1 |
commit: c50d7c8594743247a9df75e21ad0dd6dc3747911 |
2 |
Author: Mark Wright <gienah <AT> gentoo <DOT> org> |
3 |
AuthorDate: Sun May 24 05:00:04 2020 +0000 |
4 |
Commit: Mark Wright <gienah <AT> gentoo <DOT> org> |
5 |
CommitDate: Sun May 24 05:00:04 2020 +0000 |
6 |
URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=c50d7c85 |
7 |
|
8 |
dev-lang/R: Thanks to Neil for help with bump to 4.0.0 |
9 |
|
10 |
Closes: https://bugs.gentoo.org/719210 |
11 |
Package-Manager: Portage-2.3.99, Repoman-2.3.22 |
12 |
Signed-off-by: Mark Wright <gienah <AT> gentoo.org> |
13 |
|
14 |
dev-lang/R/Manifest | 1 + |
15 |
dev-lang/R/R-4.0.0.ebuild | 234 ++++++++++++++++++++++++++++++++++++++++++++++ |
16 |
2 files changed, 235 insertions(+) |
17 |
|
18 |
diff --git a/dev-lang/R/Manifest b/dev-lang/R/Manifest |
19 |
index 7fd12a8b015..18eb82e449d 100644 |
20 |
--- a/dev-lang/R/Manifest |
21 |
+++ b/dev-lang/R/Manifest |
22 |
@@ -1,3 +1,4 @@ |
23 |
DIST R-3.4.1.tar.gz 30200109 BLAKE2B 03602e9a48759caee8ce047fa6273df7a54af089de4489e21953c0e3fc7bfdf720d924f1e0167d3dbf65f63ed42ac10dea8b45289b921cda1c0e6d25a0063ebb SHA512 19bd50c87dc001ef947c15c1760f27ac8986ff6b43c6d90d3093ae184e42963027ef06faf31ec57ac9e519af7a35a2f53f8ea23ef75d800ebbd02945cedc4651 |
24 |
DIST R-3.6.3.tar.gz 33308185 BLAKE2B f82751e21d3b502132f8f27d4fc47a921fb085a50c3da3b45e08fbbdd1ab3d42e89b4fa6653a570c21176d79f492277b1d0b86c3c9f4da1386d8b6e4771d4d2c SHA512 9b1dc78922e431bd1af81e6e560b10ad04d121718f680fed32db735d561fd40ea6028759976722db11559f1a78fe684119b766f0567128cb2ee5003aa87a0931 |
25 |
+DIST R-4.0.0.tar.gz 33173947 BLAKE2B 6b67ba5b008f1fd3d5fa3c92805c1e206ece64e821124e3b2d6f72a550ed8084699916b88d41dcc1985b57a286518dcf63d240503aeb2ae7fe31e66c0d30396d SHA512 fa8b684fd0c8a1c9784b8e0e749b34141e513a83d4f3b6792cdf97826264191e7484f6705014974c9268570e717e1a1d39f6a88225fc751189b6f51e1a303163 |
26 |
DIST R-78d6830e28ea90a046da79a9b4f70c39594bb6d6.bash_completion 13596 BLAKE2B 53338e4a1c4f68beb69247216e553dbcac47f660fbf032bfebf7a660e32d2cff5b11ed35411c52de7e1fd6e00bbf5b5ea19369a325fa0a38bd93d63dc3288cbd SHA512 9ccd19bb1b0c18a2f13035ccd6809447429e197e298fb4d1df808ef345d723b42f75a1b91c349f6dbb46e4a82e59ef33e11300c495d79b63d670d0c0f2b16a06 |
27 |
|
28 |
diff --git a/dev-lang/R/R-4.0.0.ebuild b/dev-lang/R/R-4.0.0.ebuild |
29 |
new file mode 100644 |
30 |
index 00000000000..64a0a4e0b49 |
31 |
--- /dev/null |
32 |
+++ b/dev-lang/R/R-4.0.0.ebuild |
33 |
@@ -0,0 +1,234 @@ |
34 |
+# Copyright 1999-2020 Gentoo Authors |
35 |
+# Distributed under the terms of the GNU General Public License v2 |
36 |
+ |
37 |
+EAPI=7 |
38 |
+ |
39 |
+inherit bash-completion-r1 autotools eutils flag-o-matic fortran-2 multilib toolchain-funcs |
40 |
+ |
41 |
+# latest git commit for R bash completion: https://github.com/deepayan/rcompletion |
42 |
+BCPV=78d6830e28ea90a046da79a9b4f70c39594bb6d6 |
43 |
+ |
44 |
