[petsc-users] duplicated libs

[Satish Balay]

You can try using latest petsc version [3.21] - the list should be a bit more cleaner with it.

balay at pj01:~/petsc$ ./configure --download-mpich --download-fblaslapack --download-hdf5 --with-hdf5-fortran-bindings --download-metis --download-parmetis COPTFLAGS=-O3 CXXOPTFLAGS=-O3 FOPTFLAGS=-O3 --with-debugging=0

balay at pj01:~/petsc$ grep ^PETSC_EXTERNAL_LIB_BASIC arch-linux-c-opt/lib/petsc/conf/petscvariables 
PETSC_EXTERNAL_LIB_BASIC = -Wl,-rpath,/home/balay/petsc/arch-linux-c-opt/lib -L/home/balay/petsc/arch-linux-c-opt/lib -Wl,-rpath,/usr/lib/gcc/x86_64-redhat-linux/13 -L/usr/lib/gcc/x86_64-redhat-linux/13 -lflapack -lfblas -lparmetis -lmetis -lhdf5hl_fortran -lhdf5_fortran -lhdf5_hl -lhdf5 -lm -lX11 -lmpifort -lmpi -lgfortran -lm -lgfortran -lm -lgcc_s -lquadmath -lstdc++

Satish

On Tue, 14 May 2024, Runjian Wu wrote:

> First clarification, NO issues happened. I am just curious about the
> duplicated libraries while I compile PFLOTRAN with PETSc.
> 
> PETSc version: 3.16.2
> 
> Configure Options: --configModules=PETSc.Configure
> --optionsModule=config.compilerOptions --with-make-np=4 --with-cc=mpicc
> --with-cxx=mpicxx --with-fc=mpif90 --download-fblaslapack=yes
> --download-hdf5=/home/wurunjian/petsc_pkg/hdf5-1.12.1.tar.bz2
> --download-hdf5-fortran-bindings=yes --download-metis=yes
> --download-parmetis=yes --CFLAGS=-O3 --CXXFLAGS=-O3 --FFLAGS=-O3
> --with-debugging=0
> 
> PETSC_EXTERNAL_LIB_BASIC =
> -Wl,-rpath,/home/wurunjian/petsc/arch-linux2-c-opt/lib
> -L/home/wurunjian/petsc/arch-linux2-c-opt/lib
> -Wl,-rpath,/usr/lib/gcc/x86_64-linux-gnu/11
> -L/usr/lib/gcc/x86_64-linux-gnu/11 -lflapack -lfblas -lhdf5hl_fortran
> -lhdf5_fortran -lhdf5_hl -lhdf5 -lparmetis -lmetis -lm -lstdc++ -ldl
> -lmpichfort -lmpich -lgfortran -lm -lgfortran -lm -lgcc_s -lquadmath
> -lstdc++ -ldl
> 
> On Mon, May 13, 2024 at 9:34 PM Satish Balay <balay at mcs.anl.gov> wrote:
> 
> > what version of PETSc? What configure command? What do you have for
> > PETSC_EXTERNAL_LIB_BASIC?
> >
> > You can send configure.log for your build to petsc-maint
> >
> > Generally duplicates should not cause grief. [as one needs them to
> > overcome circular dependencies].
> >
> > What issues are you seeing? [send relevant logs]
> >
> > If the duplicates are coming form "compiler library" detection part of
> > configure - you can skip this part by listing the correct "compiler
> > libraries"
> >
> > for ex: with gcc/gfortran:
> >
> > LIBS="-lgfortran -lstdc++"
> >
> > However -lgfortran could be required for gcc - but a duplicate for
> > gfortran.
> >
> > Satish
> >
> > On Mon, 13 May 2024, Runjian Wu wrote:
> >
> > > Hi all,
> > >
> > > After I compiled PETSc, I found some duplicated libs in the variable
> > > PETSC_EXTERNAL_LIB_BASIC, e.g., -lm, -lgfortran -lstdc++.  I am curious
> > how
> > > it happened and how to remove the duplicates?
> > >
> > > Thanks,
> > >
> > > Runjian Wu
> > >
> >
> >
>