{{#customtitle:YALES2 public page|YALES2 public page - www.coria-cfd.fr}}

<div class="infobox floatright" style="width: 320px;">
[[File:PRECCINSTA_2634M_q_crit_persp_small.png|right|thumb|300px|'''PRECCINSTA burner with [[YALES2 Gallery|YALES2]]''']]

</div>

== Motivation ==

YALES2 aims at the solving of two-phase combustion from primary atomization to pollutant prediction on massive complex meshes. It is able to handle efficiently unstructured meshes with several billions of elements, thus enabling the Direct Numerical Simulation of laboratory and semi-industrial configurations.

YALES2 was developed from 2007 to 2010 by [[User:Moureauv|V. Moureau]] and is maintained since 2011 by [[User:Moureauv|V. Moureau]] and [[User:Lartigue|G. Lartigue]] at CORIA and several other [[User|people]] in research laboratories.

More information may be found in the following presentation: [[media:yales2_course.pdf | YALES2 presentation]]

== Team ==

[[File:team_y2.jpg | center | thumb | 500px | Yales2 users and developers at CORIA, October 2021 [[User | (Users page) ]] ]]

== Solvers ==

YALES2 is based on a large numerical library to handle partitioned meshes, various differential operators or linear solvers, and on a series of simple or more complex solvers.
* Scalar solver ('''SCS''')
* Level set solver ('''LSS''')
* Incompressible solver ('''ICS''')
* Variable density solver ('''VDS''')
* Spray solver ('''SPS''' = '''ICS''' + '''LSS''' + Ghost-Fluid Method)
* Lagrangian solver ('''LGS''')
* Compressible solver ('''ECS''')
* Magneto-hydrodynamic solver ('''MHD''')
* Mesh movement solver ('''MMS''')
* Radiative solver ('''RDS''')
* Linear acoustics solver ('''ACS''')
* Heat transfers solver ('''HTS''')
* Immersed boundary solver ('''IBS''')
* Granular Flow solver ('''GFS''')

== Models ==
* Turbulence (Large-Eddy Simulation)
** Constant Smagorinsky
** Localized dynamic Smagorinsky
** WALE
** SIGMA
* Mixing
** Constant Schmidt number
** Dynamic Schmidt number
* Combustion
** Boger’s model for premixed combustion
** Infinitely fast chemistry with rho and T from 1D tables
** Realistic chemistry: PCM-FPI with arbitrary number of dimensions and spacing + automatic chemtable builder in HDF5 based on Cantera
* Two-phase
** Primary atomization: Ghost-Fluid Method + Conservative level set
** Spray transport: Lagrangian particles with two-way coupling through drag and single-component evaporation.
** Wall splashing: Lagrangian spray + Ghost-Fluid Method + Conservative level set

== Numerics ==
* Spatial: 2nd- and 4th-order finite-volume schemes
* Temporal:
** 4th-order explicit time integration (RK4 and TFV4A) of convective terms
** explicit and implicit diffusion and source terms
* Stabilization: Cook & Cabot 4th-order artificial viscosity
* Linear solvers:
** PCG
** BICGSTAB, BICGSTAB2, BICGSTAB(2)
** Deflated PCG
** Deflated BICGSTAB(2)
** Residual recycling

== Data Structures ==
* 1D, 2D, 3D unstructured solver
* Full dual decomposition based on METIS
* Data registration (int, real, char, node, elem, face, pair, scalar, vector, tensor)
* Optimized non-blocking MPI communications
* Parallel load balancing
* Automatic reconnection of periodic boundaries
* Automatic homogeneous mesh refinement
* IO formats: Gambit (Fluent), Ensight, prepartionned HDF5 (XDMF) with compression
* Cartesian mesh generator
* Partitioned mesh support for HDF5 independent of the number of processors
* Parallel interpolator for partitioned HDF5 meshes
* Automatic sponge layers
* Built-in Gaussian filters of arbitrary size

== Software engineering ==
* 280,000 lines of code
* Object-oriented fortran with modules (f90)
* Version management with SVN
* Inline documentation in the source code (XML + Latex)
* GUI with client/server mode (wxwidgets, C++)
* Automatic validation tests (AQAT, AVVT)
* Automatic dependency of f90 modules in makefiles
* Keyword-based input file
* Easy profiling with timers

== Gallery ==
Some computation examples are given in the [[YALES2_Gallery|gallery]].

== Performances ==
Thanks to highly efficient linear solvers, the speed-up of YALES2 is almost linear for meshes with several billion elements. These measures up to 21 billion elements were performed at IDRIS in France and at the Juelich Supercomputing Center in Germany.

[[File:YALES2 2010 Scale up.png|left|thumb|600px|YALES2 scale-up on Blue Gene/P machines]]

File:Team y2.jpg

2021-10-10T07:31:30Z

Lartigue: Lartigue uploaded a new version of File:Team y2.jpg

File:Team y2.jpg

2021-10-10T07:29:16Z

Lartigue: Lartigue uploaded a new version of File:Team y2.jpg

File:Logo YALES2.jpg

2019-11-11T18:36:14Z

Lartigue: Lartigue uploaded a new version of File:Logo YALES2.jpg

Lartigue:

Install [https://software.intel.com/fr-fr/non-commercial-software-development Intel Parallel Studio]

Makefile_gcc:

INSTALL_DIR = /

WGET = wget

GCC_VERSION = 4.8.2

NPROCS = 8

all : structure gcc

structure:
mkdir -p $(INSTALL_DIR)/Downloads
mkdir -p $(INSTALL_DIR)/Builds
mkdir -p $(INSTALL_DIR)/local

gcc:
(\
cd $(INSTALL_DIR)/Downloads && \
if [ ! -f gcc-$(GCC_VERSION).tar.bz2 ]; then $(WGET) http://gcc.cybermirror.org/releases/gcc-$(GCC_VERSION)/gcc-$(GCC_VERSION).tar.bz2; fi && \
cd $(INSTALL_DIR)/Builds && \
bunzip2 -c $(INSTALL_DIR)/Downloads/gcc-$(GCC_VERSION).tar.bz2 | tar xv && \
mv gcc-$(GCC_VERSION) gcc-$(GCC_VERSION)_src&& \
cd gcc-$(GCC_VERSION)_src && \
./contrib/download_prerequisites && \
cd ../ && \
mkdir -p $(INSTALL_DIR)/Builds/gcc-$(GCC_VERSION)_build && \
cd gcc-$(GCC_VERSION)_build && \
../gcc-$(GCC_VERSION)_src/configure --prefix=/local/gcc-$(GCC_VERSION) && \
make -j $(NPROCS) && \
make check && \
make install \
)

Makefile_packages:

default:
sudo add-apt-repository -y ppa:freenx-team
sudo apt-get update
sudo apt-get upgrade
sudo apt-get install -y freenx nvidia-current ubuntu-desktop gnome-session-fallback tcsh ssh g++ gdb gfortran cmake flex bison git gitk subversion rapidsvn vim-gnome lib32z1-dev zlib1g-dev tkcvs default-jre gparted synaptic eclipse paraview browser-plugin-gnash grace gnuplot filezilla dselect emacs xemacs21 meld hdfview vlc autogen autoconf automake cifs-utils valgrind kcachegrind mencoder

Makefile_extlib:

INSTALL_DIR = /
WGET = wget
NPROCS = 8
SHELL=/bin/bash

OPENMPI_NAME = openmpi
OPENMPI_VERSION = 1.8.3
OPENMPI_MAJOR_VERSION = 1.8
OPENMPI_LOCATION = http://www.open-mpi.org/software/ompi/v$(OPENMPI_MAJOR_VERSION)/downloads
OPENMPI_FILE = $(OPENMPI_NAME)-$(OPENMPI_VERSION).tar.bz2
OPENMPI_CONFIGURE_OPTIONS = --enable-mpi-fortran --enable-static --enable-shared

FFTW_NAME = fftw
FFTW_VERSION = 3.3.4
FFTW_LOCATION = http://www.fftw.org
FFTW_FILE = $(FFTW_NAME)-$(FFTW_VERSION).tar.gz
FFTW_CONFIGURE_OPTIONS =

