I use ifort v. 11.1, netcdf-4, hdf5 and openMP.
When I run ./build.bash -j 2 it stop without oceanO file creation:
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ar: creating /usr/local/ROMS/Include/Build/libNLM.a
ranlib /usr/local/ROMS/Include/Build/libNLM.a
/opt/intel/Compiler/11.1/056/bin/intel64/ifort -heap-arrays -fp-model precise -openmp -fpp -ip -O3 -xW -Vaxlib /usr/local/ROMS/Include/Build/esmf_roms.o /usr/local/ROMS/Include/Build/master.o /usr/local/ROMS/Include/Build/ocean_control.o /usr/local/ROMS/Include/Build/ocean_coupler.o /usr/local/ROMS/Include/Build/propagator.o /usr/local/ROMS/Include/Build/roms_export.o /usr/local/ROMS/Include/Build/roms_import.o -o /usr/local/ROMS/Include/oceanO /usr/local/ROMS/Include/Build/libNLM.a /usr/local/ROMS/Include/Build/libNLM_bio.a /usr/local/ROMS/Include/Build/libNLM_sed.a /usr/local/ROMS/Include/Build/libANA.a /usr/local/ROMS/Include/Build/libUTIL.a /usr/local/ROMS/Include/Build/libMODS.a -L/usr/local/lib -lnetcdf -L/usr/local/lib -lhdf5_hl -lhdf5 -lz
[root@stam local]#
If I run makefile or ./build.bash (without -j 2) i've received oceanO file.
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cd Build; /opt/intel/Compiler/11.1/056/bin/intel64/ifort -c -heap-arrays -fp-model precise -openmp -fpp -ip -O3 -xW master.f90
/opt/intel/Compiler/11.1/056/bin/intel64/ifort -heap-arrays -fp-model precise -openmp -fpp -ip -O3 -xW -Vaxlib Build/esmf_roms.o Build/master.o Build/ocean_control.o Build/ocean_coupler.o Build/propagator.o Build/roms_export.o Build/roms_import.o -o oceanO Build/libNLM.a Build/libNLM_bio.a Build/libNLM_sed.a Build/libANA.a Build/libUTIL.a Build/libMODS.a -L/usr/local/lib -lnetcdf -L/usr/local/lib -lhdf5_hl -lhdf5 -lz
rm -f -r /usr/local/Compilers/make_macros.mk
[root@stam local]#
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#!/bin/bash
#
# svn $Id: build.bash 365 2009-07-09 03:16:28Z arango $
#::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
# Copyright (c) 2002-2009 The ROMS/TOMS Group :::
# Licensed under a MIT/X style license :::
# See License_ROMS.txt :::
#::::::::::::::::::::::::::::::::::::::::::::::::::::: Hernan G. Arango :::
# :::
# ROMS/TOMS Compiling Script :::
# :::
# Script to compile an user application where the application-specific :::
# files are kept separate from the ROMS source code. :::
# :::
# Q: How/why does this script work? :::
# :::
# A: The ROMS makefile configures user-defined options with a set of :::
# flags such as ROMS_APPLICATION. Browse the makefile to see these. :::
# If an option in the makefile uses the syntax ?= in setting the :::
# default, this means that make will check whether an environment :::
# variable by that name is set in the shell that calls make. If so :::
# the environment variable value overrides the default (and the :::
# user need not maintain separate makefiles, or frequently edit :::
# the makefile, to run separate applications). :::
# :::
# Usage: :::
# :::
# ./build.bash [options] :::
# :::
# Options: :::
# :::
# -j [N] Compile in parallel using N CPUs :::
# omit argument for all available CPUs :::
# -noclean Do not clean already compiled objects :::
# :::
# Notice that sometimes the parallel compilation fail to find MPI :::
# include file "mpif.h". :::
# :::
#::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
parallel=0
clean=1
while [ $# -gt 0 ]
do
case "$1" in
-j )
shift
parallel=1
test=`echo $1 | grep -P '^\d+$'`
if [ "$test" != "" ]; then
NCPUS="-j $1"
shift
else
NCPUS="-j"
fi
;;
-noclean )
shift
clean=0
;;
* )
echo ""
echo "$0 : Unknown option [ $1 ]"
echo ""
echo "Available Options:"
echo ""
echo "-j [N] Compile in parallel using N CPUs"
echo " omit argument for all avaliable CPUs"
echo "-noclean Do not clean already compiled objects"
echo ""
exit 1
;;
