dolfin team mailing list archive

["Garth N. Wells" <gnw20@xxxxxxxxx>]

Johannes Ring wrote:
> On Thu, August 21, 2008 14:57, Garth N. Wells wrote:
> > Johannes Ring wrote:
> > > Should be fixed now. Can you try again?
> > Mixed success. Doesn't work for Hardy, but does work for the alpha
> > version of Intrepid (inside a VM).
> >
> > There is no liblapack.so in /usr/lib/atlas, just liblapack.so.3gf, under
> > Hardy. There is a liblapack.so in /usr/lib/atlas for Intrepid.
> >
> > Somehow I have blas and lapack libs with a suffix "-3",
> >
> >    /usr/lib/lapack-3.so   -> /etc/alternatives/liblapack-3.so
> >    /usr/lib/libblas-3.so -> /etc/alternatives/libblas-3.so
> >
> > which pick up the atlas libs via /etc/alternatives/. I don't know what
> > the '-3' is supposed to mean or why it's there.
> >
> > I give up for now trying to use atlas :(.
>
> Have you installed the libatlas-base-dev package?

Yes. I see /usr/lib/atlas/liblapack.so now (not sure what happened before).

Back to the cholmod issue, now -lgfortran is also required (see below).

Garth

g++ -I/usr/include/suitesparse cholmod_config_test_include.cpp 
-L/usr/lib/atlas -llapack -L/usr/lib/atlas -lblas -L/usr/lib -lcholmod 
-L/usr/lib -lamd -L/usr/lib -lcolamd
Failed test program was:

#include <stdio.h>
#include <cholmod.h>

int main() {
  #ifdef CHOLMOD_MAIN_VERSION
    #ifdef CHOLMOD_SUB_VERSION
      #ifdef CHOLMOD_SUBSUB_VERSION
        printf("%d.%d.%d", 
CHOLMOD_MAIN_VERSION,CHOLMOD_SUB_VERSION,CHOLMOD_SUBSUB_VERSION);
      #else
        printf("%d.%d", CHOLMOD_MAIN_VERSION,CHOLMOD_SUB_VERSION);
      #endif
    #else
      printf("%d", CHOLMOD_MAIN_VERSION);
    #endif
  #endif
  return 0;
}

Error message:
/usr/lib/atlas/liblapack.so: undefined reference to 
`_gfortran_concat_string'
/usr/lib/atlas/liblapack.so: undefined reference to 
`_gfortran_st_write_done'
/usr/lib/atlas/liblapack.so: undefined reference to 
`_gfortran_transfer_integer'
/usr/lib/atlas/liblapack.so: undefined reference to `_gfortran_stop_numeric'
/usr/lib/atlas/liblapack.so: undefined reference to `_gfortran_pow_i4_i4'
/usr/lib/atlas/liblapack.so: undefined reference to `_gfortran_st_write'
/usr/lib/atlas/liblapack.so: undefined reference to 
`_gfortran_compare_string'
/usr/lib/atlas/liblapack.so: undefined reference to `_gfortran_etime'
/usr/lib/atlas/liblapack.so: undefined reference to `_gfortran_pow_r8_i4'
/usr/lib/atlas/liblapack.so: undefined reference to 
`_gfortran_transfer_character'
/usr/lib/atlas/liblapack.so: undefined reference to `_gfortran_pow_r4_i4'
collect2: ld returned 1 exit status



> Johannes
>
> > Garth
> >
> >
> > > Johannes
> > >
> > > On Thu, August 21, 2008 13:42, Garth N. Wells wrote:
> > > > The test for CHOLMOD fail on my machine when I remove liblapack3fg and
> > > > use atlas,
> > > >
> > > > g++ -I/usr/include/suitesparse cholmod_config_test_include.cpp -L/usr
> > > > -llapack -L/usr -lblas -L/usr/lib -lcholmod -L/usr/lib -lamd -L/usr/lib
> > > > -lcolamd
> > > > Failed test program was:
> > > >
> > > > #include <stdio.h>
> > > > #include <cholmod.h>
> > > >
> > > > int main() {
> > > >    #ifdef CHOLMOD_MAIN_VERSION
> > > >      #ifdef CHOLMOD_SUB_VERSION
> > > >        #ifdef CHOLMOD_SUBSUB_VERSION
> > > >          printf("%d.%d.%d",
> > > > CHOLMOD_MAIN_VERSION,CHOLMOD_SUB_VERSION,CHOLMOD_SUBSUB_VERSION);
> > > >        #else
> > > >          printf("%d.%d", CHOLMOD_MAIN_VERSION,CHOLMOD_SUB_VERSION);
> > > >        #endif
> > > >      #else
> > > >        printf("%d", CHOLMOD_MAIN_VERSION);
> > > >      #endif
> > > >    #endif
> > > >    return 0;
> > > > }
> > > >
> > > > Error message:
> > > > /usr/bin/ld: cannot find -llapack
> > > > collect2: ld returned 1 exit status
> > > >
> > > > Garth
> > > >
> > > > DOLFIN wrote:
> > > > > One or more new changesets pushed to the primary dolfin repository.
> > > > > A short summary of the last three changesets is included below.
> > > > >
> > > > > changeset:   4599:bcc140c752dceba8fd4cf370997ad457871e3bbe
> > > > > tag:         tip
> > > > > user:        Johannes Ring <johannr@xxxxxxxxx>
> > > > > date:        Mon Aug 18 13:09:15 2008 +0200
> > > > > files:       SConstruct dolfin/scons.cfg
> > > > > description:
> > > > > Added CHOLMOD as optional dependency.
> > > > >
> > > > >
> > > > > changeset:   4598:1a2d241d7d00401800fa1dbe2a17aa75287479c8
> > > > > user:        Johannes Ring <johannr@xxxxxxxxx>
> > > > > date:        Mon Aug 18 13:08:37 2008 +0200
> > > > > files:       scons/simula-scons/simula_scons/Customize.py
> > > > > scons/simula-scons/simula_scons/__init__.py
> > > > > scons/simula-scons/simula_scons/pkgconfig.py
> > > > > scons/simula-scons/simula_scons/pkgconfiggenerators/cholmod.py
> > > > > scons/simula-scons/simula_scons/pkgconfiggenerators/commonPkgConfigUtils.py
> > > > > description:
> > > > > simula-scons update.
> > > > >
> > > > >
> > > > > changeset:   4597:52fe4d684f7e7703f285d9dbb5237926e817b73e
> > > > > parent:      4594:e92305bdc5377cd49f854d1d835b749fadb835b7
> > > > > parent:      4596:7a229461cb9d1e29f0e4e8c9d98c6d321759d15b
> > > > > user:        "Garth N. Wells <gnw20@xxxxxxxxx>"
> > > > > date:        Mon Aug 18 11:03:17 2008 +0100
> > > > > files:
> > > > > description:
> > > > > merge.
> > > > >
> > > > > ----------------------------------------------------------------------
> > > > > For more details, visit http://www.fenics.org/hg/dolfin
> > > > > _______________________________________________
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