Update of /cvsroot/fink/dists/10.4/stable/main/finkinfo/sci
In directory vz-cvs-3.sog:/tmp/cvs-serv3898
Modified Files:
rpy2-py.info
Added Files:
r-base214.info r-base214.patch
Log Message:
New upstream version of R
Index: rpy2-py.info
===================================================================
RCS file: /cvsroot/fink/dists/10.4/stable/main/finkinfo/sci/rpy2-py.info,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -d -r1.1 -r1.2
--- rpy2-py.info 30 Nov 2010 21:54:49 -0000 1.1
+++ rpy2-py.info 5 Nov 2011 04:55:06 -0000 1.2
@@ -1,30 +1,34 @@
Info2: <<
Package: rpy2-py%type_pkg[python]
-Version: 2.1.4
-Revision: 1
+Version: 2.2.2
+Revision: 3
Description: Python module to access R functions
License: OSI-Approved
Homepage: http://rpy.sourceforge.net/rpy2.html
-Maintainer: Monic Polynomial <[email protected]>
+Maintainer: BABA Yoshihiko <[email protected]>
-Type: python (2.4 2.5 2.6 2.7)
-Distribution: <<
-(%type_pkg[python] = 24) 10.4,
-<<
+Type: python (2.6 2.7)
+Distribution: 10.7, 10.6, 10.5, 10.4
-BuildDepends: fink (>= 0.24.12-1)
-Depends: python%type_pkg[python], r-base (>= 2.7.0), numpy-py%type_pkg[python]
(>= 1.3.0-7)
+BuildDepends: fink (>= 0.24.12-1), r-base214-dev
+Depends: python%type_pkg[python], r-base214-shlibs, numpy-py%type_pkg[python]
(>= 1.3.0-7)
Source: http://pypi.python.org/packages/source/r/rpy2/rpy2-%v.tar.gz
-Source-MD5: cf4e0d80ba498a6d76f107531966478d
+Source-MD5: 7690d8fa747e62cd27cfacfa45f4a07b
PatchFile: %{ni}.patch
-PatchFile-MD5: 011d3974f5ba8a1c0daafe1b0ed5717c
+PatchFile-MD5: 6c378419172db1aeaea29d6c821b8421
+PatchScript: sed 's|@PREFIX@|%p|g' < %{PatchFile} | patch -p1
-CompileScript: %p/bin/python%type_raw[python] setup.py build
+SetLDFLAGS: -L%p/Library/Frameworks/R.framework/Versions/2.14/Resources/lib
-undefined dynamic_lookup
+
+CompileScript: <<
+#!/bin/bash -ev
+ %p/bin/python%type_raw[python] setup.py build
--r-home=%p/Library/Frameworks/R.framework/Versions/2.14/Resources
+<<
InstallScript: <<
- export RHOMES='%p/Library/Frameworks/R.framework/Resources'
- %p/bin/python%type_raw[python] setup.py install --root %d
+#!/bin/bash -ev
+ %p/bin/python%type_raw[python] setup.py install --prefix=%p --exec-prefix=%i
--install-data=%i/lib/python%type_raw[python] --no-compile
<<
DocFiles: AUTHORS GPL_LICENSE LGPL_LICENSE MPL_LICENSE NEWS PKG-INFO README
--- NEW FILE: r-base214.patch ---
diff -ruN R-2.14.0-orig/Makeconf.in R-2.14.0/Makeconf.in
--- R-2.14.0-orig/Makeconf.in 2011-11-02 08:47:48.000000000 +0900
+++ R-2.14.0/Makeconf.in 2011-11-02 21:03:21.000000000 +0900
@@ -85,7 +85,7 @@
READLINE_LIBS = @READLINE_LIBS@
SED = @SED@
SHELL = @R_SHELL@
-SHLIB_EXT = @SHLIB_EXT@
+SHLIB_EXT = .dylib
SHLIB_CFLAGS = @SHLIB_CFLAGS@
SHLIB_FFLAGS = @SHLIB_FFLAGS@
SHLIB_LD = @SHLIB_LD@
diff -ruN R-2.14.0-orig/Makefile.fw R-2.14.0/Makefile.fw
--- R-2.14.0-orig/Makefile.fw 2011-11-02 08:47:48.000000000 +0900
+++ R-2.14.0/Makefile.fw 2011-11-02 20:09:37.000000000 +0900
@@ -8,7 +8,7 @@
install install-strip: install-R-framework
@(sed 's|^LIBR =.*|LIBR = -F$(R_FRAMEWORK_DIR)/.. -framework
R|' \
- $(top_builddir)/etc/Makeconf >
"$(rhome)/etc${R_ARCH}/Makeconf")
+ $(top_builddir)/etc/Makeconf >
"$(DESTDIR)$(R_FRAMEWORK_DIR)/Resources/etc${R_ARCH}/Makeconf")
@(sed 's/Versions\/$(FW_VERSION)\/Resources/Resources/' \
"$(DESTDIR)$(R_FRAMEWORK_DIR)/Resources/bin/R" > \
"$(DESTDIR)$(R_FRAMEWORK_DIR)/Resources/bin/RR")
@@ -37,7 +37,7 @@
ln -f -s -n Versions/Current/Resources Resources)
@## the resulting libR will point dyld to the fat libR regardless of
its origin
@(cd "$(DESTDIR)$(R_FRAMEWORK_DIR)/Resources/lib" && \
- install_name_tool -id
"$(R_FRAMEWORK_DIR)/Versions/$(FW_VERSION)/Resources/lib/libR.dylib"
$(Rexeclibdir)/libR.dylib)
+ install_name_tool -id
"$(R_FRAMEWORK_DIR)/Versions/$(FW_VERSION)/Resources/lib/libR.dylib"
$(DESTDIR)$(Rexeclibdir)/libR.dylib)
@( otool=otool ; if otool -D "$(DESTDIR)$(Rexeclibdir)/libR.dylib"|grep
'not an object'>/dev/null; then otool=otool64; fi; \
for lib in Rlapack Rblas R; do \
