libdir)/${PN}"
-
 pkg_setup() {
 	if use openmp; then
 		if [[ $(tc-getCC) == *gcc ]] && ! tc-has-openmp; then
@@ -83,7 +81,7 @@ src_prepare() {
 
 	# fix Rscript path when installed (gentoo bug #221061)
 	sed -i \
-		-e "s:-DR_HOME='\"\$(rhome)\"':-DR_HOME='\"${R_DIR}\"':" \
+		-e "s:-DR_HOME='\"\$(rhome)\"':-DR_HOME='\"${EROOT%/}/usr/$(get_libdir)/${PN}\"':" \
 		src/unix/Makefile.in || die "sed unix Makefile failed"
 
 	# fix HTML links to manual (gentoo bug #273957)
@@ -173,8 +171,8 @@ src_install() {
 	fi
 
 	cat > 99R <<-EOF
-		LDPATH=${R_DIR}/lib
-		R_HOME=${R_DIR}
+		LDPATH=${EROOT%/}/usr/$(get_libdir)/${PN}/lib
+		R_HOME=${EROOT%/}/usr/$(get_libdir)/${PN}
 	EOF
 	doenvd 99R
 	newbashcomp "${WORKDIR}"/${BCP} ${PN}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2016-06-24  2:58 Denis Dupeyron
  0 siblings, 0 replies; 99+ messages in thread
From: Denis Dupeyron @ 2016-06-24  2:58 UTC (permalink / raw
  To: gentoo-commits

commit:     8344d8b7fc5587c14d4446d9afdd9296ca44f82d
Author:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
AuthorDate: Fri Jun 24 02:57:42 2016 +0000
Commit:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
CommitDate: Fri Jun 24 02:57:42 2016 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=8344d8b7

dev-lang/R: bump to 3.3.1

 dev-lang/R/Manifest       |   1 +
 dev-lang/R/R-3.3.1.ebuild | 203 ++++++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 204 insertions(+)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index 46a4673..4ee64de 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -2,3 +2,4 @@ DIST R-20130129.bash_completion.bz2 4209 SHA256 487e969b94563fec98ec58de7e6142e9
 DIST R-3.2.2.tar.gz 29772864 SHA256 9c9152e74134b68b0f3a1c7083764adc1cb56fd8336bec003fd0ca550cd2461d SHA512 71ba470875262b9f00fb6970f209788df4dad30e0a28373b824b60d8bc6401afb7786e65387663c6490c7ddcd2bfd7f808a270a3e63238f3d7565d5f93607138 WHIRLPOOL fea59929ada1d67dafc6ad89409d18ad173af7990384033f490a00e0f794d9919aecf7cd37089d105fe03b9cf64d079e5d148622571cec3eb924c1c5bd00081e
 DIST R-3.2.5.tar.gz 29876312 SHA256 60745672dce5ddc201806fa59f6d4e0ba6554d8ed78d0f9f0d79a629978f80b5 SHA512 aff7efa84188dfdd486d48095fadb9fbe1ab5897f9f924b9956d21d955d7cba9e50c1d21af6cca8327af8d1465b10761526a3a3be357c08a536831e7f5fc290b WHIRLPOOL 48b232bac4df9d562253fac3527c5786a6b45b3adeb5e91ad586549254ae1a2b53f0d39bc746cfd6d86094201f9d8e29617a9678780c7c58365f484f679fc7e0
 DIST R-3.3.0.tar.gz 29820067 SHA256 9256b154b1a5993d844bee7b1955cd49c99ad72cef03cce3cd1bdca1310311e4 SHA512 81e9ef761bee4d9322ca785fbed843ab13c2f5b55be769d982a81a7e7694e03980cbc7ee067fc850bd7a17ab65d93be81f27db50d428665773174c690383d4cc WHIRLPOOL bbc694374c778d0bb6e8e6ed6b5ef7b2e5c3dca19507ce58f3a544019f9b4aaf55ebbd4759ac0b880c571ca66826bfd8e88f71d164fd07be13c2797930daab07
+DIST R-3.3.1.tar.gz 29848329 SHA256 3dc59ae5831f5380f83c169bac2103ad052efe0ecec4ffa74bde4d85a0fda9e2 SHA512 d0ff85e99b9ec9cac672aa30d7d1a854778c6a610bcc5336e8c60c8c74f20856f2bfeae085af793fad646ff45cb4677d9d6dcbaa18212591f72f00a02339f4cd WHIRLPOOL 6e2edb60173a54c8b25d16201c24176b3ea837287e6d306c9d2e2c4578764b0d469d9c17228b6be67dda646a4272f30b331dbbc6238a6e851eb5320f04c7f151

diff --git a/dev-lang/R/R-3.3.1.ebuild b/dev-lang/R/R-3.3.1.ebuild
new file mode 100644
index 0000000..c7a578a
--- /dev/null
+++ b/dev-lang/R/R-3.3.1.ebuild
@@ -0,0 +1,203 @@
+# Copyright 1999-2016 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=5
+
+inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib versionator toolchain-funcs
+
+BCP=${PN}-20130129.bash_completion
+DESCRIPTION="Language and environment for statistical computing and graphics"
+HOMEPAGE="http://www.r-project.org/"
+SRC_URI="
+	mirror://cran/src/base/R-3/${P}.tar.gz
+	https://dev.gentoo.org/~bicatali/distfiles/${BCP}.bz2"
+
+LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
+SLOT="0"
+KEYWORDS="~amd64 ~hppa ~ia64 ~ppc ~ppc64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
+REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
+
+CDEPEND="
+	app-arch/bzip2:0=
+	app-arch/xz-utils:0=
+	app-text/ghostscript-gpl
+	>=dev-libs/libpcre-8.35:3=
+	virtual/blas:0
+	|| ( >=sys-apps/coreutils-8.15 sys-freebsd/freebsd-bin app-misc/realpath )
+	cairo? ( x11-libs/cairo:0=[X] x11-libs/pango:0= )
+	icu? ( dev-libs/icu:= )
+	jpeg? ( virtual/jpeg:0 )
+	lapack? ( virtual/lapack:0 )
+	perl? ( dev-lang/perl )
+	png? ( media-libs/libpng:0= )
+	readline? ( sys-libs/readline:0= )
+	tiff? ( media-libs/tiff:0= )
+	tk? ( dev-lang/tk:0= )
+	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
+
+DEPEND="${CDEPEND}
+	virtual/pkgconfig
+	doc? (
+		virtual/latex-base
+		dev-texlive/texlive-fontsrecommended
+	)"
+
+RDEPEND="${CDEPEND}
+	>=sys-libs/zlib-1.2.5.1-r2:0[minizip]
+	java? ( >=virtual/jre-1.5 )"
+
+RESTRICT="minimal? ( test )"
+
+R_DIR="${EROOT%/}/usr/$(get_libdir)/${PN}"
+
+pkg_setup() {
+	if use openmp; then
+		if [[ $(tc-getCC) == *gcc ]] && ! tc-has-openmp; then
+			ewarn "OpenMP is not available in your current selected gcc"
+			die "need openmp capable gcc"
+		fi
+		FORTRAN_NEED_OPENMP=1
+	fi
+	fortran-2_pkg_setup
+	filter-ldflags -Wl,-Bdirect -Bdirect
+	# avoid using existing R installation
+	unset R_HOME
+	# Temporary fix for bug #419761
+	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
+		append-flags -fno-ipa-cp-clone
+	fi
+}
+
+src_prepare() {
+	epatch \
+		"${FILESDIR}"/${PN}-2.11.1-parallel.patch \
+		"${FILESDIR}"/${PN}-2.13.1-zlib_header_fix.patch \
+		"${FILESDIR}"/${PN}-3.0.0-rmath-shared.patch
+
+	# fix packages.html for doc (gentoo bug #205103)
+	sed -i \
+		-e "s:../../../library:../../../../$(get_libdir)/R/library:g" \
+		src/library/tools/R/Rd.R || die
+
+	# fix Rscript path when installed (gentoo bug #221061)
+	sed -i \
+		-e "s:-DR_HOME='\"\$(rhome)\"':-DR_HOME='\"${R_DIR}\"':" \
+		src/unix/Makefile.in || die "sed unix Makefile failed"
+
+	# fix HTML links to manual (gentoo bug #273957)
+	sed -i \
+		-e 's:\.\./manual/:manual/:g' \
+		$(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
+
+	use lapack && \
+		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+	if use X; then
+		export R_BROWSER="$(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 (OS X)
+	if use prefix; then
+		if [[ ${CHOST} == *-darwin* ]] ; then
+			sed -i \
+				-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/" \
+				configure.ac || die
+			# sort of "undo" 2.14.1-rmath-shared.patch
+			sed -i \
+				-e "s:-Wl,-soname=libRmath.so:-install_name ${EROOT%/}/usr/$(get_libdir)/libRmath.dylib:" \
+				src/nmath/standalone/Makefile.in || die
+		else
+			append-ldflags -Wl,-rpath="${EROOT%/}/usr/$(get_libdir)/R/lib"
+		fi
+	fi
+	AT_M4DIR=m4 eaclocal
+	eautoconf
+}
+
+src_configure() {
+	#	--with-system-tre \
+	# tre is patched from upstream
+	econf \
+		--enable-byte-compiled-packages \
+		--enable-R-shlib \
+		--disable-R-framework \
+		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
+		--docdir="${EPREFIX}/usr/share/doc/${PF}" \
+		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
+		$(use_enable java) \
+		$(use_enable nls) \
+		$(use_enable openmp) \
+		$(use_enable profile R-profiling) \
+		$(use_enable profile memory-profiling) \
+		$(use_enable static-libs static) \
+		$(use_enable static-libs R-static-lib) \
+		$(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) \
+		$(use_with tk tk-config "${EPREFIX}"/usr/lib/tkConfig.sh) \
+		$(use_with tk tcl-config "${EPREFIX}"/usr/lib/tclConfig.sh) \
+		$(use_with X x)
+}
+
+src_compile() {
+	export VARTEXFONTS="${T}/fonts"
+	emake AR="$(tc-getAR)"
+	emake -C src/nmath/standalone \
+		shared $(use static-libs && echo static) AR="$(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/${PF}/html/manual
+	fi
+
+	cat > 99R <<-EOF
+		LDPATH=${R_DIR}/lib
+		R_HOME=${R_DIR}
+	EOF
+	doenvd 99R
+	newbashcomp "${WORKDIR}"/${BCP} ${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/lib/R > /dev/null
+		for mod in $(find . -name "*.dylib") ; do
+			mod=${mod#./}
+			install_name_tool -id "${EPREFIX}/usr/lib/R/${mod}" \
+				"${mod}"
+		done
+		popd > /dev/null
+	fi
+	docompress -x /usr/share/doc/${PF}/{BioC_mirrors.csv,CRAN_mirrors.csv,KEYWORDS.db,NEWS.rds}
+}
+
+pkg_postinst() {
+	if use java; then
+		einfo "Re-initializing java paths for ${P}"
+		R CMD javareconf
+	fi
+}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2016-05-08 16:08 Denis Dupeyron
  0 siblings, 0 replies; 99+ messages in thread
From: Denis Dupeyron @ 2016-05-08 16:08 UTC (permalink / raw
  To: gentoo-commits