HDF5_NAME = hdf5
HDF5_VERSION = 1.8.13
HDF5_LOCATION = http://www.hdfgroup.org/ftp/HDF5/current/src
HDF5_FILE = $(HDF5_NAME)-$(HDF5_VERSION).tar.bz2
HDF5_CONFIGURE_OPTIONS = --enable-fortran --enable-cxx

PARMETIS_NAME = parmetis
PARMETIS_VERSION = 4.0.3
PARMETIS_LOCATION = http://glaros.dtc.umn.edu/gkhome/fetch/sw/parmetis
PARMETIS_FILE = $(PARMETIS_NAME)-$(PARMETIS_VERSION).tar.gz
PARMETIS_CONFIGURE_OPTIONS =

SCOTCH_NAME = scotch
SCOTCH_VERSION = 6.0.0
SCOTCH_LOCATION = https://gforge.inria.fr/frs/download.php/31831
SCOTCH_FILE = $(SCOTCH_NAME)_$(SCOTCH_VERSION).tar.gz
SCOTCH_CONFIGURE_OPTIONS =

LAPACK_NAME = lapack
LAPACK_VERSION = 3.4.2
LAPACK_LOCATION = http://www.netlib.org/lapack
LAPACK_FILE = $(LAPACK_NAME)-$(LAPACK_VERSION).tgz
LAPACK_CONFIGURE_OPTIONS =

MMG3D4_NAME = mmg3d4
MMG3D4_VERSION = 4.0.1
MMG3D4_LOCATION = https://gforge.inria.fr/frs/download.php/33418
MMG3D4_FILE = $(MMG3D4_NAME)-$(MMG3D4_VERSION)-Source.tar.gz
MMG3D4_CONFIGURE_OPTIONS =

PAPI_NAME = papi
PAPI_VERSION = 5.3.0
PAPI_LOCATION = http://icl.cs.utk.edu/projects/papi/downloads
PAPI_FILE = $(PAPI_NAME)-$(PAPI_VERSION).tar.gz
PAPI_CONFIGURE_OPTIONS =

PETSC_NAME = petsc
PETSC_VERSION = 3.4.4
PETSC_LOCATION = http://ftp.mcs.anl.gov/pub/petsc/release-snapshots
PETSC_FILE = $(PETSC_NAME)-$(PETSC_VERSION).tar.gz
PETSC_CONFIGURE_OPTIONS =

SLEPC_NAME = slepc
SLEPC_VERSION = 3.4.4
SLEPC_LOCATION = http://www.grycap.upv.es/slepc/download/distrib
SLEPC_FILE = $(SLEPC_NAME)-$(SLEPC_VERSION).tar.gz
SLEPC_CONFIGURE_OPTIONS =

COMPILER_FAMILY = intel
COMPILER_VERSION = 14.0.3
COMPILER_PATH = /opt/intel/composerxe/bin
COMPILER_CC = $(COMPILER_PATH)/icc
COMPILER_MPICC = $(INSTALL_DIR)/local/$(OPENMPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(OPENMPI_VERSION)/bin/mpicc
COMPILER_CFLAGS = "-O2 -g"
COMPILER_CXX = $(COMPILER_PATH)/icpc
COMPILER_MPICXX = $(INSTALL_DIR)/local/$(OPENMPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(OPENMPI_VERSION)/bin/mpicxx
COMPILER_CXXFLAGS = "-O2 -g"
COMPILER_FC = $(COMPILER_PATH)/ifort
COMPILER_MPIFC = $(INSTALL_DIR)/local/$(OPENMPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(OPENMPI_VERSION)/bin/mpifort
COMPILER_FCFLAGS = "-O2 -g"
COMPILER_FF = $(COMPILER_PATH)/ifort
COMPILER_MPIFF = $(INSTALL_DIR)/local/$(OPENMPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(OPENMPI_VERSION)/bin/mpifort
COMPILER_FFLAGS = "-O2 -g"

default: $(OPENMPI_NAME)-$(OPENMPI_VERSION) $(FFTW_NAME)-$(FFTW_VERSION) $(HDF5_NAME)-$(HDF5_VERSION) $(PARMETIS_NAME)-$(PARMETIS_VERSION) $(SCOTCH_NAME)-$(SCOTCH_VERSION) $(LAPACK_NAME)-$(LAPACK_VERSION) $(MMG3D4_NAME)-$(MMG3D4_VERSION) $(PAPI_NAME)-$(PAPI_VERSION) $(PETSC_NAME)-$(PETSC_VERSION) $(SLEPC_NAME)-$(SLEPC_VERSION)

$(OPENMPI_NAME)-$(OPENMPI_VERSION):
(\
mkdir -p $(INSTALL_DIR)/Downloads &&\
mkdir -p $(INSTALL_DIR)/Builds &&\
mkdir -p $(INSTALL_DIR)/local &&\
cd $(INSTALL_DIR)/Downloads &&\
if [ ! -f $(OPENMPI_FILE) ]; then $(WGET) $(OPENMPI_LOCATION)/$(OPENMPI_FILE); fi &&\
cd $(INSTALL_DIR)/Builds &&\
rm -rf $(OPENMPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(OPENMPI_NAME)-$(OPENMPI_VERSION) &&\
mkdir -p $(OPENMPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
cd $(OPENMPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
tar -xvf $(INSTALL_DIR)/Downloads/$(OPENMPI_FILE) &&\
cd $(INSTALL_DIR)/Builds/$(OPENMPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(OPENMPI_NAME)-$(OPENMPI_VERSION) &&\
./configure --prefix=$(INSTALL_DIR)/local/$(OPENMPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(OPENMPI_VERSION) CC=$(COMPILER_CC) CFLAGS=$(COMPILER_CFLAGS) CXX=$(COMPILER_CXX) CXXFLAGS=$(COMPILER_CXXFLAGS) FC=$(COMPILER_FC) FCLAGS=$(COMPILER_FCFLAGS) FF=$(COMPILER_FF) FFLAGS=$(COMPILER_FFLAGS) $(OPENMPI_CONFIGURE_OPTIONS)&&\
make -j $(NPROCS) &&\
rm -rf $(INSTALL_DIR)/local/$(OPENMPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(OPENMPI_VERSION) &&\
make install\
)

$(FFTW_NAME)-$(FFTW_VERSION):
(\
mkdir -p $(INSTALL_DIR)/Downloads &&\
mkdir -p $(INSTALL_DIR)/Builds &&\
mkdir -p $(INSTALL_DIR)/local &&\
cd $(INSTALL_DIR)/Downloads &&\
if [ ! -f $(FFTW_FILE) ]; then $(WGET) $(FFTW_LOCATION)/$(FFTW_FILE); fi &&\
cd $(INSTALL_DIR)/Builds &&\
rm -rf $(FFTW_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(FFTW_NAME)-$(FFTW_VERSION) &&\
mkdir -p $(FFTW_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
cd $(FFTW_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
tar -xvf $(INSTALL_DIR)/Downloads/$(FFTW_FILE) &&\
cd $(INSTALL_DIR)/Builds/$(FFTW_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(FFTW_NAME)-$(FFTW_VERSION) &&\
./configure --prefix=$(INSTALL_DIR)/local/$(FFTW_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(FFTW_VERSION) CC=$(COMPILER_CC) CFLAGS=$(COMPILER_CFLAGS) CXX=$(COMPILER_CXX) CXXFLAGS=$(COMPILER_CXXFLAGS) FC=$(COMPILER_FC) FCLAGS=$(COMPILER_FCFLAGS) FF=$(COMPILER_FF) FFLAGS=$(COMPILER_FFLAGS) $(FFTW_CONFIGURE_OPTIONS)&&\
make -j $(NPROCS) &&\
rm -rf $(INSTALL_DIR)/local/$(FFTW_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(FFTW_VERSION) &&\
make install\
)

