Re: [Apbs-users] compiling error on AMD64 cluster

[Xiaoqing W. <kit...@12...>]

Hi,
   The environmental variables and configure commands as follows:
-----------------------------------------------------------------
export CC=pgcc
export CFLAGS='-O2 -fPIC -fastsse -Bstatic'
export F77=pgf77
export FFLAGS='-O2 -fPIC -fastsse -Bstatic'

export FETK_SRC=/home/xqwang/apbs
export FETK_PREFIX=/home/xqwang/apbs/soft
export FETK_INCLUDE=${FETK_PREFIX}/include
export FETK_LIBRARY=${FETK_PREFIX}/lib

export FETK_MPI_INCLUDE=/usr/local/mpich_pg/include
export FETK_MPI_LIBRARY=/usr/local/mpich_pg/lib

compiling MALOC 
./configure --prefix=${FETK_PREFIX} --enable-mpi --disable-blas
make 
make install

compiling APBS
./configure --prefix=${FETK_PREFIX} --with-blas="-L/usr/lib64 -lblas"
make
------------------------------------------------------------------------

I compiled APBS/MALOC on p4 single cpu and found that file "apbslibc.so"
was created in apbs-0.3.2/tools/python/.

When I compile APBS on AMD64 cluster, it cannot create "apbslibc.so".
But I find that "apbs" has been created in apbs-0.3.2/bin/,so I ignore
the error and run "make install".
  Maybe there are some files in /tools cannot be used. Is it affects the
running of "apbs"?

Sincerely,
Xiaoqing

> This is a strange error -- I don't know why the code was being compiled into
> shared libraries.  Can you send me the environmental variables and configure
> command you used?
> 
> Thanks,
> 
> Nathan
> 
> --- Xiaoqing Wang <kit...@12...> wrote:
> 
> > Hi,
> >    I compile APBS following the "Source installation" section of
> > user-guide on amd64 cluster.
> >    The "make" error as follows
> > --------------------------------------------------------
> > pgf77 -O2 -fPIC -fastsse -Bstatic -o apbslibc.so -shared apbslib.o
> > ../../bin/.libs/libapbsmainroutines.a
> > ../../src/aaa_lib/.libs/libapbs.a  
> > -L/home/xqwang/apbs/apbs-0.3.2/lib     
> > -L/home/xqwang/apbs/soft/lib/x86_64-unknown-linux  -lmaloc -L/usr/lib64
> > -lblas  -L/usr/local/mpich_pg/lib -lmpich -lm -lreadline
> > -lncurses                                                                    
> >             
> > /usr/bin/ld: /usr/local/mpich_pg/lib/libmpich.a(isend.o): relocation
> > R_X86_64_32 can not be used when making a shared object; recompile with
> > -fPIC
> > /usr/local/mpich_pg/lib/libmpich.a: could not read symbols: Bad value
> > make[2]: *** [apbslibc.so] Error 2
> > make[2]: Leaving directory `/home/xqwang/apbs/apbs-0.3.2/tools/python'
> > make[1]: *** [all-recursive] Error 1
> > make[1]: Leaving directory `/home/xqwang/apbs/apbs-0.3.2/tools'
> > ------------------------------------------------------------------
> > 
> > I run "./configure --help" and find that optional features
> > "--enable-static=PKGS  build static libraries default=yes". Why it makes
> > shared object?
> > 
> > How can I solve this problem?
> > 
> > Any tips would be greatly appreciated!
> > 
> > Sincerely,
> > Xiaoqing
> > 
> > 
> > _______________________________________________
> > apbs-users mailing list
> > apb...@ch...
> > http://cholla.wustl.edu/mailman/listinfo/apbs-users
> > 
> > 
> 
> 
> --
> Assistant Professor, Dept. of Biochemistry and Molecular Biophysics
> Washington University in St. Louis
> http://cholla.wustl.edu