commit:     f3695a1babd2e020051752a94af11afee59a3b59
Author:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
AuthorDate: Sun May  8 16:07:11 2016 +0000
Commit:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
CommitDate: Sun May  8 16:08:05 2016 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=f3695a1b

dev-lang/R: bump to 3.3.0, fix bug #567488

 dev-lang/R/Manifest       |   3 +-
 dev-lang/R/R-3.3.0.ebuild | 203 ++++++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 204 insertions(+), 2 deletions(-)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index 78ef083..46a4673 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,5 +1,4 @@
 DIST R-20130129.bash_completion.bz2 4209 SHA256 487e969b94563fec98ec58de7e6142e9361d4219088add0fca282b482a9e01b1 SHA512 910b26e16cfebe677f438abfa5f2652e582db143d91dbf0e7d4b1ea33462c7e5c89c3a3619c63ae98bba26b11a5adb16eda9d344f8cdbe4f0feabc546993c1a5 WHIRLPOOL 2368efaed37fcb6e010f6a234864631f68549bd8e3f733561170cc5b28f5557e546d8561246fb265a481a47991a262fec3acf6abc1dc3929a9357405e0d3c6fc
 DIST R-3.2.2.tar.gz 29772864 SHA256 9c9152e74134b68b0f3a1c7083764adc1cb56fd8336bec003fd0ca550cd2461d SHA512 71ba470875262b9f00fb6970f209788df4dad30e0a28373b824b60d8bc6401afb7786e65387663c6490c7ddcd2bfd7f808a270a3e63238f3d7565d5f93607138 WHIRLPOOL fea59929ada1d67dafc6ad89409d18ad173af7990384033f490a00e0f794d9919aecf7cd37089d105fe03b9cf64d079e5d148622571cec3eb924c1c5bd00081e
-DIST R-3.2.3.tar.gz 29816176 SHA256 b93b7d878138279234160f007cb9b7f81b8a72c012a15566e9ec5395cfd9b6c1 SHA512 9d7294af860204f4d84e25eb503111c9607beedbc42f01de073c915945a6342c3e24e25a9cc038a2e58442036bee931975d93dc327081ed02afe5ffa365170ea WHIRLPOOL 31ecbaa5c4340e02551eefe17f7f2e9ae075778e7b568a2c477b9f31f1b9598380edb8cb53c713df6643d2cba62ea97c6f225490ade2fc8a9e2b4d88426c7883
-DIST R-3.2.4.tar.gz 29879523 SHA256 bafd405fe9c2fe3bbe47a8a7730ad120f03b7df9fb0f61674fca19cf061dd350 SHA512 a74f01a9b47437feb81520c10936a6f2bc7700900730ec87b7f1442ee90bcf1d7aac9ef3345aa046c0566f1920f114da0a616c5f355b1e8480dc01e311476cbf WHIRLPOOL 0277c372baaf6c50c403c03b8fef04e80e8690efad875c26a03283a4f4d32e53610091695922a57a2f8bee4ac1a568b36f1fbf929bf61d11298b81907a3aaac6
 DIST R-3.2.5.tar.gz 29876312 SHA256 60745672dce5ddc201806fa59f6d4e0ba6554d8ed78d0f9f0d79a629978f80b5 SHA512 aff7efa84188dfdd486d48095fadb9fbe1ab5897f9f924b9956d21d955d7cba9e50c1d21af6cca8327af8d1465b10761526a3a3be357c08a536831e7f5fc290b WHIRLPOOL 48b232bac4df9d562253fac3527c5786a6b45b3adeb5e91ad586549254ae1a2b53f0d39bc746cfd6d86094201f9d8e29617a9678780c7c58365f484f679fc7e0
+DIST R-3.3.0.tar.gz 29820067 SHA256 9256b154b1a5993d844bee7b1955cd49c99ad72cef03cce3cd1bdca1310311e4 SHA512 81e9ef761bee4d9322ca785fbed843ab13c2f5b55be769d982a81a7e7694e03980cbc7ee067fc850bd7a17ab65d93be81f27db50d428665773174c690383d4cc WHIRLPOOL bbc694374c778d0bb6e8e6ed6b5ef7b2e5c3dca19507ce58f3a544019f9b4aaf55ebbd4759ac0b880c571ca66826bfd8e88f71d164fd07be13c2797930daab07

diff --git a/dev-lang/R/R-3.3.0.ebuild b/dev-lang/R/R-3.3.0.ebuild
new file mode 100644
index 0000000..c7a578a
--- /dev/null
+++ b/dev-lang/R/R-3.3.0.ebuild
@@ -0,0 +1,203 @@
+# Copyright 1999-2016 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=5
+
+inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib versionator toolchain-funcs
+
+BCP=${PN}-20130129.bash_completion
+DESCRIPTION="Language and environment for statistical computing and graphics"
+HOMEPAGE="http://www.r-project.org/"
+SRC_URI="
+	mirror://cran/src/base/R-3/${P}.tar.gz
+	https://dev.gentoo.org/~bicatali/distfiles/${BCP}.bz2"
+
+LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
+SLOT="0"
+KEYWORDS="~amd64 ~hppa ~ia64 ~ppc ~ppc64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
+REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
+
+CDEPEND="
+	app-arch/bzip2:0=
+	app-arch/xz-utils:0=
+	app-text/ghostscript-gpl
+	>=dev-libs/libpcre-8.35:3=
+	virtual/blas:0
+	|| ( >=sys-apps/coreutils-8.15 sys-freebsd/freebsd-bin app-misc/realpath )
+	cairo? ( x11-libs/cairo:0=[X] x11-libs/pango:0= )
+	icu? ( dev-libs/icu:= )
+	jpeg? ( virtual/jpeg:0 )
+	lapack? ( virtual/lapack:0 )
+	perl? ( dev-lang/perl )
+	png? ( media-libs/libpng:0= )
+	readline? ( sys-libs/readline:0= )
+	tiff? ( media-libs/tiff:0= )
+	tk? ( dev-lang/tk:0= )
+	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
+
+DEPEND="${CDEPEND}
+	virtual/pkgconfig
+	doc? (
+		virtual/latex-base
+		dev-texlive/texlive-fontsrecommended
+	)"
+
+RDEPEND="${CDEPEND}
+	>=sys-libs/zlib-1.2.5.1-r2:0[minizip]
+	java? ( >=virtual/jre-1.5 )"
+
+RESTRICT="minimal? ( test )"
+
+R_DIR="${EROOT%/}/usr/$(get_libdir)/${PN}"
+
+pkg_setup() {
+	if use openmp; then
+		if [[ $(tc-getCC) == *gcc ]] && ! tc-has-openmp; then
+			ewarn "OpenMP is not available in your current selected gcc"
+			die "need openmp capable gcc"
+		fi
+		FORTRAN_NEED_OPENMP=1
+	fi
+	fortran-2_pkg_setup
+	filter-ldflags -Wl,-Bdirect -Bdirect
+	# avoid using existing R installation
+	unset R_HOME
+	# Temporary fix for bug #419761
+	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
+		append-flags -fno-ipa-cp-clone
+	fi
+}
+
+src_prepare() {
+	epatch \
+		"${FILESDIR}"/${PN}-2.11.1-parallel.patch \
+		"${FILESDIR}"/${PN}-2.13.1-zlib_header_fix.patch \
+		"${FILESDIR}"/${PN}-3.0.0-rmath-shared.patch
+
+	# fix packages.html for doc (gentoo bug #205103)
+	sed -i \
+		-e "s:../../../library:../../../../$(get_libdir)/R/library:g" \
+		src/library/tools/R/Rd.R || die
+
+	# fix Rscript path when installed (gentoo bug #221061)
+	sed -i \
+		-e "s:-DR_HOME='\"\$(rhome)\"':-DR_HOME='\"${R_DIR}\"':" \
+		src/unix/Makefile.in || die "sed unix Makefile failed"
+
+	# fix HTML links to manual (gentoo bug #273957)
+	sed -i \
+		-e 's:\.\./manual/:manual/:g' \
+		$(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
+
+	use lapack && \
+		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+	if use X; then
+		export R_BROWSER="$(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 (OS X)
+	if use prefix; then
+		if [[ ${CHOST} == *-darwin* ]] ; then
+			sed -i \
+				-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/" \
+				configure.ac || die
+			# sort of "undo" 2.14.1-rmath-shared.patch
+			sed -i \
+				-e "s:-Wl,-soname=libRmath.so:-install_name ${EROOT%/}/usr/$(get_libdir)/libRmath.dylib:" \
+				src/nmath/standalone/Makefile.in || die
+		else
+			append-ldflags -Wl,-rpath="${EROOT%/}/usr/$(get_libdir)/R/lib"
+		fi
+	fi
+	AT_M4DIR=m4 eaclocal
+	eautoconf
+}
+
+src_configure() {
+	#	--with-system-tre \
+	# tre is patched from upstream
+	econf \
+		--enable-byte-compiled-packages \
+		--enable-R-shlib \
+		--disable-R-framework \
+		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
+		--docdir="${EPREFIX}/usr/share/doc/${PF}" \
+		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
+		$(use_enable java) \
+		$(use_enable nls) \
+		$(use_enable openmp) \
+		$(use_enable profile R-profiling) \
+		$(use_enable profile memory-profiling) \
+		$(use_enable static-libs static) \
+		$(use_enable static-libs R-static-lib) \
+		$(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) \
+		$(use_with tk tk-config "${EPREFIX}"/usr/lib/tkConfig.sh) \
+		$(use_with tk tcl-config "${EPREFIX}"/usr/lib/tclConfig.sh) \
+		$(use_with X x)
+}
+
+src_compile() {
+	export VARTEXFONTS="${T}/fonts"
+	emake AR="$(tc-getAR)"
+	emake -C src/nmath/standalone \
+		shared $(use static-libs && echo static) AR="$(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/${PF}/html/manual
+	fi
+
+	cat > 99R <<-EOF
+		LDPATH=${R_DIR}/lib
+		R_HOME=${R_DIR}
+	EOF
+	doenvd 99R
+	newbashcomp "${WORKDIR}"/${BCP} ${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/lib/R > /dev/null
+		for mod in $(find . -name "*.dylib") ; do
+			mod=${mod#./}
+			install_name_tool -id "${EPREFIX}/usr/lib/R/${mod}" \
+				"${mod}"
+		done
+		popd > /dev/null
+	fi
+	docompress -x /usr/share/doc/${PF}/{BioC_mirrors.csv,CRAN_mirrors.csv,KEYWORDS.db,NEWS.rds}
+}
+
+pkg_postinst() {
+	if use java; then
+		einfo "Re-initializing java paths for ${P}"
+		R CMD javareconf
+	fi
+}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2016-05-08 15:03 Denis Dupeyron
  0 siblings, 0 replies; 99+ messages in thread
From: Denis Dupeyron @ 2016-05-08 15:03 UTC (permalink / raw
  To: gentoo-commits

