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@ -1,11 +1,14 @@
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Name: R
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Version: 2.5.1
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Release: 3%{?dist}
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Version: 2.8.0
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Release: 2%{?dist}
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Summary: A language for data analysis and graphics
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URL: http://www.r-project.org
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Source0: ftp://cran.r-project.org/pub/R/src/base/R-2/R-%{version}.tar.gz
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Source1: macros.R
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Source2: R-make-search-index.sh
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Patch1: R-2.7.2-filter_asoption.patch
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# fix bzlib2 detection, sent upstream 10-26-2008
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Patch2: R-2.8.0-HAVE_BZLIB_H.patch
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License: GPLv2+
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Group: Applications/Engineering
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BuildRoot: %{_tmppath}/%{name}-%{version}-%{release}-root-%(%{__id_u} -n)
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@ -16,49 +19,70 @@ BuildRequires: tcl-devel, tk-devel, ncurses-devel
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BuildRequires: blas >= 3.0, pcre-devel, zlib-devel
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BuildRequires: java-1.5.0-gcj, lapack-devel
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BuildRequires: libSM-devel, libX11-devel, libICE-devel, libXt-devel
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BuildRequires: bzip2-devel, libXmu-devel
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BuildRequires: bzip2-devel, libXmu-devel, cairo-devel, libtiff-devel
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BuildRequires: gcc-objc
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Requires: evince, cups, firefox
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# R-devel will pull in R-core
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Requires: R-devel = %{version}-%{release}
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# libRmath-devel will pull in libRmath
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Requires: libRmath-devel = %{version}-%{release}
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# These are the submodules that R provides. Sometimes R modules say they
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# depend on one of these submodules rather than just R. These are
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# provided for packager convenience.
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%description
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This is a metapackage that provides both core R userspace and
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all R development components.
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R is a language and environment for statistical computing and graphics.
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R is similar to the award-winning S system, which was developed at
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Bell Laboratories by John Chambers et al. It provides a wide
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variety of statistical and graphical techniques (linear and
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nonlinear modelling, statistical tests, time series analysis,
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classification, clustering, ...).
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R is designed as a true computer language with control-flow
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constructions for iteration and alternation, and it allows users to
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add additional functionality by defining new functions. For
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computationally intensive tasks, C, C++ and Fortran code can be linked
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and called at run time.
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%package core
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Summary: The minimal R components necessary for a functional runtime
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Group: Applications/Engineering
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Requires: xdg-utils, cups
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# These are the submodules that R-core provides. Sometimes R modules say they
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# depend on one of these submodules rather than just R. These are provided for
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# packager convenience.
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Provides: R-base = %{version}
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Provides: R-boot = 1.2
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Provides: R-class = %{version}
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Provides: R-cluster = 1.11.7
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Provides: R-codetools = 0.1
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Provides: R-class = 7.2
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Provides: R-cluster = 1.11.11
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Provides: R-codetools = 0.2
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Provides: R-datasets = %{version}
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Provides: R-foreign = 0.8
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Provides: R-graphics = %{version}
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Provides: R-grDevices = %{version}
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Provides: R-grid = %{version}
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Provides: R-KernSmooth = 2.22
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Provides: R-lattice = 0.15
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Provides: R-MASS = %{version}
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Provides: R-lattice = 0.17
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Provides: R-MASS = 7.2
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Provides: R-methods = %{version}
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Provides: R-mgcv = 1.3
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Provides: R-mgcv = 1.4
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Provides: R-nlme = 3.1
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Provides: R-nnet = %{version}
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Provides: R-rcompgen = 0.1
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Provides: R-nnet = 7.2
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Provides: R-rpart = 3.1
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Provides: R-spatial = %{version}
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Provides: R-spatial = 7.2
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Provides: R-splines = %{version}
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Provides: R-stats = %{version}
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Provides: R-stats4 = %{version}
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Provides: R-survival = 2.32
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Provides: R-survival = 2.34
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Provides: R-tcltk = %{version}
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Provides: R-tools = %{version}
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Provides: R-utils = %{version}
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Provides: R-VR = 7.2
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# Temporary fix to avoid the SNAFU of the 0.fdr.2.* release
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Conflicts: R-devel < %{version}-%{release}
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%description
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A language and environment for statistical computing and graphics.
