FVCOM setup notes

The FVCOM source code can be downloaded from https://github.com/FVCOM-GitHub
Triton has the Intel compiler pre-installed which can be activated using the command: module load intel/2016/2016.3.210
Before compiling FVCOM, the required packages netcdf-c, netcdf-fortran, and their dependencies: curl, hdf5, zlib need to be downloadad and compiled with the same Intel compiler. The following commands may be helpful:

export CC=icc
export CXX=icpc
export CFLAGS='-O3 -xHost -ip -no-prec-div -static-intel'
export CXXFLAGS='-O3 -xHost -ip -no-prec-div -static-intel'
export F77=ifort
export FC=ifort
export F90=ifort
export FFLAGS='-O3 -xHost -ip -no-prec-div -static-intel'
export CPP='icc -E'
export CXXCPP='icpc -E'

cd netcdf-c-4.7.0
./configure --prefix=/d1/cliu/netcdf_4_intel --disable-netcdf-4
make
make check
make install

cd netcdf-fortran-4.4.5
export CPPFLAGS=-I/d1/cliu/netcdf_4_intel/include
export LDFLAGS=-L/d1/cliu/netcdf_4_intel/lib
export LD_LIBRARY_PATH=/d1/cliu/netcdf_4_intel/lib:${LD_LIBRARY_PATH}
./configure --prefix=/d1/cliu/netcdf_4_intel
make
make check
make install

When compiling FVCOM with SWAVE enabled, make sure to turn off the double precision flag in the make.inc file, otherwize SWAVE would not work.
In addition to the FVCOM User Manual, the (now defunct) UK FVCOM wiki website provides useful tutorials and tips, and can be accessed via The Internet Archive here.
Example slurm script run.slurm for running FVCOM:

#!/bin/bash
#SBATCH --job-name=fvcom-MYS_Sandy
#SBATCH --output=test-%j.out
#SBATCH --error=test-%j.err
#SBATCH --partition=defq
#SBATCH --nodes=1
#SBATCH --ntasks-per-node=56
#SBATCH --nodelist=node004

# . /etc/profile.d/modules.sh
# after initializiation you can load a module
# module load openmpi/gcc/64/1.6.4-mlnx-ofed
date
module load intel/2016/2016.3.210
if [[ -z $SLURM_NTASKS ]]; then
    NTASKS=10
else
    NTASKS=$SLURM_NTASKS
fi
echo Number of workers: $NTASKS

# job commands:

mpiexec.hydra ./fvcom-swave_442_intel --casename=MYS

date

Model_scripts/FVCOM setup.md

FVCOM setup notes