+DESCRIPTION="Language and environment for statistical computing and graphics" |
45 |
+HOMEPAGE="http://www.r-project.org/" |
46 |
+SRC_URI=" |
47 |
+ mirror://cran/src/base/R-4/${P}.tar.gz |
48 |
+ https://raw.githubusercontent.com/deepayan/rcompletion/${BCPV}/bash_completion/R -> ${PN}-${BCPV}.bash_completion" |
49 |
+ |
50 |
+LICENSE="|| ( GPL-2 GPL-3 ) LGPL-2.1" |
51 |
+SLOT="0" |
52 |
+KEYWORDS="~amd64 ~arm64 ~hppa ~ia64 ~sparc ~x86 ~amd64-linux ~x86-linux ~x64-macos" |
53 |
+IUSE="cairo doc icu java jpeg lapack minimal nls openmp perl png prefix profile readline static-libs test tiff tk X" |
54 |
+REQUIRED_USE="png? ( || ( cairo X ) ) jpeg? ( || ( cairo X ) ) tiff? ( || ( cairo X ) )" |
55 |
+ |
56 |
+# At least one package installation in the test suite requires TeX, |
57 |
+# and will fail without it (bug #718056). |
58 |
+BDEPEND="virtual/pkgconfig |
59 |
+ doc? ( |
60 |
+ virtual/latex-base |
61 |
+ dev-texlive/texlive-fontsrecommended |
62 |
+ ) |
63 |
+ test? ( virtual/latex-base )" |
64 |
+DEPEND=" |
65 |
+ app-arch/bzip2:0= |
66 |
+ app-arch/xz-utils:0= |
67 |
+ app-text/ghostscript-gpl |
68 |
+ dev-libs/libpcre:3= |
69 |
+ net-libs/libtirpc |
70 |
+ net-misc/curl |
71 |
+ virtual/blas:0 |
72 |
+ || ( sys-apps/coreutils app-misc/realpath ) |
73 |
+ cairo? ( x11-libs/cairo:0=[X=] x11-libs/pango:0= ) |
74 |
+ icu? ( dev-libs/icu:= ) |
75 |
+ jpeg? ( virtual/jpeg:0 ) |
76 |
+ lapack? ( virtual/lapack:0 ) |
77 |
+ perl? ( dev-lang/perl ) |
78 |
+ png? ( media-libs/libpng:0= ) |
79 |
+ readline? ( sys-libs/readline:0= ) |
80 |
+ tiff? ( media-libs/tiff:0= ) |
81 |
+ tk? ( dev-lang/tk:0= ) |
82 |
+ X? ( x11-libs/libXmu:0= x11-misc/xdg-utils )" |
83 |
+ |
84 |
+RDEPEND="${DEPEND} |
85 |
+ sys-libs/zlib:0[minizip] |
86 |
+ java? ( >=virtual/jre-1.5 )" |
87 |
+ |
88 |
+RESTRICT="minimal? ( test ) |
89 |
+ !test? ( test )" |
90 |
+ |
91 |
+PATCHES=( |
92 |
+ "${FILESDIR}"/${PN}-3.4.1-parallel.patch |
93 |
+ "${FILESDIR}"/${PN}-3.4.1-rmath-shared.patch |
94 |
+ "${FILESDIR}"/${PN}-3.6.2-no-LDFLAGS-in-libR-pkg-config.patch |
95 |
+ "${FILESDIR}"/${PN}-3.6.2-no-gzip-doc.patch |
96 |
+) |
97 |
+ |
98 |
+pkg_pretend() { |
99 |
+ [[ ${MERGE_TYPE} != binary ]] && use openmp && tc-check-openmp |
100 |
+} |
101 |
+ |
102 |
+pkg_setup() { |
103 |
+ if [[ ${MERGE_TYPE} != binary ]] && use openmp; then |
104 |
+ FORTRAN_NEED_OPENMP=1 |
105 |
+ fi |
106 |
+ fortran-2_pkg_setup |
107 |
+ filter-ldflags -Wl,-Bdirect -Bdirect |
108 |
+ # avoid using existing R installation |
109 |
+ unset R_HOME |
110 |
+ # Temporary fix for bug #419761 |
111 |
+ if [[ ($(tc-getCC) == *gcc) && ($(gcc-version) == 4.7) ]]; then |
112 |
+ append-flags -fno-ipa-cp-clone |
113 |
+ fi |
114 |
+} |
115 |
+ |
116 |
+src_prepare() { |
117 |
+ default |
118 |
+ |
119 |
+ # fix packages.html for doc (gentoo bug #205103) |
120 |
+ sed -e "s:../../../library:../../../../$(get_libdir)/R/library:g" \ |
121 |