$(HDF5_NAME)-$(HDF5_VERSION):
(\
apt-get install zlib1g-dev &&\
mkdir -p $(INSTALL_DIR)/Downloads &&\
mkdir -p $(INSTALL_DIR)/Builds &&\
mkdir -p $(INSTALL_DIR)/local &&\
cd $(INSTALL_DIR)/Downloads &&\
if [ ! -f $(HDF5_FILE) ]; then $(WGET) $(HDF5_LOCATION)/$(HDF5_FILE); fi &&\
cd $(INSTALL_DIR)/Builds &&\
rm -rf $(HDF5_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(HDF5_NAME)-$(HDF5_VERSION) &&\
mkdir -p $(HDF5_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
cd $(HDF5_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
tar -xvf $(INSTALL_DIR)/Downloads/$(HDF5_FILE) &&\
cd $(INSTALL_DIR)/Builds/$(HDF5_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(HDF5_NAME)-$(HDF5_VERSION) &&\
./configure --prefix=$(INSTALL_DIR)/local/$(HDF5_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(HDF5_VERSION) CC=$(COMPILER_CC) CFLAGS=$(COMPILER_CFLAGS) CXX=$(COMPILER_CXX) CXXFLAGS=$(COMPILER_CXXFLAGS) FC=$(COMPILER_FC) FCLAGS=$(COMPILER_FCFLAGS) FF=$(COMPILER_FF) FFLAGS=$(COMPILER_FFLAGS) $(HDF5_CONFIGURE_OPTIONS)&&\
make -j $(NPROCS) &&\
rm -rf $(INSTALL_DIR)/local/$(HDF5_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(HDF5_VERSION) &&\
make install\
)

$(PARMETIS_NAME)-$(PARMETIS_VERSION):
(\
mkdir -p $(INSTALL_DIR)/Downloads &&\
mkdir -p $(INSTALL_DIR)/Builds &&\
mkdir -p $(INSTALL_DIR)/local &&\
rm -rf $(INSTALL_DIR)/local/$(PARMETIS_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PARMETIS_VERSION) &&\
rm -rf $(INSTALL_DIR)/Builds/$(PARMETIS_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PARMETIS_NAME)-$(PARMETIS_VERSION) &&\
mkdir -p $(INSTALL_DIR)/Builds/$(PARMETIS_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
cd $(INSTALL_DIR)/Downloads &&\
if [ ! -f $(PARMETIS_FILE) ]; then $(WGET) $(PARMETIS_LOCATION)/$(PARMETIS_FILE); fi &&\
cd $(INSTALL_DIR)/Builds/$(PARMETIS_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
tar -xvf $(INSTALL_DIR)/Downloads/$(PARMETIS_FILE) &&\
cd $(INSTALL_DIR)/Builds/$(PARMETIS_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PARMETIS_NAME)-$(PARMETIS_VERSION) &&\
cd metis &&\
sed -i 's/make -C $$(BUILDDIR) $$@ $$(MAKEFLAGS);/$$(MAKE) -C $$(BUILDDIR) $$@;/g' Makefile &&\
make config prefix=$(INSTALL_DIR)/local/$(PARMETIS_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PARMETIS_VERSION) CC=$(COMPILER_MPICC) CFLAGS=$(COMPILER_CFLAGS) CXX=$(COMPILER_MPICXX) CXXFLAGS=$(COMPILER_CXXFLAGS) FC=$(COMPILER_MPIFC) FCLAGS=$(COMPILER_FCFLAGS) FF=$(COMPILER_MPIFF) FFLAGS=$(COMPILER_FFLAGS) $(PARMETIS_CONFIGURE_OPTIONS) &&\
make &&\
make install &&\
cd .. &&\
sed -i 's/make -C $$(BUILDDIR) $$@ $$(MAKEFLAGS);/$$(MAKE) -C $$(BUILDDIR) $$@;/g' Makefile &&\
sed -i 's/cc = mpicc/cc = not-set/g' Makefile &&\
sed -i 's/cxx = mpicxx/cxx = not-set/g' Makefile &&\
make config prefix=$(INSTALL_DIR)/local/$(PARMETIS_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PARMETIS_VERSION) CC=$(COMPILER_MPICC) CFLAGS=$(COMPILER_CFLAGS) CXX=$(COMPILER_MPICXX) CXXFLAGS=$(COMPILER_CXXFLAGS) FC=$(COMPILER_MPIFC) FCLAGS=$(COMPILER_FCFLAGS) FF=$(COMPILER_MPIFF) FFLAGS=$(COMPILER_FFLAGS) $(PARMETIS_CONFIGURE_OPTIONS) &&\
make &&\
make install \
)

$(SCOTCH_NAME)-$(SCOTCH_VERSION):
(\
mkdir -p $(INSTALL_DIR)/Downloads &&\
mkdir -p $(INSTALL_DIR)/Builds &&\
mkdir -p $(INSTALL_DIR)/local &&\
cd $(INSTALL_DIR)/Downloads &&\
if [ ! -f $(SCOTCH_FILE) ]; then $(WGET) $(SCOTCH_LOCATION)/$(SCOTCH_FILE); fi &&\
cd $(INSTALL_DIR)/Builds &&\
rm -rf $(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)-$(SCOTCH_VERSION) &&\
mkdir -p $(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
cd $(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
tar -xvf $(INSTALL_DIR)/Downloads/$(SCOTCH_FILE) &&\
cd $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION) &&\
rm -rf $(INSTALL_DIR)/local/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_VERSION) &&\
echo "EXE =" > $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "LIB = .a" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "OBJ = .o" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "MAKE = make" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "AR = ar" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "ARFLAGS = -ruv" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "CAT = cat" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "CCS = $(COMPILER_MPICC)" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "CCP = $(COMPILER_MPICC)" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "CCD = $(COMPILER_MPICC)" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "CFLAGS = -O3 -DCOMMON_TIMING_OLD -DCOMMON_FILE_COMPRESS_GZ -DCOMMON_RANDOM_FIXED_SEED -DSCOTCH_RENAME -DSCOTCH_RENAME_PARSER -Drestrict=__restrict -DIDXSIZE64 -I$(COMPILER_PATH)/include" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "CLIBFLAGS =" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "LDFLAGS = -lz -lm" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "CP = cp" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "LEX = flex -Pscotchyy -olex.yy.c" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "LN = ln" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "MKDIR = mkdir -p" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "MV = mv" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "RANLIB = ranlib" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "YACC = bison -pscotchyy -y -b y" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "prefix = $(INSTALL_DIR)/local/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_VERSION)" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
cd $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src &&\
make -j $(NPROCS) scotch &&\
make -j $(NPROCS) ptscotch &&\
make install\
)

$(LAPACK_NAME)-$(LAPACK_VERSION):
(\
mkdir -p $(INSTALL_DIR)/Downloads &&\
mkdir -p $(INSTALL_DIR)/Builds &&\
mkdir -p $(INSTALL_DIR)/local &&\
cd $(INSTALL_DIR)/Downloads &&\
if [ ! -f $(LAPACK_FILE) ]; then $(WGET) $(LAPACK_LOCATION)/$(LAPACK_FILE); fi &&\
cd $(INSTALL_DIR)/Builds &&\
rm -rf $(LAPACK_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(LAPACK_NAME)-$(LAPACK_VERSION) &&\
mkdir -p $(LAPACK_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
cd $(LAPACK_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
tar -xvf $(INSTALL_DIR)/Downloads/$(LAPACK_FILE) &&\
cd $(INSTALL_DIR)/Builds/$(LAPACK_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(LAPACK_NAME)-$(LAPACK_VERSION) &&\
rm -f make.inc &&\
touch make.inc &&\
echo "SHELL = /bin/sh" >> make.inc &&\
echo "FORTRAN = $(COMPILER_MPIFC)" >> make.inc &&\
echo "OPTS = $(COMPILER_FCFLAGS)" >> make.inc &&\
echo "LOADER = $(COMPILER_MPIFC)" >> make.inc &&\
echo "DRVOPTS = $(COMPILER_FCFLAGS)" >> make.inc &&\
echo "NOOPT = -O0" >> make.inc &&\
echo "LOADOPTS =" >> make.inc &&\
echo "TIMER = EXT_ETIME" >> make.inc &&\
echo "CC = $(COMPILER_MPICC)" >> make.inc &&\
echo "CFLAGS = $(COMPILER_CFLAGS)" >> make.inc &&\
echo "ARCH = ar" >> make.inc &&\
echo "ARCHFLAGS = cr" >> make.inc &&\
echo "RANLIB = ranlib" >> make.inc &&\
echo "XBLASLIB =" >> make.inc &&\
echo "BLASLIB = ../../librefblas.a" >> make.inc &&\
echo "LAPACKLIB = liblapack.a" >> make.inc &&\
echo "TMGLIB = libtmglib.a" >> make.inc &&\
echo "LAPACKELIB = liblapacke.a" >> make.inc &&\
make -j $(NPROCS) blaslib &&\
make -j $(NPROCS) lapacklib &&\
rm -rf $(INSTALL_DIR)/local/lapack/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(LAPACK_VERSION) &&\
mkdir -p $(INSTALL_DIR)/local/lapack/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(LAPACK_VERSION)/lib &&\
cp liblapack.a $(INSTALL_DIR)/local/lapack/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(LAPACK_VERSION)/lib/liblapack.a &&\
cp librefblas.a $(INSTALL_DIR)/local/lapack/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(LAPACK_VERSION)/lib/libblas.a\
)

