Installation script for Z800
From www.coria-cfd.fr
Copy and paste the following lines in .bash_profile:
alias l='ls -l' export PATH=$PATH:/local/openmpi-1.6/bin export LD_LIBRARY_PATH="/local/openmpi-1.6/lib:$LD_LIBRARY_PATH" export LD_PRELOAD=/usr/lib/x86_64-linux-gnu/libc/memcpy-preload.so
Copy and paste this in a file called Install.make:
INSTALL_DIR = / COMPILER_DIR = /local/gcc-4.7.2 F77 = $(COMPILER_DIR)/bin/gfortran FC = $(COMPILER_DIR)/bin/gfortran CC = $(COMPILER_DIR)/bin/gcc CXX = $(COMPILER_DIR)/bin/g++ CPP = $(COMPILER_DIR)/bin/cpp CXXPP = $(COMPILER_DIR)/bin/cpp NPROCS = 8 SED_VERSION = 4.2.2 FFTW_VERSION = 3.3.3 OPENMPI_MINOR_VERSION = 1.6.4 OPENMPI_MAJOR_VERSION = 1.6 HDF5_VERSION = 1.8.10-patch1 LAPACK_VERSION = 3.4.2 PARMETIS_VERSION = 3.2.0 SCOTCH_VERSION = 6.0.0 PETSC_VERSION = 3.3-p6 SLEPC_VERSION = 3.3-p3 all: structure sed fftw openmpi hdf5 lapack ParMetis scotch petsc slepc freenx-ocelot: sudo apt-get install libaudiofile0 sudo add-apt-repository -y ppa:freenx-team sudo sed -i 's/oneiric/lucid/g' /etc/apt/sources.list.d/freenx-team-ppa-oneiric.list sudo apt-get update && sudo apt-get upgrade wget -P /tmp http://de.archive.ubuntu.com/ubuntu/pool/main/e/esound/esound-common_0.2.41-8_all.deb wget -P /tmp http://de.archive.ubuntu.com/ubuntu/pool/main/e/esound/libesd0_0.2.41-8_amd64.deb wget -P /tmp http://de.archive.ubuntu.com/ubuntu/pool/main/e/esound/esound-clients_0.2.41-8_amd64.deb sudo dpkg -i /tmp/esound-common_0.2.41-8_all.deb sudo dpkg -i /tmp/libesd0_0.2.41-8_amd64.deb sudo dpkg -i /tmp/esound-clients_0.2.41-8_amd64.deb sudo apt-get -f -y install sudo rm -f /tmp/esound-common_0.2.41-8_all.deb /tmp/libesd0_0.2.41-8_amd64.deb /tmp/esound-clients_0.2.41-8_amd64.deb sudo apt-get install -y freenx cd /tmp && wget https://bugs.launchpad.net/freenx-server/+bug/576359/+attachment/1378450/+files/nxsetup.tar.gz && tar zxvf nxsetup.tar.gz sudo cp /tmp/nxsetup /usr/lib/nx/nxsetup -sudo /usr/lib/nx/nxsetup --install --setup-nomachine-key sudo rm -f /tmp/nxsetup /tmp/nxsetup.tar.gz sudo touch /etc/apt/preferences sudo sh -c "echo Package: esound-common >> /etc/apt/preferences" sudo sh -c "echo Pin: version 0.2.41-8 >> /etc/apt/preferences" sudo sh -c "echo Pin-priority: 1001 >> /etc/apt/preferences" sudo sh -c "echo >> /etc/apt/preferences" sudo sh -c "echo Package: libesd0 >> /etc/apt/preferences" sudo sh -c "echo Pin: version 0.2.41-8 >> /etc/apt/preferences" sudo sh -c "echo Pin-priority: 1001 >> /etc/apt/preferences" packages: sudo apt-get install -y nvidia-current sudo apt-get install -y ubuntu-desktop sudo apt-get install -y tcsh sudo apt-get install -y ssh sudo apt-get install -y g++ sudo apt-get install -y gdb sudo apt-get install -y gfortran sudo apt-get install -y cmake sudo apt-get install -y flex sudo apt-get install -y bison sudo apt-get install -y git sudo apt-get install -y gitk sudo apt-get install -y subversion sudo apt-get install -y rapidsvn sudo apt-get install -y vim-gnome sudo apt-get install -y lib32z1-dev sudo apt-get install -y zlib1g-dev sudo apt-get install -y tkcvs sudo apt-get install -y default-jre sudo apt-get install -y gparted sudo apt-get install -y synaptic sudo apt-get install -y eclipse sudo apt-get install -y paraview sudo apt-get install -y browser-plugin-gnash sudo apt-get install -y grace sudo apt-get install -y gnuplot sudo apt-get install -y filezilla sudo apt-get install -y dselect sudo apt-get install -y emacs sudo apt-get install -y xemacs21 sudo apt-get install -y meld sudo apt-get install -y hdfview sudo apt-get install -y vlc gambit: wget -P /tmp http://ubuntu.mirror.cambrium.nl/ubuntu//pool/multiverse/o/openmotif/libmotif3_2.2.3-4_amd64.deb && sudo dpkg -i /tmp/libmotif3_2.2.3-4_amd64.deb sudo apt-get install libstdc++5 xfs xfstt xfonts-75dpi xfonts-100dpi rm /tmp/libmotif3_2.2.3-4_amd64.deb structure: mkdir -p $(INSTALL_DIR)/Downloads mkdir -p $(INSTALL_DIR)/Builds mkdir -p $(INSTALL_DIR)/local sed: structure (cd $(INSTALL_DIR)/Downloads && wget http://ftp.gnu.org/gnu/sed/sed-$(SED_VERSION).tar.bz2) (cd $(INSTALL_DIR)/Builds && tar -jxvf $(INSTALL_DIR)/Downloads/sed-$(SED_VERSION).tar.bz2) (cd $(INSTALL_DIR)/Builds/sed-$(SED_VERSION) && ./configure --prefix=$(INSTALL_DIR)/local/sed-$(SED_VERSION) && make -j $(NPROCS) && make install) fftw: structure (cd $(INSTALL_DIR)/Downloads && wget http://www.fftw.org/fftw-$(FFTW_VERSION).tar.gz) (cd $(INSTALL_DIR)/Builds && tar -zxvf $(INSTALL_DIR)/Downloads/fftw-$(FFTW_VERSION).tar.gz) (cd $(INSTALL_DIR)/Builds/fftw-$(FFTW_VERSION) && ./configure --prefix=$(INSTALL_DIR)/local/fftw-$(FFTW_VERSION) && make -j $(NPROCS) && make install) openmpi: structure (cd $(INSTALL_DIR)/Downloads && wget http://www.open-mpi.org/software/ompi/v$(OPENMPI_MAJOR_VERSION)/downloads/openmpi-$(OPENMPI_MINOR_VERSION).tar.bz2) (cd $(INSTALL_DIR)/Builds && tar -jxvf $(INSTALL_DIR)/Downloads/openmpi-$(OPENMPI_MINOR_VERSION).tar.bz2) (cd $(INSTALL_DIR)/Builds/openmpi-$(OPENMPI_MINOR_VERSION) && ./configure --prefix=$(INSTALL_DIR)/local/openmpi-$(OPENMPI_MINOR_VERSION) --enable-mpi-f90 && make -j $(NPROCS) && make install) hdf5: structure (cd $(INSTALL_DIR)/Downloads && wget http://www.hdfgroup.org/ftp/HDF5/current/src/hdf5-$(HDF5_VERSION).tar.bz2) (cd $(INSTALL_DIR)/Builds && tar -jxvf $(INSTALL_DIR)/Downloads/hdf5-$(HDF5_VERSION).tar.bz2) (cd $(INSTALL_DIR)/Builds/hdf5-$(HDF5_VERSION) && ./configure --prefix=$(INSTALL_DIR)/local/hdf5-$(HDF5_VERSION) --enable-fortran --enable-cxx && make -j $(NPROCS) && make install) lapack: structure (cd $(INSTALL_DIR)/Downloads && wget http://www.netlib.org/lapack/lapack-$(LAPACK_VERSION).tgz) (cd $(INSTALL_DIR)/Builds && tar -zxvf $(INSTALL_DIR)/Downloads/lapack-$(LAPACK_VERSION).tgz) (cd $(INSTALL_DIR)/Builds/lapack-$(LAPACK_VERSION) && cp make.inc.example make.inc && make -j $(NPROCS) blaslib && make -j $(NPROCS) lapacklib) mkdir -p $(INSTALL_DIR)/local/blas/lib mkdir -p $(INSTALL_DIR)/local/lapack/lib ln -s $(INSTALL_DIR)/Builds/lapack-$(LAPACK_VERSION)/liblapack.a $(INSTALL_DIR)/local/lapack/lib/liblapack.a