commit:     f351d29f7b1a0b6b6de2f34f213e6d4ea28617a1
Author:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
AuthorDate: Sun May  8 15:02:55 2016 +0000
Commit:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
CommitDate: Sun May  8 15:02:55 2016 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=f351d29f

dev-lang/R: remove 3.2.3 and 3.2.4

 dev-lang/R/R-3.2.3.ebuild | 206 ----------------------------------------------
 dev-lang/R/R-3.2.4.ebuild | 206 ----------------------------------------------
 2 files changed, 412 deletions(-)

diff --git a/dev-lang/R/R-3.2.3.ebuild b/dev-lang/R/R-3.2.3.ebuild
deleted file mode 100644
index c8227c9..0000000
--- a/dev-lang/R/R-3.2.3.ebuild
+++ /dev/null
@@ -1,206 +0,0 @@
-# Copyright 1999-2016 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Id$
-
-EAPI=5
-
-inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib versionator toolchain-funcs
-
-BCP=${PN}-20130129.bash_completion
-DESCRIPTION="Language and environment for statistical computing and graphics"
-HOMEPAGE="http://www.r-project.org/"
-SRC_URI="
-	mirror://cran/src/base/R-3/${P}.tar.gz
-	https://dev.gentoo.org/~bicatali/distfiles/${BCP}.bz2"
-
-LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
-SLOT="0"
-KEYWORDS="~amd64 ~hppa ~ia64 ~ppc ~ppc64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
-IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
-REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
-
-CDEPEND="
-	app-arch/bzip2:0=
-	app-arch/xz-utils:0=
-	app-text/ghostscript-gpl
-	>=dev-libs/libpcre-8.35:3=
-	virtual/blas:0
-	|| ( >=sys-apps/coreutils-8.15 sys-freebsd/freebsd-bin app-misc/realpath )
-	cairo? ( x11-libs/cairo:0=[X] x11-libs/pango:0= )
-	icu? ( dev-libs/icu:= )
-	jpeg? ( virtual/jpeg:0 )
-	lapack? ( virtual/lapack:0 )
-	perl? ( dev-lang/perl )
-	png? ( media-libs/libpng:0= )
-	readline? ( sys-libs/readline:0= )
-	tiff? ( media-libs/tiff:0= )
-	tk? ( dev-lang/tk:0= )
-	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
-
-DEPEND="${CDEPEND}
-	virtual/pkgconfig
-	doc? (
-		virtual/latex-base
-		dev-texlive/texlive-fontsrecommended
-	)"
-
-RDEPEND="${CDEPEND}
-	>=sys-libs/zlib-1.2.5.1-r2:0[minizip]
-	java? ( >=virtual/jre-1.5 )"
-
-RESTRICT="minimal? ( test )"
-
-R_DIR="${EROOT%/}/usr/$(get_libdir)/${PN}"
-
-pkg_setup() {
-	if use openmp; then
-		if [[ $(tc-getCC) == *gcc ]] && ! tc-has-openmp; then
-			ewarn "OpenMP is not available in your current selected gcc"
-			die "need openmp capable gcc"
-		fi
-		FORTRAN_NEED_OPENMP=1
-	fi
-	fortran-2_pkg_setup
-	filter-ldflags -Wl,-Bdirect -Bdirect
-	# avoid using existing R installation
-	unset R_HOME
-	# Temporary fix for bug #419761
-	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
-		append-flags -fno-ipa-cp-clone
-	fi
-}
-
-src_prepare() {
-	epatch \
-		"${FILESDIR}"/${PN}-2.11.1-parallel.patch \
-		"${FILESDIR}"/${PN}-2.13.1-zlib_header_fix.patch \
-		"${FILESDIR}"/${PN}-3.0.0-rmath-shared.patch
-
-	# fix packages.html for doc (gentoo bug #205103)
-	sed -i \
-		-e "s:../../../library:../../../../$(get_libdir)/R/library:g" \
-		src/library/tools/R/Rd.R || die
-
-	# fix Rscript path when installed (gentoo bug #221061)
-	sed -i \
-		-e "s:-DR_HOME='\"\$(rhome)\"':-DR_HOME='\"${R_DIR}\"':" \
-		src/unix/Makefile.in || die "sed unix Makefile failed"
-
-	# fix HTML links to manual (gentoo bug #273957)
-	sed -i \
-		-e 's:\.\./manual/:manual/:g' \
-		$(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
-
-	use lapack && \
-		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
-
-	if use X; then
-		export R_BROWSER="$(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 (OS X)
-	if use prefix; then
-		if [[ ${CHOST} == *-darwin* ]] ; then
-			sed -i \
-				-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/" \
-				configure.ac || die
-			# sort of "undo" 2.14.1-rmath-shared.patch
-			sed -i \
-				-e "s:-Wl,-soname=libRmath.so:-install_name ${EROOT%/}/usr/$(get_libdir)/libRmath.dylib:" \
-				src/nmath/standalone/Makefile.in || die
-		else
-			append-ldflags -Wl,-rpath="${EROOT%/}/usr/$(get_libdir)/R/lib"
-		fi
-	fi
-	AT_M4DIR=m4 eaclocal
-	eautoconf
-}
-
-src_configure() {
-	#	--with-system-tre \
-	# tre is patched from upstream
-	econf \
-		--enable-byte-compiled-packages \
-		--enable-R-shlib \
-		--disable-R-framework \
-		--with-system-zlib \
-		--with-system-bzlib \
-		--with-system-pcre \
-		--with-system-xz \
-		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
-		--docdir="${EPREFIX}/usr/share/doc/${PF}" \
-		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
-		$(use_enable nls) \
-		$(use_enable openmp) \
-		$(use_enable profile R-profiling) \
-		$(use_enable profile memory-profiling) \
-		$(use_enable static-libs static) \
-		$(use_enable static-libs R-static-lib) \
-		$(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) \
-		$(use_with tk tk-config "${EPREFIX}"/usr/lib/tkConfig.sh) \
-		$(use_with tk tcl-config "${EPREFIX}"/usr/lib/tclConfig.sh) \
-		$(use_with X x)
-}
-
-src_compile() {
-	export VARTEXFONTS="${T}/fonts"
-	emake AR="$(tc-getAR)"
-	emake -C src/nmath/standalone \
-		shared $(use static-libs && echo static) AR="$(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/${PF}/html/manual
-	fi
-
-	cat > 99R <<-EOF
-		LDPATH=${R_DIR}/lib
-		R_HOME=${R_DIR}
-	EOF
-	doenvd 99R
-	newbashcomp "${WORKDIR}"/${BCP} ${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/lib/R > /dev/null
-		for mod in $(find . -name "*.dylib") ; do
-			mod=${mod#./}
-			install_name_tool -id "${EPREFIX}/usr/lib/R/${mod}" \
-				"${mod}"
-		done
-		popd > /dev/null
-	fi
-	docompress -x /usr/share/doc/${PF}/NEWS.rds
-}
-
-pkg_postinst() {
-	if use java; then
-		einfo "Re-initializing java paths for ${P}"
-		R CMD javareconf
-	fi
-}