if test -e "$(DESTDIR)$(Rexeclibdir)/lib$${lib}.dylib"; then $(ECHO)
" lib$${lib}"; \
diff -ruN R-2.14.0-orig/configure R-2.14.0/configure
--- R-2.14.0-orig/configure 2011-11-02 08:47:48.000000000 +0900
+++ R-2.14.0/configure 2011-11-02 21:40:35.000000000 +0900
@@ -25708,7 +25708,7 @@
main_ld="${CC}"
shlib_ld="${CC}"
shlib_cxxld="${CXX}"
-SHLIB_EXT=".so"
+SHLIB_EXT=".dylib"
SHLIB_LIBADD=
use_exportfiles=no
--- NEW FILE: r-base214.info ---
Info2: <<
Package: r-base214
Version: 2.14.0
Revision: 1
Description: R Framework
Maintainer: BABA Yoshihiko <[email protected]>
Depends: %N-shlibs (=%v-%r)
BuildDepends: fink (>= 0.28.1), gcc46, bzip2-dev, libgettext8-dev,
libiconv-dev, libncurses5, libjpeg8, libpng14, pcre, readline5, tcltk-dev,
x11-dev
Source: http://cran.r-project.org/src/base/R-2/R-%v.tar.gz
Source-MD5: 98cf8fe74e512e1061caf1ee0c2043a8
PatchFile: %n.patch
PatchFile-MD5: 12411f83aaad527430793b5cea47f17b
# PatchScript: sed 's|@PREFIX@|%p|g' < %{PatchFile} | patch -p1
SourceDirectory: R-%v
ConfigureParams: <<
--prefix=%p \
--exec-prefix=%i \
--mandir='${prefix}/share/man' \
--with-blas="-framework vecLib -dylib_file
/System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libLAPACK.dylib:/System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libLAPACK.dylib"
\
--with-lapack \
--with-aqua --enable-R-framework=%p/Library/Frameworks \
--with-system-bzlib --with-system-pcre --with-system-zlib \
--with-x --x-includes=/usr/X11R6/include --x-libraries=/usr/X11R6/lib \
--with-tcl-config=%p/lib/tclConfig.sh --with-tk-config=%p/lib/tkConfig.sh
<<
CompileScript: <<
#!/bin/sh -efv
# Workaround for 10.7
FW_VER=`echo %v | sed -e's/[\.][0-9]$//'`
if [[ $( sw_vers -productVersion ) > 10.7 ]]; then
# export CC=gcc-fsf-4.6
# export CXX=g++-fsf-4.6
export CC=/usr/bin/clang
export CXX=/usr/bin/clang++
export F77=%p/bin/gfortran-fsf-4.6
fi
unset R_HOME
./configure %c
make
<<
InfoTest: <<
TestScript: make -k check
<<
InstallScript: <<
#!/bin/sh -ex
FW_VER=`echo %v | sed -e's/[\.][0-9]$//'`
# prefix=%i/Library/Frameworks
make install DESTDIR=%d
cd %i
# Fix path
perl -pi -e 's|%i|%p|g' Library/Frameworks/R.framework/Resources/bin/R
if [[ $( sw_vers -productVersion ) > 10.5 ]]; then
perl -pi -e 's|# export PATH|export PATH|'
Library/Frameworks/R.framework/Resources/bin/R
fi
# Fix install_name in libR.dylib
install_name_tool -id
"%p/Library/Frameworks/R.framework/Versions/$FW_VER/Resources/lib/libR.dylib"
Library/Frameworks/R.framework/Versions/$FW_VER/Resources/lib/libR.dylib
# Move site-library out of R
pushd Library/Frameworks/R.framework/Resources/
ln -s %p/lib/R/site-library site-library
popd
# Make more version specific symlink
pushd Library/Frameworks/R.framework/Versions/
ln -s $FW_VER %v
popd
# Fix install names in libs and modules
pushd Library/Frameworks/R.framework/Versions/$FW_VER/Resources/library/
LIBS="class cluster foreign grDevices grid KernSmooth lattice MASS Matrix
methods mgcv nlme nnet rpart spatial splines stats survival tcltk tools "
for LIB in $LIBS;
do
install_name_tool -id
%p/Library/Frameworks/R.framework/Versions/$FW_VER/Resources/library/$LIB/libs/$LIB.dylib
$LIB/libs/$LIB.dylib
done
popd
pushd Library/Frameworks/R.framework/Versions/$FW_VER/Resources/modules
install_name_tool -id
%p/Library/Frameworks/R.framework/Versions/$FW_VER/Resources/modules/internet.dylib
internet.dylib
install_name_tool -id
%p/Library/Frameworks/R.framework/Versions/$FW_VER/Resources/modules/lapack.dylib
lapack.dylib
install_name_tool -id
%p/Library/Frameworks/R.framework/Versions/$FW_VER/Resources/modules/R_X11.dylib
R_X11.dylib
install_name_tool -id
%p/Library/Frameworks/R.framework/Versions/$FW_VER/Resources/modules/vfonts.dylib
vfonts.dylib
popd
mkdir -p bin
pushd bin
ln -s %p/Library/Frameworks/R.framework/Versions/$FW_VER/Resources/bin/R R
popd
mkdir -p share/man/man1
pushd share/man/man1
ln -s %p/Library/Frameworks/R.framework/Versions/$FW_VER/Resources/man1/R.1
R.1
popd
# Keep the library folder safe. Users can install their libraries in
$HOME/Library/R.