$(MMG3D4_NAME)-$(MMG3D4_VERSION):
(\
mkdir -p $(INSTALL_DIR)/Downloads &&\
mkdir -p $(INSTALL_DIR)/Builds &&\
mkdir -p $(INSTALL_DIR)/local &&\
cd $(INSTALL_DIR)/Downloads &&\
if [ ! -f $(MMG3D4_FILE) ]; then $(WGET) $(MMG3D4_LOCATION)/$(MMG3D4_FILE); fi &&\
cd $(INSTALL_DIR)/Builds &&\
rm -rf $(MMG3D4_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(MMG3D4_NAME)-$(MMG3D4_VERSION)-Source &&\
mkdir -p $(MMG3D4_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
cd $(MMG3D4_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
tar -xvf $(INSTALL_DIR)/Downloads/$(MMG3D4_FILE) &&\
cd $(INSTALL_DIR)/Builds/$(MMG3D4_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(MMG3D4_NAME)-$(MMG3D4_VERSION)-Source &&\
export SCOTCH_DIR=$(INSTALL_DIR)/local/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_VERSION) &&\
export CC=$(COMPILER_MPICC) && \
export CXX=$(COMPILER_MPICXX) && \
mkdir build &&\
cd build &&\
cmake -DCMAKE_INSTALL_PREFIX=$(INSTALL_DIR)/local/$(MMG3D4_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(MMG3D4_VERSION) .. &&\
make &&\
make install \
)

$(PAPI_NAME)-$(PAPI_VERSION):
(\
mkdir -p $(INSTALL_DIR)/Downloads &&\
mkdir -p $(INSTALL_DIR)/Builds &&\
mkdir -p $(INSTALL_DIR)/local &&\
cd $(INSTALL_DIR)/Downloads &&\
if [ ! -f $(PAPI_FILE) ]; then $(WGET) $(PAPI_LOCATION)/$(PAPI_FILE); fi &&\
cd $(INSTALL_DIR)/Builds &&\
rm -rf $(PAPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PAPI_NAME)-$(PAPI_VERSION) &&\
mkdir -p $(PAPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
cd $(PAPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
tar -xvf $(INSTALL_DIR)/Downloads/$(PAPI_FILE) &&\
cd $(INSTALL_DIR)/Builds/$(PAPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PAPI_NAME)-$(PAPI_VERSION) &&\
cd src &&\
export F77=$(COMPILER_F77) && export CC=$(COMPILER_CC) && ./configure --prefix=$(INSTALL_DIR)/local/$(PAPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PAPI_VERSION) &&\
make -j $(NPROCS)&&\
make install \
)

$(PETSC_NAME)-$(PETSC_VERSION):
(\
mkdir -p $(INSTALL_DIR)/Downloads &&\
mkdir -p $(INSTALL_DIR)/local &&\
cd $(INSTALL_DIR)/Downloads &&\
if [ ! -f $(PETSC_FILE) ]; then $(WGET) $(PETSC_LOCATION)/$(PETSC_FILE); fi &&\
cd $(INSTALL_DIR)/local &&\
rm -rf $(PETSC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PETSC_VERSION) &&\
mkdir -p $(PETSC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
cd $(PETSC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
tar -xvf $(INSTALL_DIR)/Downloads/$(PETSC_FILE) &&\
cd $(INSTALL_DIR)/local/$(PETSC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
mv $(PETSC_NAME)-$(PETSC_VERSION) $(PETSC_VERSION) &&\
cd $(PETSC_VERSION) &&\
unset PETSC_DIR && ./configure PETSC_ARCH=linux-intel64 --with-mpi-dir=$(INSTALL_DIR)/local/$(OPENMPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(OPENMPI_VERSION) --download-hypre --with-blas-lapack-dir=/opt/intel/mkl &&\
make PETSC_DIR=$(INSTALL_DIR)/local/$(PETSC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PETSC_VERSION) PETSC_ARCH=linux-intel64 all \
)

$(SLEPC_NAME)-$(SLEPC_VERSION):
(\
mkdir -p $(INSTALL_DIR)/Downloads &&\
mkdir -p $(INSTALL_DIR)/local &&\
cd $(INSTALL_DIR)/Downloads &&\
if [ ! -f $(SLEPC_FILE) ]; then $(WGET) $(SLEPC_LOCATION)/$(SLEPC_FILE); fi &&\
cd $(INSTALL_DIR)/local &&\
rm -rf $(SLEPC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SLEPC_VERSION) &&\
mkdir -p $(SLEPC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
cd $(SLEPC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
tar -xvf $(INSTALL_DIR)/Downloads/$(SLEPC_FILE) &&\
cd $(INSTALL_DIR)/local/$(SLEPC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
mv $(SLEPC_NAME)-$(SLEPC_VERSION) $(SLEPC_VERSION) &&\
cd $(SLEPC_VERSION) &&\
export PETSC_DIR=$(INSTALL_DIR)/local/$(PETSC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PETSC_VERSION) && export PETSC_ARCH=linux-intel64 && ./configure &&\
make SLEPC_DIR=$(INSTALL_DIR)/local/$(SLEPC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SLEPC_VERSION) PETSC_DIR=$(INSTALL_DIR)/local/$(PETSC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PETSC_VERSION) PETSC_ARCH=linux-intel64 \
)

.bash_profile / .bashrc:
#==================#
# SECTION 1: aliases

alias l='ls -l'

# end of SECTION 1
#==================#

#==================#
# SECTION 2: compilers

# crt stuff
export LD_LIBRARY_PATH="/usr/lib/x86_64-linux-gnu:$LD_LIBRARY_PATH"
export LIBRARY_PATH="/usr/lib/x86_64-linux-gnu:$LD_LIBRARY_PATH"

# compiler and libraries
source ~/.bashrc_intel
source ~/.bashrc_openmpi
source ~/.bashrc_hdf5
source ~/.bashrc_papi
source ~/.bashrc_petsc
source ~/.bashrc_slepc

# end of SECTION 2
#==================#

#==================#
# SECTION 3: applications

# yales2
source ~/yales2/platforms/xxxx.bash.env

# end of SECTION 3
#==================#

.bashrc_intel:

# intel-14.0.3
source /opt/intel/composerxe/bin/compilervars.sh intel64
export INTEL_HOME="/opt/intel/composerxe"
export INTEL_INC="$INTEL_HOME/include"
export INTEL_LIB="$INTEL_HOME/lib"
export INTEL_BIN="$INTEL_HOME/bin"
export INTEL_MAN="$INTEL_HOME/man"
export PATH="$INTEL_BIN:$PATH"
export LIBRARY_PATH="$INTEL_LIB:$LIBRARY_PATH"
export LD_LIBRARY_PATH="$INTEL_LIB:$LD_LIBRARY_PATH"
export MANPATH="$INTEL_MAN:$MANPATH"

.bashrc_openmpi:

# openmpi-1.8.1 compiled with intel-14.0.3
export MPI_HOME="/local/openmpi/intel-14.0.3/1.8.1"
export MPI_INC="$MPI_HOME/include"
export MPI_LIB="$MPI_HOME/lib"
export MPI_BIN="$MPI_HOME/bin"
export MPI_MAN="$MPI_HOME/share/man"
export PATH="$MPI_BIN:$PATH"
export LIBRARY_PATH="$MPI_LIB:$LIBRARY_PATH"
export LD_LIBRARY_PATH="$MPI_LIB:$LD_LIBRARY_PATH"
export MANPATH="$MPI_MAN:$MANPATH"

.bahsrc_hdf5:

# hdf5 compiled with intel-14.0.3
export HDF5_HOME="/local/hdf5/intel-14.0.3/1.8.13"
export HDF5_INC="$HDF5_HOME/include"
export HDF5_BIN="$HDF5_HOME/bin"
export HDF5_LIB="$HDF5_HOME/lib"
export PATH="$HDF5_BIN:$PATH"
export LIBRARY_PATH="$HDF5_LIB:$LIBRARY_PATH"
export LD_LIBRARY_PATH="$HDF5_LIB:$LD_LIBRARY_PATH"

.bashrc_papi:

# papi compiled with intel-14.0.3
export PAPI_HOME="/local/papi/intel-14.0.3/5.3.0"
export PAPI_INC="$PAPI_HOME/include"
export PAPI_BIN="$PAPI_HOME/bin"
export PAPI_LIB="$PAPI_HOME/lib"
export PATH="$PAPI_BIN:$PATH"
export LIBRARY_PATH="$PAPI_LIB:$LIBRARY_PATH"
export LD_LIBRARY_PATH="$PAPI_LIB:$LD_LIBRARY_PATH"

.bashrc_petsc:

# petsc compiled with intel-14.0.3
export PETSC_HOME="/local/petsc/intel-14.0.3/3.4.4/"
export PETSC_INC="$PETSC_HOME/linux-intel64/include"
export PETSC_BIN="$PETSC_HOME/linux-intel64/bin"
export PETSC_LIB="$PETSC_HOME/linux-intel64/lib"
export PATH="$PETSC_BIN:$PATH"
export LIBRARY_PATH="$PETSC_LIB:$LIBRARY_PATH"
export LD_LIBRARY_PATH="$PETSC_LIB:$LD_LIBRARY_PATH"

.bashrc_slepc:

# slepc compiled with intel-14.0.3
export SLEPC_HOME="/local/slepc/intel-14.0.3/3.4.4/"
export SLEPC_INC="$SLEPC_HOME/linux-intel64/include"
export SLEPC_BIN="$SLEPC_HOME/linux-intel64/bin"
export SLEPC_LIB="$SLEPC_HOME/linux-intel64/lib"
export PATH="$SLEPC_BIN:$PATH"
export LIBRARY_PATH="$SLEPC_LIB:$LIBRARY_PATH"
export LD_LIBRARY_PATH="$SLEPC_LIB:$LD_LIBRARY_PATH"

'''WARNING''':
If you encounter any problem for installing freeNX, you should consider visiting [http://notepad2.blogspot.com/2011/05/install-freenx-server-on-ubuntu-1004.html this] website...

Installation script for Z800

2014-06-02T09:49:52Z

Lartigue:

Install [https://software.intel.com/fr-fr/non-commercial-software-development Intel Parallel Studio]

Makefile_gcc:

INSTALL_DIR = /

WGET = wget

GCC_VERSION = 4.8.2

NPROCS = 8

all : structure gcc

structure:
mkdir -p $(INSTALL_DIR)/Downloads
mkdir -p $(INSTALL_DIR)/Builds
mkdir -p $(INSTALL_DIR)/local

gcc:
(\
cd $(INSTALL_DIR)/Downloads && \
if [ ! -f gcc-$(GCC_VERSION).tar.bz2 ]; then $(WGET) http://gcc.cybermirror.org/releases/gcc-$(GCC_VERSION)/gcc-$(GCC_VERSION).tar.bz2; fi && \
cd $(INSTALL_DIR)/Builds && \
bunzip2 -c $(INSTALL_DIR)/Downloads/gcc-$(GCC_VERSION).tar.bz2 | tar xv && \
mv gcc-$(GCC_VERSION) gcc-$(GCC_VERSION)_src&& \
cd gcc-$(GCC_VERSION)_src && \
./contrib/download_prerequisites && \
cd ../ && \
mkdir -p $(INSTALL_DIR)/Builds/gcc-$(GCC_VERSION)_build && \
cd gcc-$(GCC_VERSION)_build && \
../gcc-$(GCC_VERSION)_src/configure --prefix=/local/gcc-$(GCC_VERSION) && \
make -j $(NPROCS) && \
make check && \
make install \
)

Makefile_packages:

default:
sudo add-apt-repository -y ppa:freenx-team
sudo apt-get update
sudo apt-get upgrade
sudo apt-get install -y freenx nvidia-current ubuntu-desktop gnome-session-fallback tcsh ssh g++ gdb gfortran cmake flex bison git gitk subversion rapidsvn vim-gnome lib32z1-dev zlib1g-dev tkcvs default-jre gparted synaptic eclipse paraview browser-plugin-gnash grace gnuplot filezilla dselect emacs xemacs21 meld hdfview vlc autogen autoconf automake cifs-utils valgrind kcachegrind

Makefile_extlib:

INSTALL_DIR = /
WGET = wget
NPROCS = 8
SHELL=/bin/bash

OPENMPI_NAME = openmpi
OPENMPI_VERSION = 1.8.1
OPENMPI_MAJOR_VERSION = 1.8
OPENMPI_LOCATION = http://www.open-mpi.org/software/ompi/v$(OPENMPI_MAJOR_VERSION)/downloads
OPENMPI_FILE = $(OPENMPI_NAME)-$(OPENMPI_VERSION).tar.bz2
OPENMPI_CONFIGURE_OPTIONS = --enable-mpi-fortran --enable-static --enable-shared

FFTW_NAME = fftw
FFTW_VERSION = 3.3.4
FFTW_LOCATION = http://www.fftw.org
FFTW_FILE = $(FFTW_NAME)-$(FFTW_VERSION).tar.gz
FFTW_CONFIGURE_OPTIONS =

HDF5_NAME = hdf5
HDF5_VERSION = 1.8.13
HDF5_LOCATION = http://www.hdfgroup.org/ftp/HDF5/current/src
HDF5_FILE = $(HDF5_NAME)-$(HDF5_VERSION).tar.bz2
HDF5_CONFIGURE_OPTIONS = --enable-fortran --enable-cxx

PARMETIS_NAME = parmetis
PARMETIS_VERSION = 4.0.3
PARMETIS_LOCATION = http://glaros.dtc.umn.edu/gkhome/fetch/sw/parmetis
PARMETIS_FILE = $(PARMETIS_NAME)-$(PARMETIS_VERSION).tar.gz
PARMETIS_CONFIGURE_OPTIONS =

SCOTCH_NAME = scotch
SCOTCH_VERSION = 6.0.0
SCOTCH_LOCATION = https://gforge.inria.fr/frs/download.php/31831
SCOTCH_FILE = $(SCOTCH_NAME)_$(SCOTCH_VERSION).tar.gz
SCOTCH_CONFIGURE_OPTIONS =

LAPACK_NAME = lapack
LAPACK_VERSION = 3.4.2
LAPACK_LOCATION = http://www.netlib.org/lapack
LAPACK_FILE = $(LAPACK_NAME)-$(LAPACK_VERSION).tgz
LAPACK_CONFIGURE_OPTIONS =

MMG3D4_NAME = mmg3d4
MMG3D4_VERSION = 4.0.1
MMG3D4_LOCATION = https://gforge.inria.fr/frs/download.php/33418
MMG3D4_FILE = $(MMG3D4_NAME)-$(MMG3D4_VERSION)-Source.tar.gz
MMG3D4_CONFIGURE_OPTIONS =

PAPI_NAME = papi
PAPI_VERSION = 5.3.0
PAPI_LOCATION = http://icl.cs.utk.edu/projects/papi/downloads
PAPI_FILE = $(PAPI_NAME)-$(PAPI_VERSION).tar.gz
PAPI_CONFIGURE_OPTIONS =

PETSC_NAME = petsc
PETSC_VERSION = 3.4.4
PETSC_LOCATION = http://ftp.mcs.anl.gov/pub/petsc/release-snapshots
PETSC_FILE = $(PETSC_NAME)-$(PETSC_VERSION).tar.gz
PETSC_CONFIGURE_OPTIONS =

SLEPC_NAME = slepc
SLEPC_VERSION = 3.4.4
SLEPC_LOCATION = http://www.grycap.upv.es/slepc/download/distrib
SLEPC_FILE = $(SLEPC_NAME)-$(SLEPC_VERSION).tar.gz
SLEPC_CONFIGURE_OPTIONS =