diff --git a/dev-lang/R/R-3.2.4.ebuild b/dev-lang/R/R-3.2.4.ebuild
deleted file mode 100644
index c8227c9..0000000
--- a/dev-lang/R/R-3.2.4.ebuild
+++ /dev/null
@@ -1,206 +0,0 @@
-# Copyright 1999-2016 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Id$
-
-EAPI=5
-
-inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib versionator toolchain-funcs
-
-BCP=${PN}-20130129.bash_completion
-DESCRIPTION="Language and environment for statistical computing and graphics"
-HOMEPAGE="http://www.r-project.org/"
-SRC_URI="
-	mirror://cran/src/base/R-3/${P}.tar.gz
-	https://dev.gentoo.org/~bicatali/distfiles/${BCP}.bz2"
-
-LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
-SLOT="0"
-KEYWORDS="~amd64 ~hppa ~ia64 ~ppc ~ppc64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
-IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
-REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
-
-CDEPEND="
-	app-arch/bzip2:0=
-	app-arch/xz-utils:0=
-	app-text/ghostscript-gpl
-	>=dev-libs/libpcre-8.35:3=
-	virtual/blas:0
-	|| ( >=sys-apps/coreutils-8.15 sys-freebsd/freebsd-bin app-misc/realpath )
-	cairo? ( x11-libs/cairo:0=[X] x11-libs/pango:0= )
-	icu? ( dev-libs/icu:= )
-	jpeg? ( virtual/jpeg:0 )
-	lapack? ( virtual/lapack:0 )
-	perl? ( dev-lang/perl )
-	png? ( media-libs/libpng:0= )
-	readline? ( sys-libs/readline:0= )
-	tiff? ( media-libs/tiff:0= )
-	tk? ( dev-lang/tk:0= )
-	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
-
-DEPEND="${CDEPEND}
-	virtual/pkgconfig
-	doc? (
-		virtual/latex-base
-		dev-texlive/texlive-fontsrecommended
-	)"
-
-RDEPEND="${CDEPEND}
-	>=sys-libs/zlib-1.2.5.1-r2:0[minizip]
-	java? ( >=virtual/jre-1.5 )"
-
-RESTRICT="minimal? ( test )"
-
-R_DIR="${EROOT%/}/usr/$(get_libdir)/${PN}"
-
-pkg_setup() {
-	if use openmp; then
-		if [[ $(tc-getCC) == *gcc ]] && ! tc-has-openmp; then
-			ewarn "OpenMP is not available in your current selected gcc"
-			die "need openmp capable gcc"
-		fi
-		FORTRAN_NEED_OPENMP=1
-	fi
-	fortran-2_pkg_setup
-	filter-ldflags -Wl,-Bdirect -Bdirect
-	# avoid using existing R installation
-	unset R_HOME
-	# Temporary fix for bug #419761
-	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
-		append-flags -fno-ipa-cp-clone
-	fi
-}
-
-src_prepare() {
-	epatch \
-		"${FILESDIR}"/${PN}-2.11.1-parallel.patch \
-		"${FILESDIR}"/${PN}-2.13.1-zlib_header_fix.patch \
-		"${FILESDIR}"/${PN}-3.0.0-rmath-shared.patch
-
-	# fix packages.html for doc (gentoo bug #205103)
-	sed -i \
-		-e "s:../../../library:../../../../$(get_libdir)/R/library:g" \
-		src/library/tools/R/Rd.R || die
-
-	# fix Rscript path when installed (gentoo bug #221061)
-	sed -i \
-		-e "s:-DR_HOME='\"\$(rhome)\"':-DR_HOME='\"${R_DIR}\"':" \
-		src/unix/Makefile.in || die "sed unix Makefile failed"
-
-	# fix HTML links to manual (gentoo bug #273957)
-	sed -i \
-		-e 's:\.\./manual/:manual/:g' \
-		$(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
-
-	use lapack && \
-		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
-
-	if use X; then
-		export R_BROWSER="$(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 (OS X)
-	if use prefix; then
-		if [[ ${CHOST} == *-darwin* ]] ; then
-			sed -i \
-				-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/" \
-				configure.ac || die
-			# sort of "undo" 2.14.1-rmath-shared.patch
-			sed -i \
-				-e "s:-Wl,-soname=libRmath.so:-install_name ${EROOT%/}/usr/$(get_libdir)/libRmath.dylib:" \
-				src/nmath/standalone/Makefile.in || die
-		else
-			append-ldflags -Wl,-rpath="${EROOT%/}/usr/$(get_libdir)/R/lib"
-		fi
-	fi
-	AT_M4DIR=m4 eaclocal
-	eautoconf
-}
-
-src_configure() {
-	#	--with-system-tre \
-	# tre is patched from upstream
-	econf \
-		--enable-byte-compiled-packages \
-		--enable-R-shlib \
-		--disable-R-framework \
-		--with-system-zlib \
-		--with-system-bzlib \
-		--with-system-pcre \
-		--with-system-xz \
-		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
-		--docdir="${EPREFIX}/usr/share/doc/${PF}" \
-		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
-		$(use_enable nls) \
-		$(use_enable openmp) \
-		$(use_enable profile R-profiling) \
-		$(use_enable profile memory-profiling) \
-		$(use_enable static-libs static) \
-		$(use_enable static-libs R-static-lib) \
-		$(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) \
-		$(use_with tk tk-config "${EPREFIX}"/usr/lib/tkConfig.sh) \
-		$(use_with tk tcl-config "${EPREFIX}"/usr/lib/tclConfig.sh) \
-		$(use_with X x)
-}
-
-src_compile() {
-	export VARTEXFONTS="${T}/fonts"
-	emake AR="$(tc-getAR)"
-	emake -C src/nmath/standalone \
-		shared $(use static-libs && echo static) AR="$(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/${PF}/html/manual
-	fi
-
-	cat > 99R <<-EOF
-		LDPATH=${R_DIR}/lib
-		R_HOME=${R_DIR}
-	EOF
-	doenvd 99R
-	newbashcomp "${WORKDIR}"/${BCP} ${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/lib/R > /dev/null
-		for mod in $(find . -name "*.dylib") ; do
-			mod=${mod#./}
-			install_name_tool -id "${EPREFIX}/usr/lib/R/${mod}" \
-				"${mod}"
-		done
-		popd > /dev/null
-	fi
-	docompress -x /usr/share/doc/${PF}/NEWS.rds
-}
-
-pkg_postinst() {
-	if use java; then
-		einfo "Re-initializing java paths for ${P}"
-		R CMD javareconf
-	fi
-}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2016-04-20 18:05 Denis Dupeyron
  0 siblings, 0 replies; 99+ messages in thread
From: Denis Dupeyron @ 2016-04-20 18:05 UTC (permalink / raw
  To: gentoo-commits

commit:     c7a27b7b33e4111bf2c295f791fca67ae69706a5
Author:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
AuthorDate: Wed Apr 20 17:37:11 2016 +0000
Commit:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
CommitDate: Wed Apr 20 18:04:55 2016 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=c7a27b7b

dev-lang/R: bump to 3.2.5

 dev-lang/R/Manifest       |   1 +
 dev-lang/R/R-3.2.5.ebuild | 206 ++++++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 207 insertions(+)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index 47cf3ef..78ef083 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -2,3 +2,4 @@ DIST R-20130129.bash_completion.bz2 4209 SHA256 487e969b94563fec98ec58de7e6142e9
 DIST R-3.2.2.tar.gz 29772864 SHA256 9c9152e74134b68b0f3a1c7083764adc1cb56fd8336bec003fd0ca550cd2461d SHA512 71ba470875262b9f00fb6970f209788df4dad30e0a28373b824b60d8bc6401afb7786e65387663c6490c7ddcd2bfd7f808a270a3e63238f3d7565d5f93607138 WHIRLPOOL fea59929ada1d67dafc6ad89409d18ad173af7990384033f490a00e0f794d9919aecf7cd37089d105fe03b9cf64d079e5d148622571cec3eb924c1c5bd00081e
 DIST R-3.2.3.tar.gz 29816176 SHA256 b93b7d878138279234160f007cb9b7f81b8a72c012a15566e9ec5395cfd9b6c1 SHA512 9d7294af860204f4d84e25eb503111c9607beedbc42f01de073c915945a6342c3e24e25a9cc038a2e58442036bee931975d93dc327081ed02afe5ffa365170ea WHIRLPOOL 31ecbaa5c4340e02551eefe17f7f2e9ae075778e7b568a2c477b9f31f1b9598380edb8cb53c713df6643d2cba62ea97c6f225490ade2fc8a9e2b4d88426c7883
 DIST R-3.2.4.tar.gz 29879523 SHA256 bafd405fe9c2fe3bbe47a8a7730ad120f03b7df9fb0f61674fca19cf061dd350 SHA512 a74f01a9b47437feb81520c10936a6f2bc7700900730ec87b7f1442ee90bcf1d7aac9ef3345aa046c0566f1920f114da0a616c5f355b1e8480dc01e311476cbf WHIRLPOOL 0277c372baaf6c50c403c03b8fef04e80e8690efad875c26a03283a4f4d32e53610091695922a57a2f8bee4ac1a568b36f1fbf929bf61d11298b81907a3aaac6
+DIST R-3.2.5.tar.gz 29876312 SHA256 60745672dce5ddc201806fa59f6d4e0ba6554d8ed78d0f9f0d79a629978f80b5 SHA512 aff7efa84188dfdd486d48095fadb9fbe1ab5897f9f924b9956d21d955d7cba9e50c1d21af6cca8327af8d1465b10761526a3a3be357c08a536831e7f5fc290b WHIRLPOOL 48b232bac4df9d562253fac3527c5786a6b45b3adeb5e91ad586549254ae1a2b53f0d39bc746cfd6d86094201f9d8e29617a9678780c7c58365f484f679fc7e0

diff --git a/dev-lang/R/R-3.2.5.ebuild b/dev-lang/R/R-3.2.5.ebuild
new file mode 100644
index 0000000..c8227c9
--- /dev/null
+++ b/dev-lang/R/R-3.2.5.ebuild
@@ -0,0 +1,206 @@
+# Copyright 1999-2016 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=5
+
+inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib versionator toolchain-funcs
+
+BCP=${PN}-20130129.bash_completion
+DESCRIPTION="Language and environment for statistical computing and graphics"
+HOMEPAGE="http://www.r-project.org/"
+SRC_URI="
+	mirror://cran/src/base/R-3/${P}.tar.gz
+	https://dev.gentoo.org/~bicatali/distfiles/${BCP}.bz2"
+
+LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
+SLOT="0"
+KEYWORDS="~amd64 ~hppa ~ia64 ~ppc ~ppc64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
+REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
+
+CDEPEND="
+	app-arch/bzip2:0=
+	app-arch/xz-utils:0=
+	app-text/ghostscript-gpl
+	>=dev-libs/libpcre-8.35:3=
+	virtual/blas:0
+	|| ( >=sys-apps/coreutils-8.15 sys-freebsd/freebsd-bin app-misc/realpath )
+	cairo? ( x11-libs/cairo:0=[X] x11-libs/pango:0= )
+	icu? ( dev-libs/icu:= )
+	jpeg? ( virtual/jpeg:0 )
+	lapack? ( virtual/lapack:0 )
+	perl? ( dev-lang/perl )
+	png? ( media-libs/libpng:0= )
+	readline? ( sys-libs/readline:0= )
+	tiff? ( media-libs/tiff:0= )
+	tk? ( dev-lang/tk:0= )
+	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
+
+DEPEND="${CDEPEND}
+	virtual/pkgconfig
+	doc? (
+		virtual/latex-base
+		dev-texlive/texlive-fontsrecommended
+	)"
+
+RDEPEND="${CDEPEND}
+	>=sys-libs/zlib-1.2.5.1-r2:0[minizip]
+	java? ( >=virtual/jre-1.5 )"
+
+RESTRICT="minimal? ( test )"
+
+R_DIR="${EROOT%/}/usr/$(get_libdir)/${PN}"
+
+pkg_setup() {
+	if use openmp; then
+		if [[ $(tc-getCC) == *gcc ]] && ! tc-has-openmp; then
+			ewarn "OpenMP is not available in your current selected gcc"
+			die "need openmp capable gcc"
+		fi
+		FORTRAN_NEED_OPENMP=1
+	fi
+	fortran-2_pkg_setup
+	filter-ldflags -Wl,-Bdirect -Bdirect
+	# avoid using existing R installation
+	unset R_HOME
+	# Temporary fix for bug #419761
+	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
+		append-flags -fno-ipa-cp-clone
+	fi
+}
+
+src_prepare() {
+	epatch \
+		"${FILESDIR}"/${PN}-2.11.1-parallel.patch \
+		"${FILESDIR}"/${PN}-2.13.1-zlib_header_fix.patch \
+		"${FILESDIR}"/${PN}-3.0.0-rmath-shared.patch
+
+	# fix packages.html for doc (gentoo bug #205103)
+	sed -i \
+		-e "s:../../../library:../../../../$(get_libdir)/R/library:g" \
+		src/library/tools/R/Rd.R || die
+
+	# fix Rscript path when installed (gentoo bug #221061)
+	sed -i \
+		-e "s:-DR_HOME='\"\$(rhome)\"':-DR_HOME='\"${R_DIR}\"':" \
+		src/unix/Makefile.in || die "sed unix Makefile failed"
+
+	# fix HTML links to manual (gentoo bug #273957)
+	sed -i \
+		-e 's:\.\./manual/:manual/:g' \
+		$(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
+
+	use lapack && \
+		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+	if use X; then
+		export R_BROWSER="$(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 (OS X)
+	if use prefix; then
+		if [[ ${CHOST} == *-darwin* ]] ; then
+			sed -i \
+				-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/" \
+				configure.ac || die
+			# sort of "undo" 2.14.1-rmath-shared.patch
+			sed -i \
+				-e "s:-Wl,-soname=libRmath.so:-install_name ${EROOT%/}/usr/$(get_libdir)/libRmath.dylib:" \
+				src/nmath/standalone/Makefile.in || die
+		else
+			append-ldflags -Wl,-rpath="${EROOT%/}/usr/$(get_libdir)/R/lib"
+		fi
+	fi
+	AT_M4DIR=m4 eaclocal
+	eautoconf
+}
+
+src_configure() {
+	#	--with-system-tre \
+	# tre is patched from upstream
+	econf \
+		--enable-byte-compiled-packages \
+		--enable-R-shlib \
+		--disable-R-framework \
+		--with-system-zlib \
+		--with-system-bzlib \
+		--with-system-pcre \
+		--with-system-xz \
+		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
+		--docdir="${EPREFIX}/usr/share/doc/${PF}" \
+		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
+		$(use_enable nls) \
+		$(use_enable openmp) \
+		$(use_enable profile R-profiling) \
+		$(use_enable profile memory-profiling) \
+		$(use_enable static-libs static) \
+		$(use_enable static-libs R-static-lib) \
+		$(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) \
+		$(use_with tk tk-config "${EPREFIX}"/usr/lib/tkConfig.sh) \
+		$(use_with tk tcl-config "${EPREFIX}"/usr/lib/tclConfig.sh) \
+		$(use_with X x)
+}
+
+src_compile() {
+	export VARTEXFONTS="${T}/fonts"
+	emake AR="$(tc-getAR)"
+	emake -C src/nmath/standalone \
+		shared $(use static-libs && echo static) AR="$(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/${PF}/html/manual
+	fi
+
+	cat > 99R <<-EOF
+		LDPATH=${R_DIR}/lib
+		R_HOME=${R_DIR}
+	EOF
+	doenvd 99R
+	newbashcomp "${WORKDIR}"/${BCP} ${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/lib/R > /dev/null
+		for mod in $(find . -name "*.dylib") ; do
+			mod=${mod#./}
+			install_name_tool -id "${EPREFIX}/usr/lib/R/${mod}" \
+				"${mod}"
+		done
+		popd > /dev/null
+	fi
+	docompress -x /usr/share/doc/${PF}/NEWS.rds
+}
+
+pkg_postinst() {
+	if use java; then
+		einfo "Re-initializing java paths for ${P}"
+		R CMD javareconf
+	fi
+}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2016-03-15 19:59 Denis Dupeyron
  0 siblings, 0 replies; 99+ messages in thread
From: Denis Dupeyron @ 2016-03-15 19:59 UTC (permalink / raw
  To: gentoo-commits