esac
done
# Set the CPP option defining the particular application. This will
# determine the name of the ".h" header file with the application
# CPP definitions.
export ROMS_APPLICATION=UPWELLING
# Set number of nested/composed/mosaic grids. Currently, only one grid
# is supported.
export NestedGrids=1
# Set a local environmental variable to define the path to the directories
# where all this project's files are kept.
export MY_ROOT_DIR=/usr/local
export MY_PROJECT_DIR=${PWD}/ROMS/Include
# The path to the user's local current ROMS source code.
#
# If using svn locally, this would be the user's Working Copy Path (WCPATH).
# Note that one advantage of maintaining your source code locally with svn
# is that when working simultaneously on multiple machines (e.g. a local
# workstation, a local cluster and a remote supercomputer) you can checkout
# the latest release and always get an up-to-date customized source on each
# machine. This script is designed to more easily allow for differing paths
# to the code and inputs on differing machines.
export MY_ROMS_SRC=${MY_ROOT_DIR}
# Set path of the directory containing makefile configuration (*.mk) files.
# The user has the option to specify a customized version of these files
# in a different directory than the one distributed with the source code,
# ${MY_ROMS_SCR}/Compilers. If this is the case, the you need to keep
# these configurations files up-to-date.
#export COMPILERS=${MY_ROMS_SRC}/Compilers
# Set tunable CPP options.
#
# Sometimes it is desirable to activate one or more CPP options to run
# different variants of the same application without modifying its header
# file. If this is the case, specify each options here using the -D syntax.
# Notice also that you need to use shell's quoting syntax to enclose the
# definition. Both single or double quotes works. For example, to write
# time-averaged fields set:
#
#export MY_CPP_FLAGS="-DAVERAGES"
# Other user defined environmental variables. See the ROMS makefile for
# details on other options the user might want to set here. Be sure to
# leave the switched meant to be off set to an empty string or commented
# out. Any string value (including off) will evaluate to TRUE in
# conditional if-stamentents.
#export USE_MPI=on
#export USE_MPIF90=on
export FORT=ifort
export USE_OpenMP=on
#export USE_DEBUG=on
export USE_LARGE=on
export USE_NETCDF4=on
# There are several MPI libraries out there. The user can select here the
# appropriate "mpif90" script to compile, provided that the makefile
# macro file (say, Linux-pgi.mk) in the Compilers directory has:
#
# FC := mpif90
#
# "mpif90" defined without any path. Recall that you still need to use the
# appropriate "mpirun" to execute. Also notice that the path where the
# MPI library is installed is computer dependent.
if [ -n "${USE_MPIF90:+1}" ]; then
case "$FORT" in
ifort )
# export PATH=/opt/intelsoft/mpich/bin:$PATH
export PATH=/opt/intelsoft/mpich2/bin:$PATH
# export PATH=/opt/intelsoft/openmpi/bin:$PATH
;;
pgi )
# export PATH=/opt/pgisoft/mpich/bin:$PATH
export PATH=/opt/pgisoft/mpich2/bin:$PATH
# export PATH=/opt/pgisoft/openmpi/bin:$PATH
;;
gfortran )
# export PATH=/opt/gfortransoft/mpich2/bin:$PATH
export PATH=/opt/gfortansoft/openmpi/bin:$PATH
;;
g95 )
# export PATH=/opt/g95soft/mpich2/bin:$PATH
export PATH=/opt/g95soft/openmpi/bin:$PATH
;;