+ -i src/library/tools/R/Rd.R || die |
122 |
+ |
123 |
+ # fix Rscript path when installed (gentoo bug #221061) |
124 |
+ sed -e "s:-DR_HOME='\"\$(rhome)\"':-DR_HOME='\"${EROOT}/usr/$(get_libdir)/${PN}\"':" \ |
125 |
+ -i src/unix/Makefile.in || die "sed unix Makefile failed" |
126 |
+ |
127 |
+ # fix HTML links to manual (gentoo bug #273957) |
128 |
+ sed -e 's:\.\./manual/:manual/:g' \ |
129 |
+ -i $(grep -Flr ../manual/ doc) || die "sed for HTML links failed" |
130 |
+ |
131 |
+ use lapack && \ |
132 |
+ export LAPACK_LIBS="$($(tc-getPKG_CONFIG) --libs lapack)" |
133 |
+ |
134 |
+ if use X; then |
135 |
+ export R_BROWSER="$(type -p xdg-open)" |
136 |
+ export R_PDFVIEWER="$(type -p xdg-open)" |
137 |
+ fi |
138 |
+ use perl && \ |
139 |
+ export PERL5LIB="${S}/share/perl:${PERL5LIB:+:}${PERL5LIB}" |
140 |
+ |
141 |
+ # don't search /usr/local |
142 |
+ sed -i -e '/FLAGS=.*\/local\//c\: # removed by ebuild' configure.ac || die |
143 |
+ # Fix for Darwin (OS X) |
144 |
+ if use prefix; then |
145 |
+ if [[ ${CHOST} == *-darwin* ]] ; then |
146 |
+ sed -e 's:-install_name libR.dylib:-install_name ${libdir}/R/lib/libR.dylib:' \ |
147 |
+ -e 's:-install_name libRlapack.dylib:-install_name ${libdir}/R/lib/libRlapack.dylib:' \ |
148 |
+ -e 's:-install_name libRblas.dylib:-install_name ${libdir}/R/lib/libRblas.dylib:' \ |
149 |
+ -e "/SHLIB_EXT/s/\.so/.dylib/" \ |
150 |
+ -i configure.ac || die |
151 |
+ # sort of "undo" 2.14.1-rmath-shared.patch |
152 |
+ sed -e "s:-Wl,-soname=libRmath.so:-install_name ${EROOT}/usr/$(get_libdir)/libRmath.dylib:" \ |
153 |
+ -i src/nmath/standalone/Makefile.in || die |
154 |
+ else |
155 |
+ append-ldflags -Wl,-rpath="${EROOT}/usr/$(get_libdir)/R/lib" |
156 |
+ fi |
157 |
+ fi |
158 |
+ AT_M4DIR=m4 |
159 |
+ eautoreconf |
160 |
+} |
161 |
+ |
162 |
+src_configure() { |
163 |
+ # --with-system-tre \ |
164 |
+ # tre is patched from upstream |
165 |
+ econf \ |
166 |
+ --enable-byte-compiled-packages \ |
167 |
+ --enable-R-shlib \ |
168 |
+ --disable-R-framework \ |
169 |
+ --with-blas="$($(tc-getPKG_CONFIG) --libs blas)" \ |
170 |
+ rdocdir="${EPREFIX}/usr/share/doc/${PF}" \ |
171 |
+ $(use_enable java) \ |
172 |
+ $(use_enable nls) \ |
173 |
+ $(use_enable openmp) \ |
174 |
+ $(use_enable profile R-profiling) \ |
175 |
+ $(use_enable profile memory-profiling) \ |
176 |
+ $(use_enable static-libs static) \ |
177 |
+ $(use_enable static-libs R-static-lib) \ |
178 |
+ $(use_with cairo) \ |
179 |
+ $(use_with icu ICU) \ |
180 |
+ $(use_with jpeg jpeglib) \ |
181 |
+ $(use_with lapack) \ |
182 |
+ $(use_with !minimal recommended-packages) \ |
183 |
+ $(use_with png libpng) \ |
184 |
+ $(use_with readline) \ |
185 |
+ $(use_with tiff libtiff) \ |
186 |
+ $(use_with tk tcltk) \ |
187 |
+ $(use_with tk tk-config "${EPREFIX}"/usr/$(get_libdir)/tkConfig.sh) \ |
188 |
+ $(use_with tk tcl-config "${EPREFIX}"/usr/$(get_libdir)/tclConfig.sh) \ |