commit:     ca161a07ae9f4f5d49a908c9cbd5d9f12794b15e
Author:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
AuthorDate: Tue Mar 15 19:58:30 2016 +0000
Commit:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
CommitDate: Tue Mar 15 19:58:56 2016 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=ca161a07

dev-lang/R: bump to 3.2.4

 dev-lang/R/Manifest       |   1 +
 dev-lang/R/R-3.2.4.ebuild | 206 ++++++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 207 insertions(+)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index 95f848f..47cf3ef 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,3 +1,4 @@
 DIST R-20130129.bash_completion.bz2 4209 SHA256 487e969b94563fec98ec58de7e6142e9361d4219088add0fca282b482a9e01b1 SHA512 910b26e16cfebe677f438abfa5f2652e582db143d91dbf0e7d4b1ea33462c7e5c89c3a3619c63ae98bba26b11a5adb16eda9d344f8cdbe4f0feabc546993c1a5 WHIRLPOOL 2368efaed37fcb6e010f6a234864631f68549bd8e3f733561170cc5b28f5557e546d8561246fb265a481a47991a262fec3acf6abc1dc3929a9357405e0d3c6fc
 DIST R-3.2.2.tar.gz 29772864 SHA256 9c9152e74134b68b0f3a1c7083764adc1cb56fd8336bec003fd0ca550cd2461d SHA512 71ba470875262b9f00fb6970f209788df4dad30e0a28373b824b60d8bc6401afb7786e65387663c6490c7ddcd2bfd7f808a270a3e63238f3d7565d5f93607138 WHIRLPOOL fea59929ada1d67dafc6ad89409d18ad173af7990384033f490a00e0f794d9919aecf7cd37089d105fe03b9cf64d079e5d148622571cec3eb924c1c5bd00081e
 DIST R-3.2.3.tar.gz 29816176 SHA256 b93b7d878138279234160f007cb9b7f81b8a72c012a15566e9ec5395cfd9b6c1 SHA512 9d7294af860204f4d84e25eb503111c9607beedbc42f01de073c915945a6342c3e24e25a9cc038a2e58442036bee931975d93dc327081ed02afe5ffa365170ea WHIRLPOOL 31ecbaa5c4340e02551eefe17f7f2e9ae075778e7b568a2c477b9f31f1b9598380edb8cb53c713df6643d2cba62ea97c6f225490ade2fc8a9e2b4d88426c7883
+DIST R-3.2.4.tar.gz 29879523 SHA256 bafd405fe9c2fe3bbe47a8a7730ad120f03b7df9fb0f61674fca19cf061dd350 SHA512 a74f01a9b47437feb81520c10936a6f2bc7700900730ec87b7f1442ee90bcf1d7aac9ef3345aa046c0566f1920f114da0a616c5f355b1e8480dc01e311476cbf WHIRLPOOL 0277c372baaf6c50c403c03b8fef04e80e8690efad875c26a03283a4f4d32e53610091695922a57a2f8bee4ac1a568b36f1fbf929bf61d11298b81907a3aaac6

diff --git a/dev-lang/R/R-3.2.4.ebuild b/dev-lang/R/R-3.2.4.ebuild
new file mode 100644
index 0000000..c8227c9
--- /dev/null
+++ b/dev-lang/R/R-3.2.4.ebuild
@@ -0,0 +1,206 @@
+# Copyright 1999-2016 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=5
+
+inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib versionator toolchain-funcs
+
+BCP=${PN}-20130129.bash_completion
+DESCRIPTION="Language and environment for statistical computing and graphics"
+HOMEPAGE="http://www.r-project.org/"
+SRC_URI="
+	mirror://cran/src/base/R-3/${P}.tar.gz
+	https://dev.gentoo.org/~bicatali/distfiles/${BCP}.bz2"
+
+LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
+SLOT="0"
+KEYWORDS="~amd64 ~hppa ~ia64 ~ppc ~ppc64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
+REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
+
+CDEPEND="
+	app-arch/bzip2:0=
+	app-arch/xz-utils:0=
+	app-text/ghostscript-gpl
+	>=dev-libs/libpcre-8.35:3=
+	virtual/blas:0
+	|| ( >=sys-apps/coreutils-8.15 sys-freebsd/freebsd-bin app-misc/realpath )
+	cairo? ( x11-libs/cairo:0=[X] x11-libs/pango:0= )
+	icu? ( dev-libs/icu:= )
+	jpeg? ( virtual/jpeg:0 )
+	lapack? ( virtual/lapack:0 )
+	perl? ( dev-lang/perl )
+	png? ( media-libs/libpng:0= )
+	readline? ( sys-libs/readline:0= )
+	tiff? ( media-libs/tiff:0= )
+	tk? ( dev-lang/tk:0= )
+	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
+
+DEPEND="${CDEPEND}
+	virtual/pkgconfig
+	doc? (
+		virtual/latex-base
+		dev-texlive/texlive-fontsrecommended
+	)"
+
+RDEPEND="${CDEPEND}
+	>=sys-libs/zlib-1.2.5.1-r2:0[minizip]
+	java? ( >=virtual/jre-1.5 )"
+
+RESTRICT="minimal? ( test )"
+
+R_DIR="${EROOT%/}/usr/$(get_libdir)/${PN}"
+
+pkg_setup() {
+	if use openmp; then
+		if [[ $(tc-getCC) == *gcc ]] && ! tc-has-openmp; then
+			ewarn "OpenMP is not available in your current selected gcc"
+			die "need openmp capable gcc"
+		fi
+		FORTRAN_NEED_OPENMP=1
+	fi
+	fortran-2_pkg_setup
+	filter-ldflags -Wl,-Bdirect -Bdirect
+	# avoid using existing R installation
+	unset R_HOME
+	# Temporary fix for bug #419761
+	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
+		append-flags -fno-ipa-cp-clone
+	fi
+}
+
+src_prepare() {
+	epatch \
+		"${FILESDIR}"/${PN}-2.11.1-parallel.patch \
+		"${FILESDIR}"/${PN}-2.13.1-zlib_header_fix.patch \
+		"${FILESDIR}"/${PN}-3.0.0-rmath-shared.patch
+
+	# fix packages.html for doc (gentoo bug #205103)
+	sed -i \
+		-e "s:../../../library:../../../../$(get_libdir)/R/library:g" \
+		src/library/tools/R/Rd.R || die
+
+	# fix Rscript path when installed (gentoo bug #221061)
+	sed -i \
+		-e "s:-DR_HOME='\"\$(rhome)\"':-DR_HOME='\"${R_DIR}\"':" \
+		src/unix/Makefile.in || die "sed unix Makefile failed"
+
+	# fix HTML links to manual (gentoo bug #273957)
+	sed -i \
+		-e 's:\.\./manual/:manual/:g' \
+		$(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
+
+	use lapack && \
+		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+	if use X; then
+		export R_BROWSER="$(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 (OS X)
+	if use prefix; then
+		if [[ ${CHOST} == *-darwin* ]] ; then
+			sed -i \
+				-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/" \
+				configure.ac || die
+			# sort of "undo" 2.14.1-rmath-shared.patch
+			sed -i \
+				-e "s:-Wl,-soname=libRmath.so:-install_name ${EROOT%/}/usr/$(get_libdir)/libRmath.dylib:" \
+				src/nmath/standalone/Makefile.in || die
+		else
+			append-ldflags -Wl,-rpath="${EROOT%/}/usr/$(get_libdir)/R/lib"
+		fi
+	fi
+	AT_M4DIR=m4 eaclocal
+	eautoconf
+}
+
+src_configure() {
+	#	--with-system-tre \
+	# tre is patched from upstream
+	econf \
+		--enable-byte-compiled-packages \
+		--enable-R-shlib \
+		--disable-R-framework \
+		--with-system-zlib \
+		--with-system-bzlib \
+		--with-system-pcre \
+		--with-system-xz \
+		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
+		--docdir="${EPREFIX}/usr/share/doc/${PF}" \
+		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
+		$(use_enable nls) \
+		$(use_enable openmp) \
+		$(use_enable profile R-profiling) \
+		$(use_enable profile memory-profiling) \
+		$(use_enable static-libs static) \
+		$(use_enable static-libs R-static-lib) \
+		$(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) \
+		$(use_with tk tk-config "${EPREFIX}"/usr/lib/tkConfig.sh) \
+		$(use_with tk tcl-config "${EPREFIX}"/usr/lib/tclConfig.sh) \
+		$(use_with X x)
+}
+
+src_compile() {
+	export VARTEXFONTS="${T}/fonts"
+	emake AR="$(tc-getAR)"
+	emake -C src/nmath/standalone \
+		shared $(use static-libs && echo static) AR="$(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/${PF}/html/manual
+	fi
+
+	cat > 99R <<-EOF
+		LDPATH=${R_DIR}/lib
+		R_HOME=${R_DIR}
+	EOF
+	doenvd 99R
+	newbashcomp "${WORKDIR}"/${BCP} ${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/lib/R > /dev/null
+		for mod in $(find . -name "*.dylib") ; do
+			mod=${mod#./}
+			install_name_tool -id "${EPREFIX}/usr/lib/R/${mod}" \
+				"${mod}"
+		done
+		popd > /dev/null
+	fi
+	docompress -x /usr/share/doc/${PF}/NEWS.rds
+}
+
+pkg_postinst() {
+	if use java; then
+		einfo "Re-initializing java paths for ${P}"
+		R CMD javareconf
+	fi
+}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2016-01-04 18:24 Denis Dupeyron
  0 siblings, 0 replies; 99+ messages in thread
From: Denis Dupeyron @ 2016-01-04 18:24 UTC (permalink / raw
  To: gentoo-commits