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R is similar to the award-winning S system, which was developed at
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Bell Laboratories by John Chambers et al. It provides a wide
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%description core
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A language and environment for statistical computing and graphics.
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R is similar to the award-winning S system, which was developed at
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Bell Laboratories by John Chambers et al. It provides a wide
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variety of statistical and graphical techniques (linear and
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nonlinear modelling, statistical tests, time series analysis,
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classification, clustering, ...).
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@ -72,12 +96,12 @@ and called at run time.
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%package devel
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Summary: files for development of R packages.
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Group: Applications/Engineering
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Requires: R = %{version}
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Requires: R-core = %{version}-%{release}
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# You need all the BuildRequires for the development version
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Requires: gcc-c++, gcc-gfortran, tetex-latex, texinfo
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Requires: libpng-devel, libjpeg-devel, readline-devel, ncurses-devel
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Requires: libSM-devel, libX11-devel, libICE-devel, libXt-devel
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Requires: bzip2-devel, libXmu-devel
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Requires: bzip2-devel, libXmu-devel, cairo-devel, libtiff-devel
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Requires: tcl-devel, tk-devel, pkgconfig
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%description devel
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@ -103,21 +127,66 @@ and header files.
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%prep
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%setup -q
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%patch1 -p1 -b .filter-little-out
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%patch2 -p1 -b .BZLIB_H
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# Filter false positive provides.
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cat <<EOF > %{name}-prov
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#!/bin/sh
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%{__perl_provides} \
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| grep -v 'File::Copy::Recursive' | grep -v 'Text::DelimMatch'
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EOF
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%define __perl_provides %{_builddir}/R-%{version}/%{name}-prov
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chmod +x %{__perl_provides}
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# Filter unwanted Requires:
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cat << \EOF > %{name}-req
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#!/bin/sh
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%{__perl_requires} \
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| grep -v 'perl(Text::DelimMatch)'
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EOF
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%define __perl_requires %{_builddir}/R-%{version}/%{name}-req
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chmod +x %{__perl_requires}
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%build
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# Add PATHS to Renviron for R_LIBS
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echo 'R_LIBS=${R_LIBS-'"'%{_libdir}/R/library:%{_datadir}/R/library'"'}' >> etc/Renviron.in
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export R_PDFVIEWER="%{_bindir}/evince"
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export R_PDFVIEWER="%{_bindir}/xdg-open"
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export R_PRINTCMD="lpr"
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export R_BROWSER="%{_bindir}/firefox"
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export F77="gfortran"
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export R_BROWSER="%{_bindir}/xdg-open"
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case "%{_target_cpu}" in
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x86_64|mips64|ppc64|powerpc64|sparc64|s390x)
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export CC="gcc -m64"
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export CXX="g++ -m64"
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export F77="gfortran -m64"
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export FC="gfortran -m64"
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;;
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ia64|alpha|sh*)
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export CC="gcc"
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export CXX="g++"
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export F77="gfortran"
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export FC="gfortran"
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;;
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*)
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export CC="gcc -m32"
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export CXX="g++ -m32"
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export F77="gfortran -m32"
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export FC="gfortran -m32"
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;;
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esac
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export FCFLAGS="%{optflags}"
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( %configure \
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--with-system-zlib --with-system-bzlib --with-system-pcre \
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--with-lapack \
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--with-tcl-config=%{_libdir}/tclConfig.sh \
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--with-tk-config=%{_libdir}/tkConfig.sh \
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--enable-R-shlib )\
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--enable-R-shlib \
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rdocdir=%{_docdir}/R-%{version} \
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rincludedir=%{_includedir}/R \
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rsharedir=%{_datadir}/R) \
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| grep -A30 'R is now' - > CAPABILITIES
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make
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(cd src/nmath/standalone; make)
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@ -126,39 +195,13 @@ make pdf
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make info
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%install
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%makeinstall rhome=${RPM_BUILD_ROOT}%{_libdir}/R install-info
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make DESTDIR=${RPM_BUILD_ROOT} install install-info install-pdf
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rm -f ${RPM_BUILD_ROOT}%{_infodir}/dir
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rm -f ${RPM_BUILD_ROOT}%{_infodir}/dir.old
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install -p CAPABILITIES ${RPM_BUILD_ROOT}%{_docdir}/R-%{version}
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#Install libRmath files
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(cd src/nmath/standalone; make install \
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includedir=${RPM_BUILD_ROOT}%{_includedir} \
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libdir=${RPM_BUILD_ROOT}%{_libdir})
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#Fix location of R_HOME_DIR in shell wrapper.