189 |
+ $(use_with X x) |
190 |
+} |
191 |
+ |
192 |
+src_compile() { |
193 |
+ export VARTEXFONTS="${T}/fonts" |
194 |
+ emake AR="$(tc-getAR)" |
195 |
+ emake -C src/nmath/standalone \ |
196 |
+ shared $(use static-libs && echo static) AR="$(tc-getAR)" |
197 |
+ use doc && emake info pdf |
198 |
+} |
199 |
+ |
200 |
+src_install() { |
201 |
+ default |
202 |
+ emake -j1 -C src/nmath/standalone DESTDIR="${D}" install |
203 |
+ |
204 |
+ if use doc; then |
205 |
+ emake DESTDIR="${D}" install-info install-pdf |
206 |
+ dosym ../manual /usr/share/doc/${PF}/html/manual |
207 |
+ fi |
208 |
+ |
209 |
+ cat > 99R <<-EOF |
210 |
+ LDPATH=${EROOT}/usr/$(get_libdir)/${PN}/lib |
211 |
+ R_HOME=${EROOT}/usr/$(get_libdir)/${PN} |
212 |
+ EOF |
213 |
+ doenvd 99R |
214 |
+ newbashcomp "${DISTDIR}"/${PN}-${BCPV}.bash_completion ${PN} |
215 |
+ # The buildsystem has a different understanding of install_names than |
216 |
+ # we require. Since it builds modules like shared objects (wrong), many |
217 |
+ # objects (all modules) get an incorrect install_name. Fixing the build |
218 |
+ # system here is not really trivial. |
219 |
+ if [[ ${CHOST} == *-darwin* ]] ; then |
220 |
+ local mod |
221 |
+ pushd "${ED}"/usr/$(get_libdir)/R > /dev/null |
222 |
+ for mod in $(find . -name "*.dylib") ; do |
223 |
+ mod=${mod#./} |
224 |
+ install_name_tool -id "${EPREFIX}/usr/$(get_libdir)/R/${mod}" \ |
225 |
+ "${mod}" |
226 |
+ done |
227 |
+ popd > /dev/null |
228 |
+ fi |
229 |
+ |
230 |
+ # Users are encouraged to access some of the the R documentation |
231 |
+ # interactively, through functions like "contributors()" that |
232 |
+ # tries to open the "AUTHORS" file. Other files can be accessed |
233 |
+ # by name with RShowDoc(), and the documentation for e.g. license() |
234 |
+ # and RShowDoc() suggests a few of these names. Here we try to |
235 |
+ # collect as many names as possible that a user might actually |
236 |
+ # try to view through R, because if we don't decompress them, |
237 |
+ # then R doesn't know what to do with 'em. Bug #556706. |
238 |
+ INTERACTIVE_DOCS=( |
239 |
+ AUTHORS |
240 |
+ COPYING |
241 |
+ FAQ |
242 |
+ NEWS |
243 |
+ THANKS |
244 |
+ ) |
245 |
+ |
246 |
+ # Other data sources that are shipped as "documentation," but which |
247 |
+ # need to be accessible via their original unmolested filenames. |
248 |
+ INTERACTIVE_DATA=( |
249 |
+ BioC_mirrors.csv |
250 |
+ CRAN_mirrors.csv |
251 |
+ KEYWORDS.db |
252 |
+ NEWS.rds |
253 |
+ ) |
254 |
+ |
255 |
+ NOCOMPRESS_DOCS=( "${INTERACTIVE_DOCS[@]}" "${INTERACTIVE_DATA[@]}" ) |
256 |
+ |
257 |
+ for f in "${NOCOMPRESS_DOCS[@]}"; do |
258 |
+ docompress -x "/usr/share/doc/${PF}/${f}" |
259 |
+ done |
260 |
+} |
261 |
+ |
262 |
+pkg_postinst() { |
263 |
+ if use java; then |
264 |
+ einfo "Re-initializing java paths for ${P}" |
265 |
+ R CMD javareconf |
266 |
+ fi |
267 |
+} |