Linking the shared library libISSMCore.la

topxauen

Hello all,

I am trying to compile ISSM on a Ubuntu 16.04 OS. I followed carefully the instructions from the webpage and I set the following configuration:

./configure --prefix=$ISSM_DIR --with-matlab-dir=$MATLAB_DIR --with-triangle-dir="$ISSM_DIR/externalpackages/triangle/install" --with-mpi-include="$ISSM_DIR/externalpackages/mpich/install/include" --with-mpi-libflags="-L$ISSM_DIR/externalpackages/mpich/install/lib -lmpich" --with-petsc-dir="$ISSM_DIR/externalpackages/petsc/install" --with-metis-dir="$ISSM_DIR/externalpackages/petsc/install" --with-blas-lapack-dir="$ISSM_DIR/externalpackages/petsc/install" --with-scalapack-dir="$ISSM_DIR/externalpackages/petsc/install" --with-mumps-dir="$ISSM_DIR/externalpackages/petsc/install/" --with-m1qn3-dir="$ISSM_DIR/externalpackages/m1qn3/install" --with-numthreads=8

Then in the terminal I used "make" which gave the following errors:

CXXLD libISSMCore.la

*** Warning: Linking the shared library libISSMCore.la against the

*** static library /home/xauen/trunk/externalpackages/m1qn3/install/libm1qn3.a is not portable!

*** Warning: Linking the shared library libISSMCore.la against the

*** static library /home/xauen/trunk/externalpackages/m1qn3/install//libddot.a is not portable!

CXX shared/String/ApiPrintf.lo

CXXLD libISSMOverload.la

CXX modules/KMLMeshWritex/libISSMModules_la-KMLMeshWritex.lo

./modules/KMLMeshWritex/KMLMeshWritex.cpp: In function 'KML_Folder* KMLMeshElem(int*, int, int, int*, int, int, double*, double*, double*, double*, int, int)':

./modules/KMLMeshWritex/KMLMeshWritex.cpp: warning: zero-length gnu_printf format string

sprintf(kplace->descript ,"");

CXXLD libISSMModules.la

*** Warning: Linking the shared library libISSMModules.la against the

*** static library /home/xauen/trunk/externalpackages/triangle/install/triangle.a is not portable!

CXX main/issm-issm.o

Obviously, it is not possible to "make install" the program. There was a further problem before the configuration when installing one of the basic external packages casting a problem with "hydra".

I hope you can give me a hint on how to solve this issue when installing ISSM on my computer.

Regards.

mathieumorlighem

Hi,

I don't see any error message here, just 2 warnings that you can ignore. You can go ahead and make install, see if it works

Best

Mathieu

topxauen

Many thanks for the quick reply,

There is a problem with the makefiles. Specifically, the makefile present in the folder /src/m/.

make: Entering directory '/home/xauen/trunk/src/c'

CXXLD issm.exe

CXXLD issm_slr.exe

CXXLD kriging.exe

make: Leaving directory '/home/xauen/trunk/src/c'

Making all in m

make: Entering directory '/home/xauen/trunk/src/m'

make: *** No rule to make target '/src/m/qmu/*.m', needed by 'all-am'. Stop.

make: Leaving directory '/home/xauen/trunk/src/m'

Makefile: recipe for target 'all-recursive' failed

make: *** Error 1

make: Leaving directory '/home/xauen/trunk/src'

Makefile: recipe for target 'all-recursive' failed

make: *** Error 1

make: Leaving directory '/home/xauen/trunk'

Makefile: recipe for target 'all' failed

make: *** Error 2

You can see, it sais "No rule to make target..." .When using "make install" the same error triggers.

Regards,

Pablo.

dlcheng

Hi Pablo,

I'm using ISSM with a similar setup - Ubuntu 16.04, with Matlab bindings. I checked out a trunk copy and used the default configure in the following configure.sh script:

#MATLAB path


MATLAB_PATH="/usr/local/MATLAB/R2016a"

#ISSM CONFIGURATION
./configure \
        --prefix=$ISSM_DIR\
        --with-matlab-dir=$MATLAB_PATH \
        --with-triangle-dir=$ISSM_DIR/externalpackages/triangle/install \
        --with-mpi-include=$ISSM_DIR/externalpackages/mpich/install/include  \
        --with-mpi-libflags="-L$ISSM_DIR/externalpackages/mpich/install/lib -lmpich" \
        --with-petsc-dir=$ISSM_DIR/externalpackages/petsc/install \
        --with-metis-dir=$ISSM_DIR/externalpackages/petsc/install \
        --with-mumps-dir=$ISSM_DIR/externalpackages/petsc/install \
        --with-scalapack-dir=$ISSM_DIR/externalpackages/petsc/install/ \
        --with-blas-lapack-dir=$ISSM_DIR/externalpackages/petsc/install \
        --with-m1qn3-dir=$ISSM_DIR/externalpackages/m1qn3/install \
        --with-numthreads=4

make -j4

make install

This installs well on my setup, so feel free to try those commands on your own machine (it won't allow me to attach the above script as a file for security reasons).

Regardless, let me know what configure options you used, and I can try it out on my computer as well.

Kind regards,

Daniel

topxauen

Hello Daniel,

I mimicked your installation in terms of, OS, MATLAB version, etc. Finally, I managed to compile and run the program, after some issues with linking libraries in MATLAB (such as, libpetsc and libstdc++.so.6). Many thanks for your help.

Regards,

Pablo.