commit:     702ba2aaa8e9bff70c76a39c0e28c5934f63adcb
Author:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
AuthorDate: Mon Jan  4 18:23:36 2016 +0000
Commit:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
CommitDate: Mon Jan  4 18:24:41 2016 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=702ba2aa

dev-lang/R: bump to 3.2.3

 dev-lang/R/Manifest       |   1 +
 dev-lang/R/R-3.2.3.ebuild | 206 ++++++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 207 insertions(+)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index a60e55e..95f848f 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -1,2 +1,3 @@
 DIST R-20130129.bash_completion.bz2 4209 SHA256 487e969b94563fec98ec58de7e6142e9361d4219088add0fca282b482a9e01b1 SHA512 910b26e16cfebe677f438abfa5f2652e582db143d91dbf0e7d4b1ea33462c7e5c89c3a3619c63ae98bba26b11a5adb16eda9d344f8cdbe4f0feabc546993c1a5 WHIRLPOOL 2368efaed37fcb6e010f6a234864631f68549bd8e3f733561170cc5b28f5557e546d8561246fb265a481a47991a262fec3acf6abc1dc3929a9357405e0d3c6fc
 DIST R-3.2.2.tar.gz 29772864 SHA256 9c9152e74134b68b0f3a1c7083764adc1cb56fd8336bec003fd0ca550cd2461d SHA512 71ba470875262b9f00fb6970f209788df4dad30e0a28373b824b60d8bc6401afb7786e65387663c6490c7ddcd2bfd7f808a270a3e63238f3d7565d5f93607138 WHIRLPOOL fea59929ada1d67dafc6ad89409d18ad173af7990384033f490a00e0f794d9919aecf7cd37089d105fe03b9cf64d079e5d148622571cec3eb924c1c5bd00081e
+DIST R-3.2.3.tar.gz 29816176 SHA256 b93b7d878138279234160f007cb9b7f81b8a72c012a15566e9ec5395cfd9b6c1 SHA512 9d7294af860204f4d84e25eb503111c9607beedbc42f01de073c915945a6342c3e24e25a9cc038a2e58442036bee931975d93dc327081ed02afe5ffa365170ea WHIRLPOOL 31ecbaa5c4340e02551eefe17f7f2e9ae075778e7b568a2c477b9f31f1b9598380edb8cb53c713df6643d2cba62ea97c6f225490ade2fc8a9e2b4d88426c7883

diff --git a/dev-lang/R/R-3.2.3.ebuild b/dev-lang/R/R-3.2.3.ebuild
new file mode 100644
index 0000000..c8227c9
--- /dev/null
+++ b/dev-lang/R/R-3.2.3.ebuild
@@ -0,0 +1,206 @@
+# Copyright 1999-2016 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=5
+
+inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib versionator toolchain-funcs
+
+BCP=${PN}-20130129.bash_completion
+DESCRIPTION="Language and environment for statistical computing and graphics"
+HOMEPAGE="http://www.r-project.org/"
+SRC_URI="
+	mirror://cran/src/base/R-3/${P}.tar.gz
+	https://dev.gentoo.org/~bicatali/distfiles/${BCP}.bz2"
+
+LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
+SLOT="0"
+KEYWORDS="~amd64 ~hppa ~ia64 ~ppc ~ppc64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
+REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
+
+CDEPEND="
+	app-arch/bzip2:0=
+	app-arch/xz-utils:0=
+	app-text/ghostscript-gpl
+	>=dev-libs/libpcre-8.35:3=
+	virtual/blas:0
+	|| ( >=sys-apps/coreutils-8.15 sys-freebsd/freebsd-bin app-misc/realpath )
+	cairo? ( x11-libs/cairo:0=[X] x11-libs/pango:0= )
+	icu? ( dev-libs/icu:= )
+	jpeg? ( virtual/jpeg:0 )
+	lapack? ( virtual/lapack:0 )
+	perl? ( dev-lang/perl )
+	png? ( media-libs/libpng:0= )
+	readline? ( sys-libs/readline:0= )
+	tiff? ( media-libs/tiff:0= )
+	tk? ( dev-lang/tk:0= )
+	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
+
+DEPEND="${CDEPEND}
+	virtual/pkgconfig
+	doc? (
+		virtual/latex-base
+		dev-texlive/texlive-fontsrecommended
+	)"
+
+RDEPEND="${CDEPEND}
+	>=sys-libs/zlib-1.2.5.1-r2:0[minizip]
+	java? ( >=virtual/jre-1.5 )"
+
+RESTRICT="minimal? ( test )"
+
+R_DIR="${EROOT%/}/usr/$(get_libdir)/${PN}"
+
+pkg_setup() {
+	if use openmp; then
+		if [[ $(tc-getCC) == *gcc ]] && ! tc-has-openmp; then
+			ewarn "OpenMP is not available in your current selected gcc"
+			die "need openmp capable gcc"
+		fi
+		FORTRAN_NEED_OPENMP=1
+	fi
+	fortran-2_pkg_setup
+	filter-ldflags -Wl,-Bdirect -Bdirect
+	# avoid using existing R installation
+	unset R_HOME
+	# Temporary fix for bug #419761
+	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
+		append-flags -fno-ipa-cp-clone
+	fi
+}
+
+src_prepare() {
+	epatch \
+		"${FILESDIR}"/${PN}-2.11.1-parallel.patch \
+		"${FILESDIR}"/${PN}-2.13.1-zlib_header_fix.patch \
+		"${FILESDIR}"/${PN}-3.0.0-rmath-shared.patch
+
+	# fix packages.html for doc (gentoo bug #205103)
+	sed -i \
+		-e "s:../../../library:../../../../$(get_libdir)/R/library:g" \
+		src/library/tools/R/Rd.R || die
+
+	# fix Rscript path when installed (gentoo bug #221061)
+	sed -i \
+		-e "s:-DR_HOME='\"\$(rhome)\"':-DR_HOME='\"${R_DIR}\"':" \
+		src/unix/Makefile.in || die "sed unix Makefile failed"
+
+	# fix HTML links to manual (gentoo bug #273957)
+	sed -i \
+		-e 's:\.\./manual/:manual/:g' \
+		$(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
+
+	use lapack && \
+		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+	if use X; then
+		export R_BROWSER="$(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 (OS X)
+	if use prefix; then
+		if [[ ${CHOST} == *-darwin* ]] ; then
+			sed -i \
+				-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/" \
+				configure.ac || die
+			# sort of "undo" 2.14.1-rmath-shared.patch
+			sed -i \
+				-e "s:-Wl,-soname=libRmath.so:-install_name ${EROOT%/}/usr/$(get_libdir)/libRmath.dylib:" \
+				src/nmath/standalone/Makefile.in || die
+		else
+			append-ldflags -Wl,-rpath="${EROOT%/}/usr/$(get_libdir)/R/lib"
+		fi
+	fi
+	AT_M4DIR=m4 eaclocal
+	eautoconf
+}
+
+src_configure() {
+	#	--with-system-tre \
+	# tre is patched from upstream
+	econf \
+		--enable-byte-compiled-packages \
+		--enable-R-shlib \
+		--disable-R-framework \
+		--with-system-zlib \
+		--with-system-bzlib \
+		--with-system-pcre \
+		--with-system-xz \
+		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
+		--docdir="${EPREFIX}/usr/share/doc/${PF}" \
+		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
+		$(use_enable nls) \
+		$(use_enable openmp) \
+		$(use_enable profile R-profiling) \
+		$(use_enable profile memory-profiling) \
+		$(use_enable static-libs static) \
+		$(use_enable static-libs R-static-lib) \
+		$(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) \
+		$(use_with tk tk-config "${EPREFIX}"/usr/lib/tkConfig.sh) \
+		$(use_with tk tcl-config "${EPREFIX}"/usr/lib/tclConfig.sh) \
+		$(use_with X x)
+}
+
+src_compile() {
+	export VARTEXFONTS="${T}/fonts"
+	emake AR="$(tc-getAR)"
+	emake -C src/nmath/standalone \
+		shared $(use static-libs && echo static) AR="$(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/${PF}/html/manual
+	fi
+
+	cat > 99R <<-EOF
+		LDPATH=${R_DIR}/lib
+		R_HOME=${R_DIR}
+	EOF
+	doenvd 99R
+	newbashcomp "${WORKDIR}"/${BCP} ${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/lib/R > /dev/null
+		for mod in $(find . -name "*.dylib") ; do
+			mod=${mod#./}
+			install_name_tool -id "${EPREFIX}/usr/lib/R/${mod}" \
+				"${mod}"
+		done
+		popd > /dev/null
+	fi
+	docompress -x /usr/share/doc/${PF}/NEWS.rds
+}
+
+pkg_postinst() {
+	if use java; then
+		einfo "Re-initializing java paths for ${P}"
+		R CMD javareconf
+	fi
+}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2015-10-16 11:04 Mikle Kolyada
  0 siblings, 0 replies; 99+ messages in thread
From: Mikle Kolyada @ 2015-10-16 11:04 UTC (permalink / raw
  To: gentoo-commits

