[R] R2.2.1-patched build failed with PGI 6.1 on x86-64

[Liaw, Andy]

For some reason I had to see my own post to realize my stupidity...

Defining PG_HOME _before_ running the configure solved the problem.  Sorry
for wasting the bandwidth.

Andy

From: Liaw, Andy
> 
> Hi All,
> 
> While attempting to build R-patched using the Portland Group 
> compiler suite on our dual Opteron 250 box running Scyld 
> 29cz5 (based on RH, kernel 2.4.29), I get:
> 
> make[5]: Leaving directory 
> `/home/andy/Rbuild/R221-pgi/src/library/tools/src'
> make[5]: Entering directory 
> `/home/andy/Rbuild/R221-pgi/src/library/tools/src'
> pgcc -I../../../../include  -I/include -I/include/CC   -fpic  
> -O2 -Kieee -c
> /home/andy/Rbuild/R-patched/src/library/tools/src/text.c -o text.o
> pgcc -I../../../../include  -I/include -I/include/CC   -fpic  
> -O2 -Kieee -c
> /home/andy/Rbuild/R-patched/src/library/tools/src/init.c -o init.o
> pgcc -I../../../../include  -I/include -I/include/CC   -fpic  
> -O2 -Kieee -c
> /home/andy/Rbuild/R-patched/src/library/tools/src/Rmd5.c -o Rmd5.o
> pgcc -I../../../../include  -I/include -I/include/CC   -fpic  
> -O2 -Kieee -c
> /home/andy/Rbuild/R-patched/src/library/tools/src/md5.c -o 
> md5.o pgcc -shared  -L/libso -L/usr/lib64 -o tools.so text.o 
> init.o Rmd5.o md5.o
> 
> mkdir -p -- ../../../../library/tools/libs
> make[5]: Leaving directory 
> `/home/andy/Rbuild/R221-pgi/src/library/tools/src'
> make[4]: Leaving directory 
> `/home/andy/Rbuild/R221-pgi/src/library/tools/src'
> **ERROR: in routine alloca() there is a
> stack overflow: thread 0, max 8180KB, used 0KB, request 16B
> make[3]: *** [all] Error 1
> make[3]: Leaving directory 
> `/home/andy/Rbuild/R221-pgi/src/library/tools'
> make[2]: *** [R] Error 1
> make[2]: Leaving directory `/home/andy/Rbuild/R221-pgi/src/library'
> make[1]: *** [R] Error 1
> make[1]: Leaving directory `/home/andy/Rbuild/R221-pgi/src'
> make: *** [R] Error 1
> 
> I configured it as follows:
> 
> ~/Rbuild/R-patched/configure \
>      PG_HOME=/usr/pgi/linux86-64/6.1 \
>      CC=pgcc \
>      CFLAGS="-O2 -Kieee" \
>      CPPFLAGS="-I$PG_HOME/include -I$PG_HOME/include/CC" \
>      CPICFLAGS=-fpic \
>      F77=pgf77 \
>      FFLAGS="-Kieee"\
>      FPICFLAGS=-fpic \
>      CXX=pgCC \
>      CXXFLAGS="-Kieee"\
>      CXXPICFLAGS=-fpic \
>      SHLIB_CXXLDFLAGS=-shared \
>      SHLIB_LDFLAGS=-shared \
>      LDFLAGS="-L$PG_HOME/libso -L/usr/lib64" \
>      --with-blas="-L/usr/pgi/linux86-64/6.1/libso -lacml"
> 
> (Note that pgcc no longer recognize -mieee-fp, so I changed 
> to -Kieee instead, and had to manually remove -mieee-fp in 
> the resulting Makeconf and
> config.status.)
> 
> I'd very much appreciate any pointer as to how to proceed...
> 
> Best,
> Andy
> 
> 
> Andy Liaw, PhD
> Biometrics Research    PO Box 2000 RY33-300
> Merck Research Labs        Rahway, NJ 07065
> andy_liaw(a)merck.com          732-594-0820
> 
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