ln -s $(INSTALL_DIR)/Builds/lapack-$(LAPACK_VERSION)/librefblas.a $(INSTALL_DIR)/local/blas/lib/libblas.a ParMetis: structure (cd $(INSTALL_DIR)/Downloads && wget http://glaros.dtc.umn.edu/gkhome/fetch/sw/parmetis/OLD/ParMetis-$(PARMETIS_VERSION).tar.gz) (cd $(INSTALL_DIR)/Builds && tar -zxvf $(INSTALL_DIR)/Downloads/ParMetis-$(PARMETIS_VERSION).tar.gz) echo "CC = $(INSTALL_DIR)/local/openmpi-$(OPENMPI_MINOR_VERSION)/bin/mpicc" > $(INSTALL_DIR)/Builds/ParMetis-$(PARMETIS_VERSION)/Makefile.in echo "OPTFLAGS = -O3" >> $(INSTALL_DIR)/Builds/ParMetis-$(PARMETIS_VERSION)/Makefile.in echo "INCDIR =" >> $(INSTALL_DIR)/Builds/ParMetis-$(PARMETIS_VERSION)/Makefile.in echo "COPTIONS = -DNDEBUG" >> $(INSTALL_DIR)/Builds/ParMetis-$(PARMETIS_VERSION)/Makefile.in echo "LD = $(INSTALL_DIR)/local/openmpi-$(OPENMPI_MINOR_VERSION)/bin/mpicc" >> $(INSTALL_DIR)/Builds/ParMetis-$(PARMETIS_VERSION)/Makefile.in echo "LIBDIR =" >> $(INSTALL_DIR)/Builds/ParMetis-$(PARMETIS_VERSION)/Makefile.in echo "AR = ar rv" >> $(INSTALL_DIR)/Builds/ParMetis-$(PARMETIS_VERSION)/Makefile.in echo "RANLIB = ar -ts" >> $(INSTALL_DIR)/Builds/ParMetis-$(PARMETIS_VERSION)/Makefile.in echo "VERNUM = $(PARMETIS_VERSION)" >> $(INSTALL_DIR)/Builds/ParMetis-$(PARMETIS_VERSION)/Makefile.in (cd $(INSTALL_DIR)/Builds/ParMetis-$(PARMETIS_VERSION) && make -j $(NPROCS)) mkdir -p $(INSTALL_DIR)/local/ParMetis-$(PARMETIS_VERSION)/lib mkdir -p $(INSTALL_DIR)/local/ParMetis-$(PARMETIS_VERSION)/include ln -s $(INSTALL_DIR)/Builds/ParMetis-$(PARMETIS_VERSION)/*.a $(INSTALL_DIR)/local/ParMetis-$(PARMETIS_VERSION)/lib/ ln -s $(INSTALL_DIR)/Builds/ParMetis-$(PARMETIS_VERSION)/*.h $(INSTALL_DIR)/local/ParMetis-$(PARMETIS_VERSION)/include/ scotch: structure (cd $(INSTALL_DIR)/Downloads && wget https://gforge.inria.fr/frs/download.php/31831/scotch_$(SCOTCH_VERSION).tar.gz) (cd $(INSTALL_DIR)/Builds && tar -zxvf $(INSTALL_DIR)/Downloads/scotch_$(SCOTCH_VERSION).tar.gz) echo "EXE =" > $(INSTALL_DIR)/Builds/scotch_$(SCOTCH_VERSION)/src/Makefile.inc echo "LIB = .a" >> $(INSTALL_DIR)/Builds/scotch_$(SCOTCH_VERSION)/src/Makefile.inc echo "OBJ = .o" >> $(INSTALL_DIR)/Builds/scotch_$(SCOTCH_VERSION)/src/Makefile.inc echo "MAKE = make" >> $(INSTALL_DIR)/Builds/scotch_$(SCOTCH_VERSION)/src/Makefile.inc echo "AR = ar" >> $(INSTALL_DIR)/Builds/scotch_$(SCOTCH_VERSION)/src/Makefile.inc echo "ARFLAGS = -ruv" >> $(INSTALL_DIR)/Builds/scotch_$(SCOTCH_VERSION)/src/Makefile.inc echo "CAT = cat" >> $(INSTALL_DIR)/Builds/scotch_$(SCOTCH_VERSION)/src/Makefile.inc echo "CCS = $(CC)" >> $(INSTALL_DIR)/Builds/scotch_$(SCOTCH_VERSION)/src/Makefile.inc echo "CCP = $(INSTALL_DIR)/local/openmpi-$(OPENMPI_MINOR_VERSION)/bin/mpicc" >> $(INSTALL_DIR)/Builds/scotch_$(SCOTCH_VERSION)/src/Makefile.inc echo "CCD = $(CC)" >> $(INSTALL_DIR)/Builds/scotch_$(SCOTCH_VERSION)/src/Makefile.inc echo "CFLAGS = -O3 -DCOMMON_FILE_COMPRESS_GZ -DCOMMON_RANDOM_FIXED_SEED -DSCOTCH_RENAME -DSCOTCH_RENAME_PARSER -Drestrict=__restrict -DIDXSIZE64 -I$(INSTALL_DIR)/local/openmpi-$(OPENMPI_MINOR_VERSION)/include" >> $(INSTALL_DIR)/Builds/scotch_$(SCOTCH_VERSION)/src/Makefile.inc echo "CLIBFLAGS =" >> $(INSTALL_DIR)/Builds/scotch_$(SCOTCH_VERSION)/src/Makefile.inc echo "LDFLAGS = -lz -lm -lrt" >> $(INSTALL_DIR)/Builds/scotch_$(SCOTCH_VERSION)/src/Makefile.inc echo "CP = cp" >> $(INSTALL_DIR)/Builds/scotch_$(SCOTCH_VERSION)/src/Makefile.inc echo "LEX = flex -Pscotchyy -olex.yy.c" >> $(INSTALL_DIR)/Builds/scotch_$(SCOTCH_VERSION)/src/Makefile.inc echo "LN = ln" >> $(INSTALL_DIR)/Builds/scotch_$(SCOTCH_VERSION)/src/Makefile.inc echo "MKDIR = mkdir -p" >> $(INSTALL_DIR)/Builds/scotch_$(SCOTCH_VERSION)/src/Makefile.inc echo "MV = mv" >> $(INSTALL_DIR)/Builds/scotch_$(SCOTCH_VERSION)/src/Makefile.inc echo "RANLIB = ranlib" >> $(INSTALL_DIR)/Builds/scotch_$(SCOTCH_VERSION)/src/Makefile.inc echo "YACC = bison -pscotchyy -y -b y" >> $(INSTALL_DIR)/Builds/scotch_$(SCOTCH_VERSION)/src/Makefile.inc echo "prefix = $(INSTALL_DIR)/local/scotch_$(SCOTCH_VERSION)" >> $(INSTALL_DIR)/Builds/scotch_$(SCOTCH_VERSION)/src/Makefile.inc (cd $(INSTALL_DIR)/Builds/scotch_$(SCOTCH_VERSION)/src && make -j $(NPROCS) scotch && make -j $(NPROCS) ptscotch && make install) petsc: structure (cd $(INSTALL_DIR)/Downloads && wget http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/petsc-$(PETSC_VERSION).tar.gz) (cd $(INSTALL_DIR)/Builds && tar -zxvf $(INSTALL_DIR)/Downloads/petsc-$(PETSC_VERSION).tar.gz) (cd $(INSTALL_DIR)/Builds/petsc-$(PETSC_VERSION) && export LD_LIBRARY_PATH="$(INSTALL_DIR)/local/openmpi-$(OPENMPI_MINOR_VERSION)/lib:$LD_LIBRARY_PATH" && ./configure --prefix=$(INSTALL_DIR)/local/petsc-$(PETSC_VERSION) --download-hypre=yes --with-mpi-dir=$(INSTALL_DIR)/local/openmpi-$(OPENMPI_MINOR_VERSION) --with-blas-lib=$(INSTALL_DIR)/local/blas/lib/libblas.a --with-lapack-lib=$(INSTALL_DIR)/local/lapack/lib/liblapack.a --CPP=$(CPP) && make -j $(NPROCS) PETSC_DIR=$(INSTALL_DIR)/Builds/petsc-$(PETSC_VERSION) PETSC_ARCH=arch-linux2-c-debug all && make PETSC_DIR=$(INSTALL_DIR)/Builds/petsc-$(PETSC_VERSION) PETSC_ARCH=arch-linux2-c-debug install) slepc: structure (cd $(INSTALL_DIR)/Downloads && wget http://www.grycap.upv.es/slepc/download/download.php?filename=slepc-$(SLEPC_VERSION).tar.gz) (cd $(INSTALL_DIR)/Builds && tar -zxvf $(INSTALL_DIR)/Downloads/slepc-$(SLEPC_VERSION).tar.gz) (cd $(INSTALL_DIR)/Builds/slepc-$(SLEPC_VERSION) && export SLEPC_DIR=/Builds/slepc-3.3-p3 && export PETSC_DIR=/Builds/petsc-3.3-p6 && export PETSC_ARCH=arch-linux2-c-debug && ./configure && make -j $(NPROCS) PETSC_DIR=$(INSTALL_DIR)/Builds/petsc-$(PETSC_VERSION) PETSC_ARCH=arch-linux2-c-debug all && mkdir $(INSTALL_DIR)/local/slepc-3.3-p3/ && cd $(INSTALL_DIR)/local/slepc-$(SLEPC_VERSION) && ln -s $(INSTALL_DIR)/Builds/slepc-$(SLEPC_VERSION)/include ./include1 && ln -s $(INSTALL_DIR)/Builds/slepc-$(SLEPC_VERSION)/arch-linux2-c-debug/include ./include2 && ln -s $(INSTALL_DIR)/Builds/slepc-$(SLEPC_VERSION)/arch-linux2-c-debug/lib ./lib) clean: echo
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