commit:     6e1c709df3180cf4ef59c151fd297df05697665e
Author:     Mikle Kolyada <zlogene <AT> gentoo <DOT> org>
AuthorDate: Fri Oct 16 11:01:50 2015 +0000
Commit:     Mikle Kolyada <zlogene <AT> gentoo <DOT> org>
CommitDate: Fri Oct 16 11:01:50 2015 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=6e1c709d

dev-lang/R: sparc stable wrt bug #556422

Package-Manager: portage-2.2.20.1

 dev-lang/R/R-3.2.2.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-3.2.2.ebuild b/dev-lang/R/R-3.2.2.ebuild
index 2aba25e..9ad8572 100644
--- a/dev-lang/R/R-3.2.2.ebuild
+++ b/dev-lang/R/R-3.2.2.ebuild
@@ -15,7 +15,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 hppa ia64 ~ppc ppc64 ~sparc x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="amd64 hppa ia64 ~ppc ppc64 sparc x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2015-09-27  7:27 Jeroen Roovers
  0 siblings, 0 replies; 99+ messages in thread
From: Jeroen Roovers @ 2015-09-27  7:27 UTC (permalink / raw
  To: gentoo-commits

commit:     f1012b3339465e4d9b047422516f1d3b481ff622
Author:     Jeroen Roovers <jer <AT> gentoo <DOT> org>
AuthorDate: Sun Sep 27 07:27:44 2015 +0000
Commit:     Jeroen Roovers <jer <AT> gentoo <DOT> org>
CommitDate: Sun Sep 27 07:27:44 2015 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=f1012b33

dev-lang/R: Stable for HPPA PPC64 (bug #556422).

Package-Manager: portage-2.2.20.1
RepoMan-Options: --ignore-arches

 dev-lang/R/R-3.2.2.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-3.2.2.ebuild b/dev-lang/R/R-3.2.2.ebuild
index b38b37b..2aba25e 100644
--- a/dev-lang/R/R-3.2.2.ebuild
+++ b/dev-lang/R/R-3.2.2.ebuild
@@ -15,7 +15,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 ~hppa ia64 ~ppc ~ppc64 ~sparc x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="amd64 hppa ia64 ~ppc ppc64 ~sparc x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2015-09-26 17:22 Mikle Kolyada
  0 siblings, 0 replies; 99+ messages in thread
From: Mikle Kolyada @ 2015-09-26 17:22 UTC (permalink / raw
  To: gentoo-commits

commit:     1a42d38f3f3897412d67da5f03de417317e363b5
Author:     Mikle Kolyada <zlogene <AT> gentoo <DOT> org>
AuthorDate: Sat Sep 26 17:17:08 2015 +0000
Commit:     Mikle Kolyada <zlogene <AT> gentoo <DOT> org>
CommitDate: Sat Sep 26 17:17:08 2015 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=1a42d38f

dev-lang/R: ia64 stable wrt bug #556422

Package-Manager: portage-2.2.20.1

 dev-lang/R/R-3.2.2.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-3.2.2.ebuild b/dev-lang/R/R-3.2.2.ebuild
index c3aa035..b38b37b 100644
--- a/dev-lang/R/R-3.2.2.ebuild
+++ b/dev-lang/R/R-3.2.2.ebuild
@@ -15,7 +15,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 ~hppa ~ia64 ~ppc ~ppc64 ~sparc x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="amd64 ~hppa ia64 ~ppc ~ppc64 ~sparc x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2015-09-25 14:13 Agostino Sarubbo
  0 siblings, 0 replies; 99+ messages in thread
From: Agostino Sarubbo @ 2015-09-25 14:13 UTC (permalink / raw
  To: gentoo-commits

commit:     a4d52b76258c134fa6a3e99b5804457e878c82a0
Author:     Agostino Sarubbo <ago <AT> gentoo <DOT> org>
AuthorDate: Fri Sep 25 14:12:10 2015 +0000
Commit:     Agostino Sarubbo <ago <AT> gentoo <DOT> org>
CommitDate: Fri Sep 25 14:12:10 2015 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=a4d52b76

dev-lang/R: x86 stable wrt bug #556422

Package-Manager: portage-2.2.20.1
RepoMan-Options: --include-arches="x86"

 dev-lang/R/R-3.2.2.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-3.2.2.ebuild b/dev-lang/R/R-3.2.2.ebuild
index 9a460e7..c3aa035 100644
--- a/dev-lang/R/R-3.2.2.ebuild
+++ b/dev-lang/R/R-3.2.2.ebuild
@@ -15,7 +15,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="amd64 ~hppa ~ia64 ~ppc ~ppc64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="amd64 ~hppa ~ia64 ~ppc ~ppc64 ~sparc x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2015-09-24 14:00 Agostino Sarubbo
  0 siblings, 0 replies; 99+ messages in thread
From: Agostino Sarubbo @ 2015-09-24 14:00 UTC (permalink / raw
  To: gentoo-commits

commit:     b47f304859a7678a002ec17141f702cab521e7f6
Author:     Agostino Sarubbo <ago <AT> gentoo <DOT> org>
AuthorDate: Thu Sep 24 14:00:46 2015 +0000
Commit:     Agostino Sarubbo <ago <AT> gentoo <DOT> org>
CommitDate: Thu Sep 24 14:00:46 2015 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=b47f3048

dev-lang/R: amd64 stable wrt bug #556422

Package-Manager: portage-2.2.20.1
RepoMan-Options: --include-arches="amd64"

 dev-lang/R/R-3.2.2.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/dev-lang/R/R-3.2.2.ebuild b/dev-lang/R/R-3.2.2.ebuild
index a0087cb..9a460e7 100644
--- a/dev-lang/R/R-3.2.2.ebuild
+++ b/dev-lang/R/R-3.2.2.ebuild
@@ -15,7 +15,7 @@ SRC_URI="
 
 LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
 SLOT="0"
-KEYWORDS="~amd64 ~hppa ~ia64 ~ppc ~ppc64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+KEYWORDS="amd64 ~hppa ~ia64 ~ppc ~ppc64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
 IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
 REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
 


^ permalink raw reply related	[flat|nested] 99+ messages in thread

* [gentoo-commits] repo/gentoo:master commit in: dev-lang/R/
@ 2015-08-20 14:31 Denis Dupeyron
  0 siblings, 0 replies; 99+ messages in thread
From: Denis Dupeyron @ 2015-08-20 14:31 UTC (permalink / raw
  To: gentoo-commits

commit:     62c5566932d9ac00b42ed1c3aef4a1a032f9c34a
Author:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
AuthorDate: Thu Aug 20 14:30:40 2015 +0000
Commit:     Denis Dupeyron <calchan <AT> gentoo <DOT> org>
CommitDate: Thu Aug 20 14:30:40 2015 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=62c55669

dev-lang/R: bump to 3.2.2

Gentoo-Bug: 557600

Package-Manager: portage-2.2.20.1

 dev-lang/R/Manifest       |   1 +
 dev-lang/R/R-3.2.2.ebuild | 206 ++++++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 207 insertions(+)

diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest
index d6134ee..be5008e 100644
--- a/dev-lang/R/Manifest
+++ b/dev-lang/R/Manifest
@@ -5,3 +5,4 @@ DIST R-3.1.0.tar.gz 28469975 SHA256 8a680390f84c58c01dcdefd682eaa0e90389f09e6d2f
 DIST R-3.1.1.tar.gz 28606569 SHA256 ce5c4d5e34414ce8f1ec2d5642861435fa1ddc4cd89bd336172bbe25a62c7a19 SHA512 a75d8b82645bd9486873669b802924448d591013076e3d7dc958502dc6f0dac7d7fb78f3921d34a1eac1383f141b6e800f4293f7fac09651e0176cf84c431af9 WHIRLPOOL ec05c70193a229cbaf15f3432853070c6666c3963a4e2719a6d8ff188bfc2cada0d1f2fe90a9dd6b43f46913138afed0be387ba73b7f9c4d87abc362cc8a5393
 DIST R-3.1.2.tar.gz 28655941 SHA256 bcd150afcae0e02f6efb5f35a6ab72432be82e849ec52ce0bb89d8c342a8fa7a SHA512 fee20cd94d14bd46cc36fb265ed4d64f44eaa3929dd13c62d29a5883fde607aba63e28a4b0f265ede63f78788996deaee36acf6a70cc0bc90a705c9782be01a1 WHIRLPOOL f02d543c0fd7e89e63aba844b7c0f651a9a6bb5dbfcd58bdb64b49d08335c3270383eb62291b9f2f20ef6ec9f39eef5cf77ae1af3109296f8b1898227cca99d1
 DIST R-3.2.0.tar.gz 29124927 SHA256 f5ae953f18ba6f3d55b46556bbbf73441350f9fd22625402b723a2b81ff64f35 SHA512 c6041c854251d51dd936d3a3632c2958a0437c58488f93e5ba810e957fb7f2276e3fe4f615fb4705f2fc5a66aa50a828b54b5e4e7b4358c7fd465c71531b9828 WHIRLPOOL e21a65b9197a202691dbe903b441caf7d8b92efdffb86dcccdbf09d080177cfd472a54d381df1cca749937434ffb9c08ac74198457e320353207cd00837e1086
+DIST R-3.2.2.tar.gz 29772864 SHA256 9c9152e74134b68b0f3a1c7083764adc1cb56fd8336bec003fd0ca550cd2461d SHA512 71ba470875262b9f00fb6970f209788df4dad30e0a28373b824b60d8bc6401afb7786e65387663c6490c7ddcd2bfd7f808a270a3e63238f3d7565d5f93607138 WHIRLPOOL fea59929ada1d67dafc6ad89409d18ad173af7990384033f490a00e0f794d9919aecf7cd37089d105fe03b9cf64d079e5d148622571cec3eb924c1c5bd00081e