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#
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sed -e "s@R_HOME_DIR=.*@R_HOME_DIR=%{_libdir}/R@" < bin/R \
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> ${RPM_BUILD_ROOT}%{_libdir}/R/bin/R
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sed -e "s@R_HOME_DIR=.*@R_HOME_DIR=%{_libdir}/R@" < bin/R \
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> ${RPM_BUILD_ROOT}%{_bindir}/R
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chmod 755 ${RPM_BUILD_ROOT}%{_libdir}/R/bin/R
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chmod 755 ${RPM_BUILD_ROOT}%{_bindir}/R
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# Get rid of buildroot in script
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for i in $RPM_BUILD_ROOT%{_libdir}/R/bin/Rscript $RPM_BUILD_ROOT%{_bindir}/Rscript $RPM_BUILD_ROOT%{_libdir}/pkgconfig/libR*.pc;
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do
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sed -i "s|$RPM_BUILD_ROOT||g" $i;
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done
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# Remove package indices. They are rebuilt by the postinstall script.
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#
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rm -f ${RPM_BUILD_ROOT}%{_libdir}/R/doc/html/function.html
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rm -f ${RPM_BUILD_ROOT}%{_libdir}/R/doc/html/packages.html
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rm -f ${RPM_BUILD_ROOT}%{_libdir}/R/doc/html/search/index.txt
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# Some doc files are also installed. We don't need them
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(cd %{buildroot}%{_libdir}/R;
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rm -f AUTHORS COPYING COPYING.LIB COPYRIGHTS FAQ NEWS ONEWS RESOURCES THANKS)
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(cd src/nmath/standalone; make install DESTDIR=${RPM_BUILD_ROOT})
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mkdir -p $RPM_BUILD_ROOT/etc/ld.so.conf.d
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echo "%{_libdir}/R/lib" > $RPM_BUILD_ROOT/etc/ld.so.conf.d/%{name}-%{_arch}.conf
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@ -173,36 +216,55 @@ install -m0644 %{SOURCE1} $RPM_BUILD_ROOT%{_sysconfdir}/rpm/
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mkdir -p $RPM_BUILD_ROOT/usr/lib/rpm/
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install -m0755 %{SOURCE2} $RPM_BUILD_ROOT/usr/lib/rpm/
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# Fix multilib
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touch -r NEWS ${RPM_BUILD_ROOT}%{_docdir}/R-%{version}/CAPABILITIES
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touch -r NEWS doc/manual/*.pdf
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touch -r NEWS $RPM_BUILD_ROOT%{_bindir}/R
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# Fix html/packages.html
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# We can safely use RHOME here, because all of these are system packages.