esac
fi
# The path of the libraries required by ROMS can be set here using
# environmental variables which take precedence to the values
# specified in the makefile macro definitions file (Compilers/*.mk).
# If so desired, uncomment the local USE_MY_LIBS definition below
# and edit the paths to your values. For most applications, only
# the location of the NetCDF library (NETCDF_LIBDIR) and include
# directorry (NETCDF_INCDIR) are needed!
#
# Notice that when the USE_NETCDF4 macro is activated, we need a
# serial and parallel version of the NetCDF-4/HDF5 library. The
# parallel library uses parallel I/O through MPI-I/O so we need
# compile also with the MPI library. This is fine in ROMS
# distributed-memory applications. However, in serial or
# shared-memory ROMS applications we need to use the serial
# version of the NetCDF-4/HDF5 to avoid conflicts with the
# compiler. Recall also that the MPI library comes in several
# flavors: MPICH, MPICH2, OpenMPI.
#export USE_MY_LIBS=on
if [ -n "${USE_MY_LIBS:+1}" ]; then
case "$FORT" in
ifort )
export ESMF_DIR=/opt/intelsoft/esmf-3.1.0
export ESMF_OS=Linux
export ESMF_COMPILER=ifort
export ESMF_BOPT=O
export ESMF_ABI=64
export ESMF_COMM=mpich
export ESMF_SITE=default
export MCT_INCDIR=/opt/intelsoft/mct/include
export MCT_LIBDIR=/opt/intelsoft/mct/lib
export ARPACK_LIBDIR=/opt/intelsoft/serial/ARPACK
if [ -n "${USE_MPI:+1}" ]; then
# export PARPACK_LIBDIR=/opt/intelsoft/mpich/PARPACK
export PARPACK_LIBDIR=/opt/intelsoft/mpich2/PARPACK
# export PARPACK_LIBDIR=/opt/intelsoft/openmpi/PARPACK
fi
if [ -n "${USE_NETCDF4:+1}" ]; then
if [ -n "${USE_MPI:+1}" ]; then
# export NETCDF_INCDIR=/opt/intelsoft/mpich/netcdf4/include
# export NETCDF_LIBDIR=/opt/intelsoft/mpich/netcdf4/lib
# export HDF5_LIBDIR=/opt/intelsoft/mpich/hdf5/lib
export NETCDF_INCDIR=/opt/intelsoft/mpich2/netcdf4/include
export NETCDF_LIBDIR=/opt/intelsoft/mpich2/netcdf4/lib
export HDF5_LIBDIR=/opt/intelsoft/mpich2/hdf5/lib
# export NETCDF_INCDIR=/opt/intelsoft/openmpi/netcdf4/include
# export NETCDF_LIBDIR=/opt/intelsoft/openmpi/netcdf4/lib
# export HDF5_LIBDIR=/opt/intelsoft/openmpi/hdf5/lib
else
export NETCDF_INCDIR=/usr/local/include
export NETCDF_LIBDIR=/usr/local/lib
export HDF5_LIBDIR=/usr/local/lib
fi
else
export NETCDF_INCDIR=/opt/intelsoft/serial/netcdf3/include
export NETCDF_LIBDIR=/opt/intelsoft/serial/netcdf3/lib
fi
;;
pgi )
export ESMF_DIR=/opt/pgisoft/esmf-3.1.0
export ESMF_OS=Linux
export ESMF_COMPILER=pgi
export ESMF_BOPT=O
export ESMF_ABI=64
export ESMF_COMM=mpich
export ESMF_SITE=default
export MCT_INCDIR=/opt/pgisoft/mct/include
export MCT_LIBDIR=/opt/pgisoft/mct/lib
export ARPACK_LIBDIR=/opt/pgisoft/serial/ARPACK
if [ -n "${USE_MPI:+1}" ]; then
export PARPACK_LIBDIR=/opt/pgisoft/mpich/PARPACK
# export PARPACK_LIBDIR=/opt/pgisoft/mpich2/PARPACK
# export PARPACK_LIBDIR=/opt/pgisoft/openmpi/PARPACK
fi
if [ -n "${USE_NETCDF4:+1}" ]; then
if [ -n "${USE_MPI:+1}" ]; then
# export NETCDF_INCDIR=/opt/pgisoft/mpich/netcdf4/include
# export NETCDF_LIBDIR=/opt/pgisoft/mpich/netcdf4/lib
# export HDF5_LIBDIR=/opt/pgisoft/mpich/hdf5/lib
export NETCDF_INCDIR=/opt/pgisoft/mpich2/netcdf4/include
export NETCDF_LIBDIR=/opt/pgisoft/mpich2/netcdf4/lib
export HDF5_LIBDIR=/opt/pgisoft/mpich2/hdf5/lib
# export NETCDF_INCDIR=/opt/pgisoft/openmpi/netcdf4/include
# export NETCDF_LIBDIR=/opt/pgisoft/openmpi/netcdf4/lib
# export HDF5_LIBDIR=/opt/pgisoft/openmpi/hdf5/lib
else
export NETCDF_INCDIR=/opt/pgisoft/serial/netcdf4/include