diff --git a/dev-lang/R/R-3.2.2.ebuild b/dev-lang/R/R-3.2.2.ebuild
new file mode 100644
index 0000000..12ad83e
--- /dev/null
+++ b/dev-lang/R/R-3.2.2.ebuild
@@ -0,0 +1,206 @@
+# Copyright 1999-2015 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=5
+
+inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib versionator toolchain-funcs
+
+BCP=${PN}-20130129.bash_completion
+DESCRIPTION="Language and environment for statistical computing and graphics"
+HOMEPAGE="http://www.r-project.org/"
+SRC_URI="
+	mirror://cran/src/base/R-3/${P}.tar.gz
+	http://dev.gentoo.org/~bicatali/distfiles/${BCP}.bz2"
+
+LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1"
+SLOT="0"
+KEYWORDS="~amd64 ~hppa ~ia64 ~ppc ~ppc64 ~sparc ~x86 ~x86-fbsd ~amd64-linux ~x86-linux ~x64-macos"
+IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs tiff tk X"
+REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )"
+
+CDEPEND="
+	app-arch/bzip2:0=
+	app-arch/xz-utils:0=
+	app-text/ghostscript-gpl
+	>=dev-libs/libpcre-8.35:3=
+	virtual/blas:0
+	|| ( >=sys-apps/coreutils-8.15 sys-freebsd/freebsd-bin app-misc/realpath )
+	cairo? ( x11-libs/cairo:0=[X] x11-libs/pango:0= )
+	icu? ( dev-libs/icu:= )
+	jpeg? ( virtual/jpeg:0 )
+	lapack? ( virtual/lapack:0 )
+	perl? ( dev-lang/perl )
+	png? ( media-libs/libpng:0= )
+	readline? ( sys-libs/readline:0= )
+	tiff? ( media-libs/tiff:0= )
+	tk? ( dev-lang/tk:0= )
+	X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )"
+
+DEPEND="${CDEPEND}
+	virtual/pkgconfig
+	doc? (
+		virtual/latex-base
+		dev-texlive/texlive-fontsrecommended
+	)"
+
+RDEPEND="${CDEPEND}
+	( || ( <sys-libs/zlib-1.2.5.1-r1:0 >=sys-libs/zlib-1.2.5.1-r2:0[minizip] ) )
+	java? ( >=virtual/jre-1.5 )"
+
+RESTRICT="minimal? ( test )"
+
+R_DIR="${EROOT%/}/usr/$(get_libdir)/${PN}"
+
+pkg_setup() {
+	if use openmp; then
+		if [[ $(tc-getCC) == *gcc ]] && ! tc-has-openmp; then
+			ewarn "OpenMP is not available in your current selected gcc"
+			die "need openmp capable gcc"
+		fi
+		FORTRAN_NEED_OPENMP=1
+	fi
+	fortran-2_pkg_setup
+	filter-ldflags -Wl,-Bdirect -Bdirect
+	# avoid using existing R installation
+	unset R_HOME
+	# Temporary fix for bug #419761
+	if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then
+		append-flags -fno-ipa-cp-clone
+	fi
+}
+
+src_prepare() {
+	epatch \
+		"${FILESDIR}"/${PN}-2.11.1-parallel.patch \
+		"${FILESDIR}"/${PN}-2.13.1-zlib_header_fix.patch \
+		"${FILESDIR}"/${PN}-3.0.0-rmath-shared.patch
+
+	# fix packages.html for doc (gentoo bug #205103)
+	sed -i \
+		-e "s:../../../library:../../../../$(get_libdir)/R/library:g" \
+		src/library/tools/R/Rd.R || die
+
+	# fix Rscript path when installed (gentoo bug #221061)
+	sed -i \
+		-e "s:-DR_HOME='\"\$(rhome)\"':-DR_HOME='\"${R_DIR}\"':" \
+		src/unix/Makefile.in || die "sed unix Makefile failed"
+
+	# fix HTML links to manual (gentoo bug #273957)
+	sed -i \
+		-e 's:\.\./manual/:manual/:g' \
+		$(grep -Flr ../manual/ doc) || die "sed for HTML links failed"
+
+	use lapack && \
+		export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)"
+
+	if use X; then
+		export R_BROWSER="$(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 (OS X)
+	if use prefix; then
+		if [[ ${CHOST} == *-darwin* ]] ; then
+			sed -i \
+				-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/" \
+				configure.ac || die
+			# sort of "undo" 2.14.1-rmath-shared.patch
+			sed -i \
+				-e "s:-Wl,-soname=libRmath.so:-install_name ${EROOT%/}/usr/$(get_libdir)/libRmath.dylib:" \
+				src/nmath/standalone/Makefile.in || die
+		else
+			append-ldflags -Wl,-rpath="${EROOT%/}/usr/$(get_libdir)/R/lib"
+		fi
+	fi
+	AT_M4DIR=m4 eaclocal
+	eautoconf
+}
+
+src_configure() {
+	#	--with-system-tre \
+	# tre is patched from upstream
+	econf \
+		--enable-byte-compiled-packages \
+		--enable-R-shlib \
+		--disable-R-framework \
+		--with-system-zlib \
+		--with-system-bzlib \
+		--with-system-pcre \
+		--with-system-xz \
+		--with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \
+		--docdir="${EPREFIX}/usr/share/doc/${PF}" \
+		rdocdir="${EPREFIX}/usr/share/doc/${PF}" \
+		$(use_enable nls) \
+		$(use_enable openmp) \
+		$(use_enable profile R-profiling) \
+		$(use_enable profile memory-profiling) \
+		$(use_enable static-libs static) \
+		$(use_enable static-libs R-static-lib) \
+		$(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) \
+		$(use_with tk tk-config "${EPREFIX}"/usr/lib/tkConfig.sh) \
+		$(use_with tk tcl-config "${EPREFIX}"/usr/lib/tclConfig.sh) \
+		$(use_with X x)
+}
+
+src_compile() {
+	export VARTEXFONTS="${T}/fonts"
+	emake AR="$(tc-getAR)"
+	emake -C src/nmath/standalone \
+		shared $(use static-libs && echo static) AR="$(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/${PF}/html/manual
+	fi
+
+	cat > 99R <<-EOF
+		LDPATH=${R_DIR}/lib
+		R_HOME=${R_DIR}
+	EOF
+	doenvd 99R
+	newbashcomp "${WORKDIR}"/${BCP} ${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/lib/R > /dev/null
+		for mod in $(find . -name "*.dylib") ; do
+			mod=${mod#./}
+			install_name_tool -id "${EPREFIX}/usr/lib/R/${mod}" \
+				"${mod}"
+		done
+		popd > /dev/null
+	fi
+	docompress -x /usr/share/doc/${PF}/NEWS.rds
+}
+
+pkg_postinst() {
+	if use java; then
+		einfo "Re-initializing java paths for ${P}"
+		R CMD javareconf
+	fi
+}


^ permalink raw reply related	[flat|nested] 99+ messages in thread

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2022-11-22  7:57 Sam James
2022-10-26 22:16 Sam James
2022-09-01  9:19 David Seifert
2022-09-01  8:47 Agostino Sarubbo
2022-08-30 16:09 Sam James
2022-08-30 11:48 Arthur Zamarin
2022-08-30 11:09 Arthur Zamarin
2022-07-13 18:12 David Seifert
2022-06-19  8:09 David Seifert
2022-06-19  8:09 David Seifert
2022-06-13 21:07 Jakov Smolić
2022-06-12  8:32 Agostino Sarubbo
2022-06-12  8:28 Agostino Sarubbo
2022-06-10 21:38 Jakov Smolić
2022-06-01 15:10 Michael Orlitzky
2022-06-01  5:25 Sam James
2022-05-11 12:49 David Seifert
2022-05-10 20:06 Arthur Zamarin
2022-05-08  9:33 Jakov Smolić
2022-05-08  9:15 Jakov Smolić
2022-05-07 22:31 Michael Orlitzky
2022-03-21 22:07 Patrice Clement
2022-01-26 10:10 David Seifert
2021-10-23 14:24 David Seifert
2021-08-06 13:34 Sam James
2021-07-18  2:48 Sam James
2021-07-16 11:52 Benda XU
2021-07-12 17:37 Michael Orlitzky
2021-07-12 14:11 Michael Orlitzky
2021-07-10 17:28 Sam James
2021-06-06 18:00 Pacho Ramos
2021-04-20 11:06 David Seifert
2021-04-11 18:41 Sergei Trofimovich
2021-04-10 13:33 Mikle Kolyada
2021-03-28 19:44 Sam James
2021-03-28 11:00 Sam James
2021-03-19 18:07 Mikle Kolyada
2021-03-05 13:46 Mikle Kolyada
2020-12-13 16:59 Fabian Groffen
2020-06-22 23:38 Michael Orlitzky
2020-05-24  5:04 Mark Wright
2020-04-28 15:34 Michael Orlitzky
2020-04-18  1:33 Michael Orlitzky
2020-03-25 15:13 Michael Orlitzky
2020-03-25 15:13 Michael Orlitzky
2020-01-13  9:49 Mark Wright
2020-01-13  9:49 Mark Wright
2019-10-16 12:43 Jeroen Roovers
2019-07-26 20:41 Aaron Bauman
2019-06-04 17:47 Amy Liffey
2019-06-04 17:47 Amy Liffey
2019-04-07 10:00 Mark Wright
2018-10-12 12:43 Mikle Kolyada
2018-09-27 18:33 Sergei Trofimovich
2018-09-18  1:09 Matt Turner
2018-07-04  0:10 Mark Wright
2018-07-03  0:48 Mark Wright
2018-04-19 20:19 Mikle Kolyada
2018-04-18 21:04 Sergei Trofimovich
2017-07-27 21:19 Denis Dupeyron
2017-07-11 19:30 Justin Lecher
2016-12-08 16:35 Denis Dupeyron
2016-09-12 20:24 Denis Dupeyron
2016-09-12 19:47 Denis Dupeyron
2016-09-12 19:38 Denis Dupeyron
2016-06-24  2:58 Denis Dupeyron
2016-05-08 16:08 Denis Dupeyron
2016-05-08 15:03 Denis Dupeyron
2016-04-20 18:05 Denis Dupeyron
2016-03-15 19:59 Denis Dupeyron
2016-01-04 18:24 Denis Dupeyron
2015-10-16 11:04 Mikle Kolyada
2015-09-27  7:27 Jeroen Roovers
2015-09-26 17:22 Mikle Kolyada
2015-09-25 14:13 Agostino Sarubbo
2015-09-24 14:00 Agostino Sarubbo
2015-08-20 14:31 Denis Dupeyron

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