From pgilbert at bank-banque-canada.ca  Thu May 11 22:32:29 2006
From: pgilbert at bank-banque-canada.ca (Paul Gilbert)
Date: Thu, 11 May 2006 16:32:29 -0400
Subject: [Rd] PGI 6.1 compile error
Message-ID: <44639F5D.1080101@bank-banque-canada.ca>

I am trying to compile R-2.3.0 (both first release and patched 
2006-05-10) on Red Hat Enterprise Linux AS release 3 (Taroon Update 7) 
using the Portland Group compiler version 6.1 and the notes from 
Jennifer Lai on p33 of "R Installation and Administration" version 2.3.0 
(2006-04-24). I have not used this compiler before, so it is possible 
things are messed up more than usual, even for me.

Following  the R Installation and Administration notes I set
      export PGI=/usr/pgi/linux86-64/6.1
      export PATH=$PGI/bin:$PATH
      export MANPATH=$MANPATH=$PGI/man:/
      export CC=pgcc
      export CFLAGS="-g -O2 -Kieee"
      export CPPFLAGS="-I$PGI/include -I$PGI/include/CC"
      export F77=pgf77
      export FFLAGS="-g -O2 -Kieee"
      export CXX="pgCC"
      export CXXFLAGS="-g -O2 -Kieee"
      export F95=pgf95
      export FCFLAGS="-g -O2 -Kieee"
      export SHLIB_CXXLDFLAGS=-shared
      export SHLIB_LDFLAGS=-shared
      export LDFLAGS="-L$PGI/libso -L/usr/lib64"

However, the last line causes
:../../src/R-2.3.0-patched/configure
checking build system type... x86_64-unknown-linux-gnu
checking host system type... x86_64-unknown-linux-gnu
loading site script '../../src/R-2.3.0-patched/config.site'
....
checking for gcc... pgcc
checking for C compiler default output file name... a.out
checking whether the C compiler works... configure: error: cannot run C 
compiled programs.
If you meant to cross compile, use `--host'.
See `config.log' for more details.


Either unsetting  LDFLAGS, or setting it to  "-L/usr/lib64"

.../../src/R-2.3.0-patched/configure --x-libraries=/usr/X11R6/lib64
configures but I get

checking whether C99 double complex is supported...
checking complex.h usability... no
checking complex.h presence... yes
configure: WARNING: complex.h: present but cannot be compiled
configure: WARNING: complex.h:     check for missing prerequisite headers?
configure: WARNING: complex.h: see the Autoconf documentation
configure: WARNING: complex.h:     section "Present But Cannot Be Compiled"
configure: WARNING: complex.h: proceeding with the preprocessor's result
configure: WARNING: complex.h: in the future, the compiler will take 
precedence
configure: WARNING:     ## ----------------------------------- ##
configure: WARNING:     ## Report this to r-bugs at R-project.org ##
configure: WARNING:     ## ----------------------------------- ##
checking for complex.h... yes
checking for double complex... no
no
checking for cblas_cdotu_sub in vecLib framework... no
....
R is now configured for x86_64-unknown-linux-gnu

  Source directory:          ../../src/R-2.3.0-patched
  Installation directory:    /usr/local

  C compiler:                pgcc  -g -O2 -Kieee
  Fortran 77 compiler:       pgf77  -g -O2 -Kieee

  C++ compiler:              pgCC  -g -O2 -Kieee
  Fortran 90/95 compiler:    pgf95 -g -O2 -Kieee

  Interfaces supported:      X11, tcltk
  External libraries:        readline
  Additional capabilities:   PNG, JPEG, iconv, MBCS, NLS
  Options enabled:           R profiling

  Recommended packages:      yes

configure: WARNING: you cannot build info or html versions of the R manuals


However, when I make I get

....
pgcc -shared  -L/usr/lib64 -o tools.so text.o init.o Rmd5.o md5.o   
mkdir -p -- ../../../../library/tools/libs
make[5]: Leaving directory 
`/home/mfa/gilp/toolchain/R/mfa04559/R-2.3.0PGI/src/library/tools/src'
make[4]: Leaving directory 
`/home/mfa/gilp/toolchain/R/mfa04559/R-2.3.0PGI/src/library/tools/src'
**ERROR: in routine alloca() there is a
stack overflow: thread 0, max 10228KB, used 0KB, request 16B
make[3]: *** [all] Error 1
make[3]: Leaving directory 
`/home/mfa/gilp/toolchain/R/mfa04559/R-2.3.0PGI/src/library/tools'
make[2]: *** [R] Error 1
make[2]: Leaving directory 
`/home/mfa/gilp/toolchain/R/mfa04559/R-2.3.0PGI/src/library'
make[1]: *** [R] Error 1
make[1]: Leaving directory 
`/home/mfa/gilp/toolchain/R/mfa04559/R-2.3.0PGI/src'
make: *** [R] Error 1

Any help would be appreciated.

Paul Gilbert
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[Rd] PGI 6.1 compile error
Paul Gilbert