COMPILER_FAMILY = intel
COMPILER_VERSION = 14.0.3
COMPILER_PATH = /opt/intel/composerxe/bin
COMPILER_CC = $(COMPILER_PATH)/icc
COMPILER_MPICC = $(INSTALL_DIR)/local/$(OPENMPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(OPENMPI_VERSION)/bin/mpicc
COMPILER_CFLAGS = "-O2 -g"
COMPILER_CXX = $(COMPILER_PATH)/icpc
COMPILER_MPICXX = $(INSTALL_DIR)/local/$(OPENMPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(OPENMPI_VERSION)/bin/mpicxx
COMPILER_CXXFLAGS = "-O2 -g"
COMPILER_FC = $(COMPILER_PATH)/ifort
COMPILER_MPIFC = $(INSTALL_DIR)/local/$(OPENMPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(OPENMPI_VERSION)/bin/mpifort
COMPILER_FCFLAGS = "-O2 -g"
COMPILER_FF = $(COMPILER_PATH)/ifort
COMPILER_MPIFF = $(INSTALL_DIR)/local/$(OPENMPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(OPENMPI_VERSION)/bin/mpifort
COMPILER_FFLAGS = "-O2 -g"

default: $(OPENMPI_NAME)-$(OPENMPI_VERSION) $(FFTW_NAME)-$(FFTW_VERSION) $(HDF5_NAME)-$(HDF5_VERSION) $(PARMETIS_NAME)-$(PARMETIS_VERSION) $(SCOTCH_NAME)-$(SCOTCH_VERSION) $(LAPACK_NAME)-$(LAPACK_VERSION) $(MMG3D4_NAME)-$(MMG3D4_VERSION) $(PAPI_NAME)-$(PAPI_VERSION) $(PETSC_NAME)-$(PETSC_VERSION) $(SLEPC_NAME)-$(SLEPC_VERSION)

$(OPENMPI_NAME)-$(OPENMPI_VERSION):
(\
mkdir -p $(INSTALL_DIR)/Downloads &&\
mkdir -p $(INSTALL_DIR)/Builds &&\
mkdir -p $(INSTALL_DIR)/local &&\
cd $(INSTALL_DIR)/Downloads &&\
if [ ! -f $(OPENMPI_FILE) ]; then $(WGET) $(OPENMPI_LOCATION)/$(OPENMPI_FILE); fi &&\
cd $(INSTALL_DIR)/Builds &&\
rm -rf $(OPENMPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(OPENMPI_NAME)-$(OPENMPI_VERSION) &&\
mkdir -p $(OPENMPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
cd $(OPENMPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
tar -xvf $(INSTALL_DIR)/Downloads/$(OPENMPI_FILE) &&\
cd $(INSTALL_DIR)/Builds/$(OPENMPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(OPENMPI_NAME)-$(OPENMPI_VERSION) &&\
./configure --prefix=$(INSTALL_DIR)/local/$(OPENMPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(OPENMPI_VERSION) CC=$(COMPILER_CC) CFLAGS=$(COMPILER_CFLAGS) CXX=$(COMPILER_CXX) CXXFLAGS=$(COMPILER_CXXFLAGS) FC=$(COMPILER_FC) FCLAGS=$(COMPILER_FCFLAGS) FF=$(COMPILER_FF) FFLAGS=$(COMPILER_FFLAGS) $(OPENMPI_CONFIGURE_OPTIONS)&&\
make -j $(NPROCS) &&\
rm -rf $(INSTALL_DIR)/local/$(OPENMPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(OPENMPI_VERSION) &&\
make install\
)

$(FFTW_NAME)-$(FFTW_VERSION):
(\
mkdir -p $(INSTALL_DIR)/Downloads &&\
mkdir -p $(INSTALL_DIR)/Builds &&\
mkdir -p $(INSTALL_DIR)/local &&\
cd $(INSTALL_DIR)/Downloads &&\
if [ ! -f $(FFTW_FILE) ]; then $(WGET) $(FFTW_LOCATION)/$(FFTW_FILE); fi &&\
cd $(INSTALL_DIR)/Builds &&\
rm -rf $(FFTW_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(FFTW_NAME)-$(FFTW_VERSION) &&\
mkdir -p $(FFTW_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
cd $(FFTW_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
tar -xvf $(INSTALL_DIR)/Downloads/$(FFTW_FILE) &&\
cd $(INSTALL_DIR)/Builds/$(FFTW_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(FFTW_NAME)-$(FFTW_VERSION) &&\
./configure --prefix=$(INSTALL_DIR)/local/$(FFTW_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(FFTW_VERSION) CC=$(COMPILER_CC) CFLAGS=$(COMPILER_CFLAGS) CXX=$(COMPILER_CXX) CXXFLAGS=$(COMPILER_CXXFLAGS) FC=$(COMPILER_FC) FCLAGS=$(COMPILER_FCFLAGS) FF=$(COMPILER_FF) FFLAGS=$(COMPILER_FFLAGS) $(FFTW_CONFIGURE_OPTIONS)&&\
make -j $(NPROCS) &&\
rm -rf $(INSTALL_DIR)/local/$(FFTW_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(FFTW_VERSION) &&\
make install\
)

$(HDF5_NAME)-$(HDF5_VERSION):
(\
apt-get install zlib1g-dev &&\
mkdir -p $(INSTALL_DIR)/Downloads &&\
mkdir -p $(INSTALL_DIR)/Builds &&\
mkdir -p $(INSTALL_DIR)/local &&\
cd $(INSTALL_DIR)/Downloads &&\
if [ ! -f $(HDF5_FILE) ]; then $(WGET) $(HDF5_LOCATION)/$(HDF5_FILE); fi &&\
cd $(INSTALL_DIR)/Builds &&\
rm -rf $(HDF5_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(HDF5_NAME)-$(HDF5_VERSION) &&\
mkdir -p $(HDF5_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
cd $(HDF5_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
tar -xvf $(INSTALL_DIR)/Downloads/$(HDF5_FILE) &&\
cd $(INSTALL_DIR)/Builds/$(HDF5_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(HDF5_NAME)-$(HDF5_VERSION) &&\
./configure --prefix=$(INSTALL_DIR)/local/$(HDF5_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(HDF5_VERSION) CC=$(COMPILER_CC) CFLAGS=$(COMPILER_CFLAGS) CXX=$(COMPILER_CXX) CXXFLAGS=$(COMPILER_CXXFLAGS) FC=$(COMPILER_FC) FCLAGS=$(COMPILER_FCFLAGS) FF=$(COMPILER_FF) FFLAGS=$(COMPILER_FFLAGS) $(HDF5_CONFIGURE_OPTIONS)&&\
make -j $(NPROCS) &&\
rm -rf $(INSTALL_DIR)/local/$(HDF5_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(HDF5_VERSION) &&\
make install\
)

$(PARMETIS_NAME)-$(PARMETIS_VERSION):
(\
mkdir -p $(INSTALL_DIR)/Downloads &&\
mkdir -p $(INSTALL_DIR)/Builds &&\
mkdir -p $(INSTALL_DIR)/local &&\
rm -rf $(INSTALL_DIR)/local/$(PARMETIS_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PARMETIS_VERSION) &&\
rm -rf $(INSTALL_DIR)/Builds/$(PARMETIS_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PARMETIS_NAME)-$(PARMETIS_VERSION) &&\
mkdir -p $(INSTALL_DIR)/Builds/$(PARMETIS_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
cd $(INSTALL_DIR)/Downloads &&\
if [ ! -f $(PARMETIS_FILE) ]; then $(WGET) $(PARMETIS_LOCATION)/$(PARMETIS_FILE); fi &&\
cd $(INSTALL_DIR)/Builds/$(PARMETIS_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
tar -xvf $(INSTALL_DIR)/Downloads/$(PARMETIS_FILE) &&\
cd $(INSTALL_DIR)/Builds/$(PARMETIS_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PARMETIS_NAME)-$(PARMETIS_VERSION) &&\
cd metis &&\
sed -i 's/make -C $$(BUILDDIR) $$@ $$(MAKEFLAGS);/$$(MAKE) -C $$(BUILDDIR) $$@;/g' Makefile &&\
make config prefix=$(INSTALL_DIR)/local/$(PARMETIS_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PARMETIS_VERSION) CC=$(COMPILER_MPICC) CFLAGS=$(COMPILER_CFLAGS) CXX=$(COMPILER_MPICXX) CXXFLAGS=$(COMPILER_CXXFLAGS) FC=$(COMPILER_MPIFC) FCLAGS=$(COMPILER_FCFLAGS) FF=$(COMPILER_MPIFF) FFLAGS=$(COMPILER_FFLAGS) $(PARMETIS_CONFIGURE_OPTIONS) &&\
make &&\
make install &&\
cd .. &&\
sed -i 's/make -C $$(BUILDDIR) $$@ $$(MAKEFLAGS);/$$(MAKE) -C $$(BUILDDIR) $$@;/g' Makefile &&\
sed -i 's/cc = mpicc/cc = not-set/g' Makefile &&\
sed -i 's/cxx = mpicxx/cxx = not-set/g' Makefile &&\
make config prefix=$(INSTALL_DIR)/local/$(PARMETIS_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PARMETIS_VERSION) CC=$(COMPILER_MPICC) CFLAGS=$(COMPILER_CFLAGS) CXX=$(COMPILER_MPICXX) CXXFLAGS=$(COMPILER_CXXFLAGS) FC=$(COMPILER_MPIFC) FCLAGS=$(COMPILER_FCFLAGS) FF=$(COMPILER_MPIFF) FFLAGS=$(COMPILER_FFLAGS) $(PARMETIS_CONFIGURE_OPTIONS) &&\
make &&\
make install \
)