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sed -i 's|\..\/\..|%{_libdir}/R|g' $RPM_BUILD_ROOT%{_docdir}/R-%{version}/html/packages.html
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for i in $RPM_BUILD_ROOT%{_libdir}/R/library/*/html/*.html; do
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sed -i 's|\..\/\..\/..\/doc|%{_docdir}/R-%{version}|g' $i
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done
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%files
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%defattr(-, root, root)
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# Metapackage
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%files core
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%defattr(-, root, root, -)
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%{_bindir}/R
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%{_bindir}/Rscript
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%{_datadir}/R
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%{_libdir}/R
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%dir %{_libdir}/R
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%{_libdir}/R/bin
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%{_libdir}/R/etc
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%{_libdir}/R/lib
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%{_libdir}/R/library
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%{_libdir}/R/modules
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%{_libdir}/R/COPYING
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%{_libdir}/R/NEWS
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%{_libdir}/R/SVN-REVISION
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/usr/lib/rpm/R-make-search-index.sh
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%{_infodir}/R-*.info*
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%{_sysconfdir}/rpm/macros.R
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%{_mandir}/man1/*
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%{_docdir}/R-%{version}
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%docdir %{_docdir}/R-%{version}
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/etc/ld.so.conf.d/*
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%doc doc/AUTHORS CAPABILITIES doc/COPYING doc/COPYING.LIB doc/COPYRIGHTS doc/FAQ NEWS
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%doc ONEWS README doc/RESOURCES doc/THANKS VERSION
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%doc doc/manual/R-admin.pdf
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%doc doc/manual/R-FAQ.pdf
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%doc doc/manual/R-lang.pdf
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%doc doc/manual/R-data.pdf
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%doc doc/manual/R-intro.pdf
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%files devel
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|
%defattr(-, root, root)
|
|
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|
%doc doc/manual/R-exts.pdf
|
|
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|
|
%defattr(-, root, root, -)
|
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|
%{_libdir}/pkgconfig/libR.pc
|
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|
%{_includedir}/R
|
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|
|
|
|
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|
|
%files -n libRmath
|
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|
|
%defattr(-, root, root)
|
|
|
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|
%defattr(-, root, root, -)
|
|
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|
%{_libdir}/libRmath.so
|
|
|
|
|
|
|
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|
%files -n libRmath-devel
|
|
|
|
|
%defattr(-, root, root)
|
|
|
|
|
%defattr(-, root, root, -)
|
|
|
|
|
%{_libdir}/libRmath.a
|
|
|
|
|
%{_includedir}/Rmath.h
|
|
|
|
|
%{_libdir}/pkgconfig/libRmath.pc
|
|
|
|
|
@ -210,7 +272,7 @@ install -m0755 %{SOURCE2} $RPM_BUILD_ROOT/usr/lib/rpm/
|
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|
|
%clean
|
|
|
|
|
rm -rf ${RPM_BUILD_ROOT};
|
|
|
|
|
|
|
|
|
|
%post
|
|
|
|
|
%post core
|
|
|
|
|
# Create directory entries for info files
|
|
|
|
|
# (optional doc files, so we must check that they are installed)
|
|
|
|
|
for doc in admin exts FAQ intro lang; do
|
|
|
|
|
@ -220,14 +282,20 @@ for doc in admin exts FAQ intro lang; do
|
|
|
|
|
fi
|
|
|
|
|
done
|
|
|
|
|
/sbin/ldconfig
|
|
|
|
|
R CMD javareconf > /dev/null 2>&1 || exit 0
|
|
|
|
|
|
|
|
|
|
# Update package indices
|
|
|
|
|
%{_bindir}/R CMD perl %{_libdir}/R/share/perl/build-help.pl --htmllists > /dev/null 2>/dev/null
|
|
|
|
|
%__cat %{_libdir}/R/library/*/CONTENTS > %{_libdir}/R/doc/html/search/index.txt 2>/dev/null
|
|
|
|
|
# This could fail if there are no noarch R libraries on the system.
|
|
|
|
|
%__cat %{_datadir}/R/library/*/CONTENTS >> %{_libdir}/R/doc/html/search/index.txt 2>/dev/null || exit 0
|
|
|
|
|
%__cat %{_libdir}/R/library/*/CONTENTS > %{_docdir}/R-%{version}/html/search/index.txt 2>/dev/null
