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This page contains instructions for installing various scientific computing libraries and software packages on Mac OS X with the IBM xlf compiler.
Mpich2 Linux
1) MPICH-2 2) PETSc 3) ARPACK 4) SLEPc 5) NCO 6) SUNDIALS 7) Python Installing mpich-2 Download from here: http://www-unix.mcs.anl.gov/mpi/mpich2/ setenv FC /opt/ibmcmp/xlf/8.1/bin/xlf setenv FFLAGS '-qextname -g' tar -xvzf mpich2-1.0.2p1.tar.gz cd mpich2-1.0.2p1 ./configure -prefix=/usr/local/mpich2 --with-comm=shared | & tee configure.log make | & tee make.log sudo make install | & tee install.log Note: to disable C++ bindings, configure with: ./configure -prefix=/usr/local/mpich2 --with-comm=shared --disable-cxx | & tee configure.log This may be necessary when building the Common Component Architecture (CCA) package. Installing PETSc
Download from here: http://www-unix.mcs.anl.gov/petsc/petsc-2/download/index.html tar -xvzf petsc.tar.gz cd petsc-2.3.0 setenv PETSC_DIR `pwd` setenv PETSC_ARCH darwin-mpich-g ./config/configure.py --with-mpi-dir=/usr/local/mpich2 --with-shared=0 make all make test Note: to build a uniprocessor version ./config/configure.py --with-mpi=0 --with-shared=0 make all make test MATLAB Support: Shared library support does not work on Mac OS X due to issues with dynamic libraries. Thus, one cannot use the python bindings or compile the Matlab interface. It is however possible to compile partial support for Matlab as follows: 1) cd $PETSC_DIR/src/sys/src/viewer/impls/socket/matlab 2) add the following lines to makefile: MATLAB_MEX = /usr/local/bin/mex # or your path to the mex compiler MATLAB_CC = ${CC} 3) make This will install several mex functions in $PETSC_DIR/bin/matlab that provide an interface to the sockets library. (You must add this directory to your matlab path.) By using PETSc's sockets functions (PetscViewerSocketOpen, etc) you can use this interface to SEND data (Vecs, Mats, arrays) from PETSc to a running Matlab process. You can also use it to launch a PETSc job. See $PETSC_DIR/src/dm/da/examples/tests/ex12* for an example of how to use this facility. Note: As written, ex12.c did not work for me. Add the lines: #if defined(PETSC_USE_SOCKET_VIEWER) ierr = PetscViewerSocketOpen(PETSC_COMM_WORLD,PETSC_NULL,5005,&socketviewer);CHKERRQ(ierr); #endif just before the line: for (j=0; j<time_steps; j++) { ARPACK (for use with SLEPc) Download the following files from here: http://www.caam.rice.edu/software/ARPACK/
arpack96.tar.Z
patch.tar.Z
parpack96.tar.Z
ppatch.tar.Z
zcat arpack96.tar.Z | tar -xvf - zcat patch.tar.Z | tar -xvf - zcat parpack96.tar.Z | tar -xvf - zcat ppatch.tar.Z | tar -xvf - cd ARPACK Use 'ARMAKES/ARmake.MPI-SP2' as a template: cp -p ARMAKES/ARmake.MPI-SP2 ARmake.inc % Fix paths etc in ARmake.inc Note: to use the frameworks BLAS and LAPACK (vecLib) make sure LAPACKdir and BLASdir are not in the path. Mac OS X 10.3: 'lsame' and 'lsamen' (in LAPACK) are not in vecLib but are needed by ARPACK.To fix this, copy LAPACK/lsame.f and LAPACK/lsamen.f to UTIL, and add lsame.o and lsamen.o to OBJS in UTIL/Makefile Mac OS X 10.4: This above problem is fixed, but now the routine 'second' is present in vecLib! This may generate a warning when linking to thearpack libraries, but these appear to be harmless. (To avoid these warning, delete'second.o' from UTIL/Makefile.) Get rid of mpif.h according to SLEPc instructions mv PARPACK/UTIL/MPI/mpif.h . make lib make plib SLEPc