$(SCOTCH_NAME)-$(SCOTCH_VERSION):
(\
mkdir -p $(INSTALL_DIR)/Downloads &&\
mkdir -p $(INSTALL_DIR)/Builds &&\
mkdir -p $(INSTALL_DIR)/local &&\
cd $(INSTALL_DIR)/Downloads &&\
if [ ! -f $(SCOTCH_FILE) ]; then $(WGET) $(SCOTCH_LOCATION)/$(SCOTCH_FILE); fi &&\
cd $(INSTALL_DIR)/Builds &&\
rm -rf $(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)-$(SCOTCH_VERSION) &&\
mkdir -p $(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
cd $(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
tar -xvf $(INSTALL_DIR)/Downloads/$(SCOTCH_FILE) &&\
cd $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION) &&\
rm -rf $(INSTALL_DIR)/local/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_VERSION) &&\
echo "EXE =" > $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "LIB = .a" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "OBJ = .o" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "MAKE = make" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "AR = ar" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "ARFLAGS = -ruv" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "CAT = cat" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "CCS = $(COMPILER_MPICC)" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "CCP = $(COMPILER_MPICC)" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "CCD = $(COMPILER_MPICC)" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "CFLAGS = -O3 -DCOMMON_TIMING_OLD -DCOMMON_FILE_COMPRESS_GZ -DCOMMON_RANDOM_FIXED_SEED -DSCOTCH_RENAME -DSCOTCH_RENAME_PARSER -Drestrict=__restrict -DIDXSIZE64 -I$(COMPILER_PATH)/include" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "CLIBFLAGS =" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "LDFLAGS = -lz -lm" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "CP = cp" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "LEX = flex -Pscotchyy -olex.yy.c" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "LN = ln" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "MKDIR = mkdir -p" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "MV = mv" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "RANLIB = ranlib" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "YACC = bison -pscotchyy -y -b y" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
echo "prefix = $(INSTALL_DIR)/local/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_VERSION)" >> $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src/Makefile.inc &&\
cd $(INSTALL_DIR)/Builds/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_NAME)_$(SCOTCH_VERSION)/src &&\
make -j $(NPROCS) scotch &&\
make -j $(NPROCS) ptscotch &&\
make install\
)

$(LAPACK_NAME)-$(LAPACK_VERSION):
(\
mkdir -p $(INSTALL_DIR)/Downloads &&\
mkdir -p $(INSTALL_DIR)/Builds &&\
mkdir -p $(INSTALL_DIR)/local &&\
cd $(INSTALL_DIR)/Downloads &&\
if [ ! -f $(LAPACK_FILE) ]; then $(WGET) $(LAPACK_LOCATION)/$(LAPACK_FILE); fi &&\
cd $(INSTALL_DIR)/Builds &&\
rm -rf $(LAPACK_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(LAPACK_NAME)-$(LAPACK_VERSION) &&\
mkdir -p $(LAPACK_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
cd $(LAPACK_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
tar -xvf $(INSTALL_DIR)/Downloads/$(LAPACK_FILE) &&\
cd $(INSTALL_DIR)/Builds/$(LAPACK_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(LAPACK_NAME)-$(LAPACK_VERSION) &&\
rm -f make.inc &&\
touch make.inc &&\
echo "SHELL = /bin/sh" >> make.inc &&\
echo "FORTRAN = $(COMPILER_MPIFC)" >> make.inc &&\
echo "OPTS = $(COMPILER_FCFLAGS)" >> make.inc &&\
echo "LOADER = $(COMPILER_MPIFC)" >> make.inc &&\
echo "DRVOPTS = $(COMPILER_FCFLAGS)" >> make.inc &&\
echo "NOOPT = -O0" >> make.inc &&\
echo "LOADOPTS =" >> make.inc &&\
echo "TIMER = EXT_ETIME" >> make.inc &&\
echo "CC = $(COMPILER_MPICC)" >> make.inc &&\
echo "CFLAGS = $(COMPILER_CFLAGS)" >> make.inc &&\
echo "ARCH = ar" >> make.inc &&\
echo "ARCHFLAGS = cr" >> make.inc &&\
echo "RANLIB = ranlib" >> make.inc &&\
echo "XBLASLIB =" >> make.inc &&\
echo "BLASLIB = ../../librefblas.a" >> make.inc &&\
echo "LAPACKLIB = liblapack.a" >> make.inc &&\
echo "TMGLIB = libtmglib.a" >> make.inc &&\
echo "LAPACKELIB = liblapacke.a" >> make.inc &&\
make -j $(NPROCS) blaslib &&\
make -j $(NPROCS) lapacklib &&\
rm -rf $(INSTALL_DIR)/local/lapack/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(LAPACK_VERSION) &&\
mkdir -p $(INSTALL_DIR)/local/lapack/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(LAPACK_VERSION)/lib &&\
cp liblapack.a $(INSTALL_DIR)/local/lapack/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(LAPACK_VERSION)/lib/liblapack.a &&\
cp librefblas.a $(INSTALL_DIR)/local/lapack/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(LAPACK_VERSION)/lib/libblas.a\
)

$(MMG3D4_NAME)-$(MMG3D4_VERSION):
(\
mkdir -p $(INSTALL_DIR)/Downloads &&\
mkdir -p $(INSTALL_DIR)/Builds &&\
mkdir -p $(INSTALL_DIR)/local &&\
cd $(INSTALL_DIR)/Downloads &&\
if [ ! -f $(MMG3D4_FILE) ]; then $(WGET) $(MMG3D4_LOCATION)/$(MMG3D4_FILE); fi &&\
cd $(INSTALL_DIR)/Builds &&\
rm -rf $(MMG3D4_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(MMG3D4_NAME)-$(MMG3D4_VERSION)-Source &&\
mkdir -p $(MMG3D4_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
cd $(MMG3D4_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
tar -xvf $(INSTALL_DIR)/Downloads/$(MMG3D4_FILE) &&\
cd $(INSTALL_DIR)/Builds/$(MMG3D4_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(MMG3D4_NAME)-$(MMG3D4_VERSION)-Source &&\
export SCOTCH_DIR=$(INSTALL_DIR)/local/$(SCOTCH_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SCOTCH_VERSION) &&\
export CC=$(COMPILER_MPICC) && \
export CXX=$(COMPILER_MPICXX) && \
mkdir build &&\
cd build &&\
cmake -DCMAKE_INSTALL_PREFIX=$(INSTALL_DIR)/local/$(MMG3D4_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(MMG3D4_VERSION) .. &&\
make &&\
make install \
)