|
|
|
|
|
# Don't use .. based paths, substitute RHOME
|
|
|
|
|
sed -i "s!../../..!%{_libdir}/R!g" %{_docdir}/R-%{version}/html/search/index.txt
|
|
|
|
|
|
|
|
|
|
%preun
|
|
|
|
|
# This could fail if there are no noarch R libraries on the system.
|
|
|
|
|
%__cat %{_datadir}/R/library/*/CONTENTS >> %{_docdir}/R-%{version}/html/search/index.txt 2>/dev/null || exit 0
|
|
|
|
|
# Don't use .. based paths, substitute /usr/share/R
|
|
|
|
|
sed -i "s!../../..!/usr/share/R!g" %{_docdir}/R-%{version}/html/search/index.txt
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
%preun core
|
|
|
|
|
if [ $1 = 0 ]; then
|
|
|
|
|
# Delete directory entries for info files (if they were installed)
|
|
|
|
|
for doc in admin exts FAQ intro lang; do
|
|
|
|
|
@ -236,13 +304,9 @@ if [ $1 = 0 ]; then
|
|
|
|
|
/sbin/install-info --delete R-${doc} %{_infodir}/dir 2>/dev/null || :
|
|
|
|
|
fi
|
|
|
|
|
done
|
|
|
|
|
# Remove package indices
|
|
|
|
|
%__rm -f %{_libdir}/R/doc/html/function.html
|
|
|
|
|
%__rm -f %{_libdir}/R/doc/html/packages.html
|
|
|
|
|
%__rm -f %{_libdir}/R/doc/html/search/index.txt
|
|
|
|
|
fi
|
|
|
|
|
|
|
|
|
|
%postun
|
|
|
|
|
%postun core
|
|
|
|
|
/sbin/ldconfig
|
|
|
|
|
|
|
|
|
|
%post -n libRmath
|
|
|
|
|
@ -252,6 +316,85 @@ fi
|
|
|
|
|
/sbin/ldconfig
|
|
|
|
|
|
|
|
|
|
%changelog
|
|
|
|
|
* Sun Oct 26 2008 Tom "spot" Callaway <tcallawa@redhat.com> 2.8.0-2
|
|
|
|
|
- enable libtiff interface
|
|
|
|
|
|
|
|
|
|
* Sun Oct 26 2008 Tom "spot" Callaway <tcallawa@redhat.com> 2.8.0-1
|
|
|
|
|
- Update to 2.8.0
|
|
|
|
|
- New subpackage layout: R-core is functional userspace, R is metapackage
|
|
|
|
|
requiring everything
|
|
|
|
|
- Fix system bzip2 detection
|
|
|
|
|
|
|
|
|
|
* Thu Oct 16 2008 Tom "spot" Callaway <tcallawa@redhat.com> 2.7.2-2
|
|
|
|
|
- fix sh compile (bz 464055)
|
|
|
|
|
|
|
|
|
|
* Fri Aug 29 2008 Tom "spot" Callaway <tcallawa@redhat.com> 2.7.2-1
|
|
|
|
|
- update to 2.7.2
|
|
|
|
|
- fix spec for alpha compile (bz 458931)
|
|
|
|
|
- fix security issue in javareconf script (bz 460658)
|
|
|
|
|
|
|
|
|
|
* Mon Jul 7 2008 Tom "spot" Callaway <tcallawa@redhat.com> 2.7.1-1
|
|
|
|
|
- update to 2.7.1
|
|
|
|
|
|
|
|
|
|
* Wed May 28 2008 Tom "spot" Callaway <tcallawa@redhat.com> 2.7.0-5
|
|
|
|
|
- add cairo-devel to BR/R, so that cairo backend gets built
|
|
|
|
|
|
|
|
|
|
* Wed May 21 2008 Tom "spot" Callaway <tcallawa@redhat.com> 2.7.0-4
|
|
|
|
|
- fixup sed invocation added in -3
|
|
|
|
|
- make -devel package depend on base R = version-release
|
|
|
|
|
- fix bad paths in package html files
|
|
|
|
|
|
|
|
|
|