Download from here: http://www.grycap.upv.es/slepc/ gunzip slepc.tgz tar -xvf slepc.tar cd slepc-2.3.0 setenv SLEPC_DIR `pwd` ./config/configure.py--with-arpack-dir=/data2/spk/ARPACK-mpich --with-arpack-flags=-lparpack_MPI_darwin,-larpack_darwin make make testexamples NCO
1) First upgrade bison (version shipped with Mac OS is ancient and broken) Download from here: http://ftp.gnu.org/gnu/bison/bison-2.1.tar.gz tar -xvzf bison-2.1.tar.gz cd bison-2.1 ./configure --prefix=/usr/local make make check sudo make install 2) Now install NCO Download from here: http://nco.sourceforge.net/nco.tar.gz tar -xvzf nco.tar.gz cd nco-3.1.0 setenv NETCDF_INC /usr/local/netcdf/include setenv NETCDF_LIB /usr/local/netcdf/lib ./configure --disable-regex --disable-shared
Mpich2 Download Mac Os X64
make sudo make install SUNDIALS
Download from here: http://www.llnl.gov/CASC/sundials/
setenv F77 /opt/ibmcmp/xlf/8.1/bin/xlf
Mpich2 Download Mac Os X 10.13
setenv FFLAGS '-qextname' ./configure --with-mpi-root=/usr/local/mpich2 make make install make examples To install the matlab toolbox, also download sundialsTB Modify the variable 'SUNDIALS' in mex/Makefile to point to the sundials installation Copy mexopts.sh from your local matlab installation make Python
1) Download and install MacPython 2.4.1 from: http://undefined.org/python/MacPython-OSX-2.4.1-1.dmg 2) Download and install tiger fix: http://pythonmac.org/packages/TigerPython24Fix-r2.zip 3) Launch /Applications/MacPython-2.4/PackageManager Install: Numeric-23.8-binary numarray-1.2.3-binary PIL-1.1.5-binary PyOpenGL-2.0.1.09-binary Documentation-2.4-binary 4) Download and install wxPython from: http://prdownloads.sourceforge.net/wxpython/wxPython2.6-osx-unicode-2.6.1.0-macosx10.3-py2.4.dmg 5) Download and install TclTk Aqua (TclTkAquaBI-8.4.10.0.dmg) from: http://tcltkaqua.sourceforge.net/ 6) Download and install matplotlib from: http://pythonmac.org/packages/matplotlib-0.82-py2.4-macosx10.3.zip 7) Download SciPy from: http://www.scipy.org See detailed installation instructions at: http://www.scipy.org/documentation/Members/fonnesbeck/osx_build.txt Following these, first install: FFTW: http://www.fftw.org/fftw-2.1.5.tar.gz ./configure make sudo make install F2PY: http://cens.ioc.ee/projects/f2py2e/2.x/F2PY-2-latest.tar.gz tar -xvzf F2PY-2-latest.tar.gz sudo python setup.py install This gets installed in: /Library/Frameworks/Python.framework/Versions/2.4/bin Now install SciPy: python setup.py build config_fc --fcompi-fcompiler=ibm sudo python setup.py install config_fc --fcompiler=ibm 8) netcdf: http://dirac.cnrs-orleans.fr/MacPackages/netcdf-3.6.0-p1-macosx10.3.zip 9) ScientificPython: http://dirac.cnrs-orleans.fr/MacPackages/ScientificPython-2.4.9-py2.4-macosx10.3.zip (See also: http://starship.python.net/~hinsen/ScientificPython/) 10) gnuplot First install gnuplot: ftp://ftp.gnuplot.info/pub/gnuplot/gnuplot-4.0.0.tar.gz tar -xvzf gnuplot-4.0.0.tar.gz cd gnuplot-4.0.0 ./configure make sudo make install Now install gnuplot-py: http://gnuplot-py.sourceforge.net/ cd gnuplot-py-1.7 The default display is set to 'aqua'. This must be changed in gp_macosx.py: Change default_term = 'aqua' to default_term = 'x11' python setup.py install 11) Python Scripting for Computational Science: http://folk.uio.no/hpl/scripting/