[R-SIG-Mac] building R under Lion

[peter dalgaard]

On Aug 29, 2012, at 02:51 , Simon Urbanek wrote:

> You were on the right path - it's only about renaming vecLib to Accelerate, so you just have to apply the patch below. It is annoying, since -framework vecLib still works just fine so you don't even need to change the configure flags. The patch will in some modified form make it to R eventually.

Just to clarify: This is due to quite recent XCode changes? In my versions on Lion and Snow Leopard, Accelerate.h just #includes vecLib.h.

-p


> 
> Cheers,
> Simon
> 
> 
> Index: vecLibg95c.c
> ===================================================================
> --- vecLibg95c.c	(revision 59442)
> +++ vecLibg95c.c	(working copy)
> @@ -2,7 +2,7 @@
> #include <config.h>
> #endif
> 
> -#include <vecLib/vecLib.h>
> +#include <Accelerate/Accelerate.h>
> 
> void F77_FUNC_(rcblas_cdotu_sub,)(const int *N, const void *X, const int *incX,
>                        const void *Y, const int *incY, void *dotu) 
> 
> 
> 
> 
> 
> On Aug 28, 2012, at 5:22 PM, Kasper Daniel Hansen wrote:
> 
>> I am running Lion, with the newest version of Xcode, and the 5666
>> build of gcc+gfortran from Simon's page.  This is on Macbook pro last
>> generation, with a quad core i7.  I have installed the latest stable
>> release of Xquartz.
>> 
>> I am building R, not as a framework (--disable-framework), but I am
>> using --with-blas='-framework vecLib' which at least used to be much
>> better than the built-in BLAS.
>> 
>> My entire configure call is
>> ../${SRCDIR}/configure SHELL='/bin/bash' \
>> --prefix=/usr/local/R/R-${R_VERSION} --disable-R-framework\
>> CC="/usr/bin/gcc-4.2 -arch x86_64 -std=gnu99" \
>> CFLAGS="-g -O2 -std=gnu99 -march=nocona" \
>> CXX="/usr/bin/g++-4.2 -arch x86_64" \
>> CXXFLAGS="-g -O2 -march=nocona" \
>> OBJC="/usr/bin/gcc-4.2 -arch x86_64" \
>> F77="/usr/bin/gfortran-4.2 -arch x86_64" \
>> FFLAGS="-g -O2 -march=nocona" \
>> FC="/usr/bin/gfortran-4.2 -arch x86_64" \
>> FCFLAGS="-g -O2 -march=nocona" \
>> --enable-memory-profiling\
>> --x-includes=/usr/X11/include --x-libraries=/usr/X11/lib\
>> --with-system-zlib\
>> --with-blas='-framework vecLib' --with-lapack
>> 
>> When I build R-2.15.1-patched, I get
>> 
>> making internet.d from ../../../../R-2.15.x-src/src/modules/internet/internet.c
>> In file included from
>> ../../../../R-2.15.x-src/src/modules/lapack/vecLibg95c.c:5:
>> /System/Library/Frameworks/vecLib.framework/Headers/vecLib.h:22:4:
>> error: #error "<vecLib/vecLib.h> is deprecated.  Please #include
>> <Accelerate/Accelerate.h> and link to Accelerate.framework."
>> make[3]: *** [vecLibg95c.d] Error 1
>> make[2]: *** [make.lapack] Error 2
>> make[2]: *** Waiting for unfinished jobs....
>> making nanoftp.d from ../../../../R-2.15.x-src/src/modules/internet/nanoftp.c
>> 
>> <SNIP>
>> 
>> /usr/bin/gcc-4.2 -arch x86_64 -std=gnu99 -I. -I../../../src/include
>> -I../../../../R-2.15.x-src/src/include -I/usr/local/include
>> -DHAVE_CONFIG_H   -fopenmp -fPIC  -g -O2 -std=gnu99 -march=nocona   -c
>> ../../../../R-2.15.x-src/src/modules/internet/sockconn.c -o sockconn.o
>> /usr/bin/gcc-4.2 -arch x86_64 -std=gnu99 -dynamiclib
>> -Wl,-headerpad_max_install_names  -undefined dynamic_lookup
>> -single_module -multiply_defined suppress -L/usr/local/lib -o
>> internet.so Rhttpd.o Rsock.o internet.o nanoftp.o nanohttp.o sock.o
>> sockconn.o   -Wl,-framework -Wl,CoreFoundation
>> mkdir /Users/khansen/build/R/R-2.15.x-build/modules
>> make[1]: *** [R] Error 1
>> make: *** [R] Error 1
>> 
>> So it seems that it does not like -framework vecLib.  I tried with
>> -framework Accelerate, but I get the same error.
>> 
>> My guess is that there is some new thing I have to do here, but I
>> tried reading the admin guide for R-devel and could not see anything
>> particular (except I do not need -arch x86_64 anymore).
>> 
>> Thanks,
>> Kasper
>> 
>> _______________________________________________
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>> R-SIG-Mac at r-project.org
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>> 
>> 
> 
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-- 
Peter Dalgaard, Professor,
Center for Statistics, Copenhagen Business School
Solbjerg Plads 3, 2000 Frederiksberg, Denmark
Phone: (+45)38153501
Email: pd.mes at cbs.dk  Priv: PDalgd at gmail.com