* Wed May 21 2008 Tom "spot" Callaway <tcallawa@redhat.com> 2.7.0-3
|
|
|
|
|
- fix poorly constructed file paths in html/packages.html (bz 442727)
|
|
|
|
|
|
|
|
|
|
* Tue May 13 2008 Tom "spot" Callaway <tcallawa@redhat.com> 2.7.0-2
|
|
|
|
|
- add patch from Martyn Plummer to avoid possible bad path hardcoding in
|
|
|
|
|
/usr/bin/Rscript
|
|
|
|
|
- properly handle ia64 case (bz 446181)
|
|
|
|
|
|
|
|
|
|
* Mon Apr 28 2008 Tom "spot" Callaway <tcallawa@redhat.com> 2.7.0-1
|
|
|
|
|
- update to 2.70
|
|
|
|
|
- rcompgen is no longer a standalone package
|
|
|
|
|
- redirect javareconf to /dev/null (bz 442366)
|
|
|
|
|
|
|
|
|
|
* Fri Feb 8 2008 Tom "spot" Callaway <tcallawa@redhat.com> 2.6.2-1
|
|
|
|
|
- properly version the items in the VR bundle
|
|
|
|
|
- 2.6.2
|
|
|
|
|
- don't use setarch for java setup
|
|
|
|
|
- fix R post script file
|
|
|
|
|
|
|
|
|
|
* Thu Jan 31 2008 Tom "spot" Callaway <tcallawa@redhat.com> 2.6.1-4
|
|
|
|
|
- multilib handling (thanks Martyn Plummer)
|
|
|
|
|
- Update indices in the right place.
|
|
|
|
|
|
|
|
|
|
* Mon Jan 7 2008 Tom "spot" Callaway <tcallawa@redhat.com> 2.6.1-3
|
|
|
|
|
- move INSTALL back into R main package, as it is useful without the
|
|
|
|
|
other -devel bits (e.g. installing noarch package from CRAN)
|
|
|
|
|
|
|
|
|
|
* Tue Dec 11 2007 Tom "spot" Callaway <tcallawa@redhat.com> 2.6.1-2
|
|
|
|
|
- based on changes from Martyn Plummer <martyn.plummer@r-project.org>
|
|
|
|
|
- use configure options rdocdir, rincludedir, rsharedir
|
|
|
|
|
- use DESTDIR at installation
|
|
|
|
|
- remove obsolete generation of packages.html
|
|
|
|
|
- move header files and INSTALL R-devel package
|
|
|
|
|
|
|
|
|
|
* Mon Nov 26 2007 Tom "spot" Callaway <tcallawa@redhat.com> 2.6.1-1
|
|
|
|
|
- bump to 2.6.1
|
|
|
|
|
|
|
|
|
|
* Tue Oct 30 2007 Tom "spot" Callaway <tcallawa@redhat.com> 2.6.0-3.1
|
|
|
|
|
- fix missing perl requires
|
|
|
|
|
|
|
|
|
|
* Mon Oct 29 2007 Tom "spot" Callaway <tcallawa@redhat.com> 2.6.0-3
|
|
|
|
|
- fix multilib conflicts (bz 343061)
|
|
|
|
|
|
|
|
|
|
* Mon Oct 29 2007 Tom "spot" Callaway <tcallawa@redhat.com> 2.6.0-2
|
|
|
|
|
- add R CMD javareconf to post (bz 354541)
|
|
|
|
|
- don't pickup bogus perl provides (bz 356071)
|
|
|
|
|
- use xdg-open, drop requires for firefox/evince (bz 351841)
|
|
|
|
|
|
|
|
|
|
* Thu Oct 4 2007 Tom "spot" Callaway <tcallawa@redhat.com> 2.6.0-1
|
|
|
|
|
- bump to 2.6.0
|
|
|
|
|
|
|
|
|
|
* Sun Aug 26 2007 Tom "spot" Callaway <tcallawa@redhat.com> 2.5.1-3
|
|
|
|
|
- fix license tag
|
|
|
|
|
- rebuild for ppc32
|
|
|
|
|
|
Fedora Release Engineering
Bill Nottingham
Tom Callaway