export NETCDF_LIBDIR=/opt/pgisoft/serial/netcdf4/lib
export HDF5_LIBDIR=/opt/pgisoft/serial/hdf5/lib
fi
else
export NETCDF_INCDIR=/opt/pgisoft/serial/netcdf3/include
export NETCDF_LIBDIR=/opt/pgisoft/serial/netcdf3/lib
fi
;;
gfortran )
export MCT_INCDIR=/opt/gfortransoft/mct/include
export MCT_LIBDIR=/opt/gfortransoft/mct/lib
export ARPACK_LIBDIR=/opt/gfortransoft/serial/ARPACK
if [ -n "${USE_MPI:+1}" ]; then
# export PARPACK_LIBDIR=/opt/gfortransoft/mpich/PARPACK
export PARPACK_LIBDIR=/opt/gfortransoft/mpich2/PARPACK
# export PARPACK_LIBDIR=/opt/gfortransoft/openmpi/PARPACK
fi
if [ -n "${USE_NETCDF4:+1}" ]; then
if [ -n "${USE_MPI:+1}" ]; then
# export NETCDF_INCDIR=/opt/gfortransoft/mpich/netcdf4/include
# export NETCDF_LIBDIR=/opt/gfortransoft/mpich/netcdf4/lib
# export HDF5_LIBDIR=/opt/gfortransoft/mpich/hdf5/lib
export NETCDF_INCDIR=/opt/gfortransoft/mpich2/netcdf4/include
export NETCDF_LIBDIR=/opt/gfortransoft/mpich2/netcdf4/lib
export HDF5_LIBDIR=/opt/gfortransoft/mpich2/hdf5/lib
# export NETCDF_INCDIR=/opt/gfortransoft/openmpi/netcdf4/include
# export NETCDF_LIBDIR=/opt/gfortransoft/openmpi/netcdf4/lib
# export HDF5_LIBDIR=/opt/gfortransoft/openmpi/hdf5/lib
else
export NETCDF_INCDIR=/opt/gfortransoft/serial/netcdf4/include
export NETCDF_LIBDIR=/opt/gfortransoft/serial/netcdf4/lib
export HDF5_LIBDIR=/opt/gfortransoft/serial/hdf5/lib
fi
else
export NETCDF_INCDIR=/opt/gfortransoft/serial/netcdf3/include
export NETCDF_LIBDIR=/opt/gfortransoft/serial/netcdf3/lib
fi
;;
g95 )
export MCT_INCDIR=/opt/g95soft/mct/include
export MCT_LIBDIR=/opt/g95soft/mct/lib
export ARPACK_LIBDIR=/opt/g95soft/serial/ARPACK
if [ -n "${USE_MPI:+1}" ]; then
# export PARPACK_LIBDIR=/opt/g95soft/mpich/PARPACK
export PARPACK_LIBDIR=/opt/g95soft/mpich2/PARPACK
export PARPACK_LIBDIR=/opt/g95soft/openmpi/PARPACK
fi
if [ -n "${USE_NETCDF4:+1}" ]; then
if [ -n "${USE_MPI:+1}" ]; then
export NETCDF_INCDIR=/opt/g95soft/mpich2/netcdf4/include
export NETCDF_LIBDIR=/opt/g95soft/mpich2/netcdf4/lib
export HDF5_LIBDIR=/opt/g95soft/mpich2/hdf5/lib
# export NETCDF_INCDIR=/opt/g95soft/openmpi/netcdf4/include
# export NETCDF_LIBDIR=/opt/g95soft/openmpi/netcdf4/lib
# export HDF5_LIBDIR=/opt/g95soft/openmpi/hdf5/lib
else
export NETCDF_INCDIR=/opt/g95soft/serial/netcdf4/include
export NETCDF_LIBDIR=/opt/g95soft/serial/netcdf4/lib
export HDF5_LIBDIR=/opt/g95soft/serial/hdf5/lib
fi
else
export NETCDF_INCDIR=/opt/g95soft/serial/netcdf3/include
export NETCDF_LIBDIR=/opt/g95soft/serial/netcdf3/lib
fi
;;
esac
fi
# The rest of this script sets the path to the users header file and
# analytical source files, if any. See the templates in User/Functionals.
#
# If applicable, use the MY_ANALYTICAL_DIR directory to place your
# customized biology model header file (like fennel.h, nemuro.h, ecosim.h,
# etc).
export MY_HEADER_DIR=${MY_PROJECT_DIR}
export MY_ANALYTICAL_DIR=${MY_PROJECT_DIR}
# Put the binary to execute in the following directory.
export BINDIR=${MY_PROJECT_DIR}
# Put the f90 files in a project specific Build directory to avoid conflict
# with other projects.
export SCRATCH_DIR=${MY_PROJECT_DIR}/Build
# Go to the users source directory to compile. The options set above will
# pick up the application-specific code from the appropriate place.
cd ${MY_ROMS_SRC}
# Remove build directory.
if [ $clean -eq 1 ]; then
make clean
fi
# Compile (the binary will go to BINDIR set above).
if [ $parallel -eq 1 ]; then
make $NCPUS
else
make
fi
Thanks in advance