chmod 555 Library/Frameworks/R.framework/Resources/library
# Satisfy validation
rm -rf
Library/Frameworks/R.framework/Versions/2.14/Resources/library/Matrix/include
<<
RunTimeVars: <<
R_HOME: %p/Library/Frameworks/R.framework/Resources
<<
SplitOff: <<
Package: %N-shlibs
Description: R Libraries
Depends: gcc46, bzip2-shlibs, libgettext8-shlibs, libiconv, libjpeg8-shlibs,
libpng14-shlibs, pcre-shlibs, readline5-shlibs, tcltk
Files: <<
Library/Frameworks/R.framework/Versions/2.14/Resources/lib
Library/Frameworks/R.framework/Versions/2.14/Resources/library
Library/Frameworks/R.framework/Versions/2.14/Resources/modules
<<
Shlibs: <<
%p/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libR.dylib
2.14.0 %n (>= 2.14.0-1)
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/library/class/libs/class.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/library/cluster/libs/cluster.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/library/foreign/libs/foreign.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/library/grDevices/libs/grDevices.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/library/grid/libs/grid.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/library/KernSmooth/libs/KernSmooth.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/library/lattice/libs/lattice.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/library/MASS/libs/MASS.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Matrix/libs/Matrix.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/library/methods/libs/methods.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/library/mgcv/libs/mgcv.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/library/nlme/libs/nlme.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/library/nnet/libs/nnet.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/library/rpart/libs/rpart.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/library/spatial/libs/spatial.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/library/splines/libs/splines.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/library/stats/libs/stats.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/library/survival/libs/survival.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/library/tcltk/libs/tcltk.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/library/tools/libs/tools.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/modules/internet.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/modules/lapack.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/modules/R_X11.dylib
!%p/Library/Frameworks/R.framework/Versions/2.14/Resources/modules/vfonts.dylib
<<
<<
SplitOff2: <<
Package: %N-dev
Description: R Headers
Depends: %N-shlibs (=%v-%r)
BuildDependsOnly: True
Files: <<
Library/Frameworks/R.framework/Versions/2.14/Resources/include
Library/Frameworks/R.framework/Versions/2.14/Headers
<<
<<
SplitOff3: <<
Package: r-base
Description: Language and environment for statistical computing and graphics
Depends: %N (=%v-%r)
Files: <<
Library/Frameworks/R.framework/R
Library/Frameworks/R.framework/Headers
Library/Frameworks/R.framework/Libraries
Library/Frameworks/R.framework/PrivateHeaders
Library/Frameworks/R.framework/Resources
Library/Frameworks/R.framework/Versions/Current
bin
share
<<
<<
DescDetail: <<
R is similar to S, which was developed at Bell Laboratories by John
Chambers et al. It provides a wide variety of statistical and
graphical techniques (linear and nonlinear modelling, statistical
tests, time series analysis, classification, clustering, ...). R is
designed as a true computer language with control-flow constructions
for iteration and alternation, and it allows users to add additional
functionality by defining new functions. For computationally intensive
tasks, C and Fortran code can be linked and called at run time.
The "recommended" R packages are now included in the distribution, so
there is no longer a need for a r-recommended package. If you already
have installed an earlier version of r-recommended, remove it before
installing this package.
Builds R Framework, installs in %p/Library/Frameworks.
R.app no longer included in the R source distribution. To install, go
to http://cran.r-project.org/bin/macosx/, download and install R-GUI.dmg.
You will then need to edit Info.plist inside the app bundle to point
to %p/Library/R.Framework (instead of /Library/R.Framework).
<<
DescPackaging: 'pdflatex' is needed to make NEWS.pdf
License: GPL
Homepage: http://cran.R-project.org/
<<
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