$(PAPI_NAME)-$(PAPI_VERSION):
(\
mkdir -p $(INSTALL_DIR)/Downloads &&\
mkdir -p $(INSTALL_DIR)/Builds &&\
mkdir -p $(INSTALL_DIR)/local &&\
cd $(INSTALL_DIR)/Downloads &&\
if [ ! -f $(PAPI_FILE) ]; then $(WGET) $(PAPI_LOCATION)/$(PAPI_FILE); fi &&\
cd $(INSTALL_DIR)/Builds &&\
rm -rf $(PAPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PAPI_NAME)-$(PAPI_VERSION) &&\
mkdir -p $(PAPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
cd $(PAPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
tar -xvf $(INSTALL_DIR)/Downloads/$(PAPI_FILE) &&\
cd $(INSTALL_DIR)/Builds/$(PAPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PAPI_NAME)-$(PAPI_VERSION) &&\
cd src &&\
export F77=$(COMPILER_F77) && export CC=$(COMPILER_CC) && ./configure --prefix=$(INSTALL_DIR)/local/$(PAPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PAPI_VERSION) &&\
make -j $(NPROCS)&&\
make install \
)

$(PETSC_NAME)-$(PETSC_VERSION):
(\
mkdir -p $(INSTALL_DIR)/Downloads &&\
mkdir -p $(INSTALL_DIR)/local &&\
cd $(INSTALL_DIR)/Downloads &&\
if [ ! -f $(PETSC_FILE) ]; then $(WGET) $(PETSC_LOCATION)/$(PETSC_FILE); fi &&\
cd $(INSTALL_DIR)/local &&\
rm -rf $(PETSC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PETSC_VERSION) &&\
mkdir -p $(PETSC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
cd $(PETSC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
tar -xvf $(INSTALL_DIR)/Downloads/$(PETSC_FILE) &&\
cd $(INSTALL_DIR)/local/$(PETSC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
mv $(PETSC_NAME)-$(PETSC_VERSION) $(PETSC_VERSION) &&\
cd $(PETSC_VERSION) &&\
unset PETSC_DIR && ./configure PETSC_ARCH=linux-intel64 --with-mpi-dir=$(INSTALL_DIR)/local/$(OPENMPI_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(OPENMPI_VERSION) --download-hypre --with-blas-lapack-dir=/opt/intel/mkl &&\
make PETSC_DIR=$(INSTALL_DIR)/local/$(PETSC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PETSC_VERSION) PETSC_ARCH=linux-intel64 all \
)

$(SLEPC_NAME)-$(SLEPC_VERSION):
(\
mkdir -p $(INSTALL_DIR)/Downloads &&\
mkdir -p $(INSTALL_DIR)/local &&\
cd $(INSTALL_DIR)/Downloads &&\
if [ ! -f $(SLEPC_FILE) ]; then $(WGET) $(SLEPC_LOCATION)/$(SLEPC_FILE); fi &&\
cd $(INSTALL_DIR)/local &&\
rm -rf $(SLEPC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SLEPC_VERSION) &&\
mkdir -p $(SLEPC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
cd $(SLEPC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
tar -xvf $(INSTALL_DIR)/Downloads/$(SLEPC_FILE) &&\
cd $(INSTALL_DIR)/local/$(SLEPC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION) &&\
mv $(SLEPC_NAME)-$(SLEPC_VERSION) $(SLEPC_VERSION) &&\
cd $(SLEPC_VERSION) &&\
export PETSC_DIR=$(INSTALL_DIR)/local/$(PETSC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PETSC_VERSION) && export PETSC_ARCH=linux-intel64 && ./configure &&\
make SLEPC_DIR=$(INSTALL_DIR)/local/$(SLEPC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(SLEPC_VERSION) PETSC_DIR=$(INSTALL_DIR)/local/$(PETSC_NAME)/$(COMPILER_FAMILY)-$(COMPILER_VERSION)/$(PETSC_VERSION) PETSC_ARCH=linux-intel64 \
)

.bash_profile / .bashrc:
#==================#
# SECTION 1: aliases

alias l='ls -l'

# end of SECTION 1
#==================#

#==================#
# SECTION 2: compilers

# crt stuff
export LD_LIBRARY_PATH="/usr/lib/x86_64-linux-gnu:$LD_LIBRARY_PATH"
export LIBRARY_PATH="/usr/lib/x86_64-linux-gnu:$LD_LIBRARY_PATH"

# compiler and libraries
source ~/.bashrc_intel
source ~/.bashrc_openmpi
source ~/.bashrc_hdf5
source ~/.bashrc_papi
source ~/.bashrc_petsc
source ~/.bashrc_slepc

# end of SECTION 2
#==================#

#==================#
# SECTION 3: applications

# yales2
source ~/yales2/platforms/xxxx.bash.env

# end of SECTION 3
#==================#

.bashrc_intel:

# intel-14.0.3
source /opt/intel/composerxe/bin/compilervars.sh intel64
export INTEL_HOME="/opt/intel/composerxe"
export INTEL_INC="$INTEL_HOME/include"
export INTEL_LIB="$INTEL_HOME/lib"
export INTEL_BIN="$INTEL_HOME/bin"
export INTEL_MAN="$INTEL_HOME/man"
export PATH="$INTEL_BIN:$PATH"
export LIBRARY_PATH="$INTEL_LIB:$LIBRARY_PATH"
export LD_LIBRARY_PATH="$INTEL_LIB:$LD_LIBRARY_PATH"
export MANPATH="$INTEL_MAN:$MANPATH"

.bashrc_openmpi:

# openmpi-1.8.1 compiled with intel-14.0.3
export MPI_HOME="/local/openmpi/intel-14.0.3/1.8.1"
export MPI_INC="$MPI_HOME/include"
export MPI_LIB="$MPI_HOME/lib"
export MPI_BIN="$MPI_HOME/bin"
export MPI_MAN="$MPI_HOME/share/man"
export PATH="$MPI_BIN:$PATH"
export LIBRARY_PATH="$MPI_LIB:$LIBRARY_PATH"
export LD_LIBRARY_PATH="$MPI_LIB:$LD_LIBRARY_PATH"
export MANPATH="$MPI_MAN:$MANPATH"

.bahsrc_hdf5:

# hdf5 compiled with intel-14.0.3
export HDF5_HOME="/local/hdf5/intel-14.0.3/1.8.13"
export HDF5_INC="$HDF5_HOME/include"
export HDF5_BIN="$HDF5_HOME/bin"
export HDF5_LIB="$HDF5_HOME/lib"
export PATH="$HDF5_BIN:$PATH"
export LIBRARY_PATH="$HDF5_LIB:$LIBRARY_PATH"
export LD_LIBRARY_PATH="$HDF5_LIB:$LD_LIBRARY_PATH"

.bashrc_papi:

# papi compiled with intel-14.0.3
export PAPI_HOME="/local/papi/intel-14.0.3/5.3.0"
export PAPI_INC="$PAPI_HOME/include"
export PAPI_BIN="$PAPI_HOME/bin"
export PAPI_LIB="$PAPI_HOME/lib"
export PATH="$PAPI_BIN:$PATH"
export LIBRARY_PATH="$PAPI_LIB:$LIBRARY_PATH"
export LD_LIBRARY_PATH="$PAPI_LIB:$LD_LIBRARY_PATH"

.bashrc_petsc:

# petsc compiled with intel-14.0.3
export PETSC_HOME="/local/petsc/intel-14.0.3/3.4.4/"
export PETSC_INC="$PETSC_HOME/linux-intel64/include"
export PETSC_BIN="$PETSC_HOME/linux-intel64/bin"
export PETSC_LIB="$PETSC_HOME/linux-intel64/lib"
export PATH="$PETSC_BIN:$PATH"
export LIBRARY_PATH="$PETSC_LIB:$LIBRARY_PATH"
export LD_LIBRARY_PATH="$PETSC_LIB:$LD_LIBRARY_PATH"

.bashrc_slepc:

# slepc compiled with intel-14.0.3
export SLEPC_HOME="/local/slepc/intel-14.0.3/3.4.4/"
export SLEPC_INC="$SLEPC_HOME/linux-intel64/include"
export SLEPC_BIN="$SLEPC_HOME/linux-intel64/bin"
export SLEPC_LIB="$SLEPC_HOME/linux-intel64/lib"
export PATH="$SLEPC_BIN:$PATH"
export LIBRARY_PATH="$SLEPC_LIB:$LIBRARY_PATH"
export LD_LIBRARY_PATH="$SLEPC_LIB:$LD_LIBRARY_PATH"

'''WARNING''':
If you encounter any problem for installing freeNX, you should consider visiting [http://notepad2.blogspot.com/2011/05/install-freenx-server-on-ubuntu-1004.html this] website...