#$Id: .palm.config.idefix 4814 2020-12-09 13:08:08Z banzhafs $
#This configuration file is for running jobs locally (interactive or batch mode)
#on host idefix.
#-------------------------------------------------------------------------------
#column 1          column 2
#name of variable  value of variable (~ must not be used)
#-------------------------------------------------------------------------------
%base_directory      $HOME/palm/current_version
%base_data           ~/palm/current_version/JOBS
%source_path         $HOME/palm/current_version/trunk/SOURCE
%user_source_path    $base_directory/JOBS/$run_identifier/USER_CODE
%fast_io_catalog     /work/<replace_by_your_IDEFIX_username>
%restart_data_path    $fast_io_catalog
%output_data_path    /work/<replace_by_your_IDEFIX_username>/JOBS/
%local_jobcatalog    $base_data/$run_identifier/LOG_FILES
%remote_jobcatalog   $base_data/$run_identifier/LOG_FILES

%local_ip            130.75.105.239
%local_username      <replace_by_your_IDEFIX_username>
%defaultqueue        workq
%submit_command      /opt/pbspro/default/bin/qsub

%compiler_name       mpif90
%compiler_name_ser   ifort
%cpp_options         -cpp -D__parallel -DMPI_REAL=MPI_DOUBLE_PRECISION -DMPI_2REAL=MPI_2DOUBLE_PRECISION -D__netcdf -D__netcdf4 -D__netcdf4_parallel -D__fftw -D__intel_compiler
%make_options        -j 4
%compiler_options    -fpe0 -O3 -cpp -fp-model source -ftz -no-prec-div -no-prec-sqrt -ip -I /opt/netcdf4_hdf5parallel/4411c_443f/intel/include -L/opt/netcdf4_hdf5parallel/4411c_443f/intel/lib -L/opt/hdf5-parallel/1.10.0-patch1/intel/lib -lnetcdf -lnetcdff -I /opt/fftw/3.3.6-pl1/mvapich2-intel/include -L/opt/fftw/3.3.6-pl1/mvapich2-intel/lib -lfftw3
%linker_options      -fpe0 -O3 -cpp -fp-model source -ftz -no-prec-div -no-prec-sqrt -ip -I /opt/netcdf4_hdf5parallel/4411c_443f/intel/include -L/opt/netcdf4_hdf5parallel/4411c_443f/intel/lib -L/opt/hdf5-parallel/1.10.0-patch1/intel/lib -lnetcdf -lnetcdff -I /opt/fftw/3.3.6-pl1/mvapich2-intel/include -L/opt/fftw/3.3.6-pl1/mvapich2-intel/lib -lfftw3
%hostfile            auto
%module_commands     module load intel-compiler/2017.1.132 mvapich2/2.2/intel fftw/3.3.6-pl1/mvapich2-intel hdf5-parallel/1.10.0-patch1/intel netcdf4_hdf5parallel/4411c_443f/intel
%execute_command     mpirun  -machinefile hostfile  -n {{mpi_tasks}} palm

# BATCH-directives to be used for batch jobs.
BD:#!/bin/bash
BD:#PBS -N{{run_id}}
BD:#PBS -l walltime={{cpu_hours}}:{{cpu_minutes}}:{{cpu_seconds}}
BD:#PBS -l ncpus={{cores}}
BD:#PBS -o{{job_protocol_file}}
BD:#PBS -j oe
BD:#PBS -q{{queue}}

# BATCH-directives for batch jobs used to send back the jobfile from a remote to a local host
BDT:#!/bin/bash
BDT:#PBS -N job_protocol_transfer
BDT:#PBS -l walltime=00:30:00
BDT:#PBS -l ncpus=1
BDT:#PBS -o{{job_transfer_protocol_file}}
BDT:#PBS -j oe
BDT:#PBS -q workq

#----------------------------------------------------------------------------
# INPUT-commands, executed before running PALM - lines must start with "IC:"
#----------------------------------------------------------------------------
IC:export MV2_ENABLE_AFFINITY=0
IC:export MV2_SHOW_CPU_BINDING=1
IC:export MV2_CPU_BINDING_POLICY=scatter
IC:ulimit -s unlimited

#----------------------------------------------------------------------------
# ERROR-commands - executed when program terminates abnormally
#----------------------------------------------------------------------------
EC:[[ \$locat = execution ]]  &&  cat  RUN_CONTROL
EC:[[ \$locat = execution ]]  &&  cat  PARTICLE_INFOS/*

#----------------------------------------------------------------------------
# OUTPUT-commands - executed when program terminates normally
#----------------------------------------------------------------------------
# Combine 1D- and 3D-profile output (these files are not usable for plotting)
OC:[[ -f LIST_PROFIL_1D     ]]  &&  cat  LIST_PROFIL_1D  >>  LIST_PROFILE
OC:[[ -f LIST_PROFIL        ]]  &&  cat  LIST_PROFIL     >>  LIST_PROFILE

# Combine all particle information files
OC:[[ -f PARTICLE_INFOS/_0000 ]]  &&  cat  PARTICLE_INFOS/* >> PARTICLE_INFO