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Changeset 4814


Ignore:
Timestamp:
Dec 9, 2020 1:08:08 PM (3 years ago)
Author:
gronemeier
Message:

add additional output paths to palm.iofiles and update configuration files accordingly

Location:
palm/trunk/SCRIPTS
Files:
14 edited

Legend:

Unmodified
Added
Removed

  • palm/trunk/SCRIPTS/.palm.config.atosb

    r4809 r4814  
    33#name of variable  value of variable (~ must not be used)
    44#----------------------------------------------------------------------------
     5%base_directory      $HOME/palm/current_version
    56%base_data           $HOME/palm/current_version/JOBS
    6 %base_directory      $HOME/palm/current_version
    77%source_path         $HOME/palm/current_version/trunk/SOURCE
    8 %user_source_path    $base_directory/JOBS/$run_identifier/USER_CODE
     8%user_source_path    $base_data/$run_identifier/USER_CODE
    99%fast_io_catalog     /scratch/usr/<replace_by_your_HLRN_username>
    10 %local_jobcatalog    /home/<replace_by_your_local_username>/job_logfiles
    11 %remote_jobcatalog   /home/<replace_by_your_HLRN_username>/job_logfiles
     10%restart_data_path   $fast_io_catalog
     11%output_data_path    $base_data
     12%local_jobcatalog    $base_data/$run_identifier/LOG_FILES
     13%remote_jobcatalog   $base_data/$run_identifier/LOG_FILES
    1214
    1315%local_ip            <replace by IP of your local computer>
    1416%local_username      <replace_by_your_local_username>
    15 %remote_ip           130.75.105.103
     17%remote_ip           130.73.234.1
    1618%remote_loginnode    blogin1
    1719%remote_username     <replace_by_your_HLRN_username>
    1820%ssh_key             id_rsa_hlrn
    1921%defaultqueue        standard96:test
     22%project_account     <replace_by_your_default_HLRN_project_account>
    2023%submit_command      /cm/shared/apps/slurm/current/bin/sbatch
    2124
    … …  
    3336# BATCH-directives to be used for batch jobs. If $-characters are required, hide them with 3 backslashes
    3437BD:#!/bin/bash
     38#BD:#SBATCH --dependency=afterany:{{previous_job}}
     39BD:#SBATCH -A {{project_account}}
    3540BD:#SBATCH --job-name={{run_id}}
    3641BD:#SBATCH --time={{cpu_hours}}:{{cpu_minutes}}:{{cpu_seconds}}
    … …  
    4146BD:#SBATCH --output={{job_protocol_file}}
    4247BD:#SBATCH --error={{job_protocol_file}}
     48#BD:#SBATCH --mail-type=ALL
     49#BD:#SBATCH --mail-user=<replace_by_your_email_address>
    4350
    4451# BATCH-directives for batch jobs used to send back the jobfile from a remote to a local host
    4552BDT:#!/bin/bash
     53BDT:#SBATCH -A {{project_account}}
    4654BDT:#SBATCH --job-name=job_transfer
    4755BDT:#SBATCH --time=00:30:00
    … …  
    7482# OUTPUT-commands - executed when program terminates normally
    7583#----------------------------------------------------------------------------
    76 
    7784# Combine 1D- and 3D-profile output (these files are not usable for plotting)
    7885#OC:[[ -f LIST_PROFIL_1D     ]]  &&  cat  LIST_PROFIL_1D  >>  LIST_PROFILE

  • palm/trunk/SCRIPTS/.palm.config.atosb_debug

    r4809 r4814  
    33#name of variable  value of variable (~ must not be used)
    44#----------------------------------------------------------------------------
     5%base_directory      $HOME/palm/current_version
    56%base_data           $HOME/palm/current_version/JOBS
    6 %base_directory      $HOME/palm/current_version
    77%source_path         $HOME/palm/current_version/trunk/SOURCE
    8 %user_source_path    $base_directory/JOBS/$run_identifier/USER_CODE
     8%user_source_path    $base_data/$run_identifier/USER_CODE
    99%fast_io_catalog     /scratch/usr/<replace_by_your_HLRN_username>
    10 %local_jobcatalog    /home/<replace_by_your_local_username>/job_logfiles
    11 %remote_jobcatalog   /home/<replace_by_your_HLRN_username>/job_logfiles
     10%restart_data_path   $fast_io_catalog
     11%output_data_path    $base_data
     12%local_jobcatalog    $base_data/$run_identifier/LOG_FILES
     13%remote_jobcatalog   $base_data/$run_identifier/LOG_FILES
    1214
    1315%local_ip            <replace by IP of your local computer>
    1416%local_username      <replace_by_your_local_username>
    15 %remote_ip           130.75.105.103
     17%remote_ip           130.73.234.1
    1618%remote_loginnode    blogin1
    1719%remote_username     <replace_by_your_HLRN_username>
    1820%ssh_key             id_rsa_hlrn
    1921%defaultqueue        standard96:test
     22%project_account     <replace_by_your_default_HLRN_project_account>
    2023%submit_command      /cm/shared/apps/slurm/current/bin/sbatch
    2124
    … …  
    3336# BATCH-directives to be used for batch jobs. If $-characters are required, hide them with 3 backslashes
    3437BD:#!/bin/bash
     38#BD:#SBATCH --dependency=afterany:{{previous_job}}
     39BD:#SBATCH -A {{project_account}}
    3540BD:#SBATCH --job-name={{run_id}}
    3641BD:#SBATCH --time={{cpu_hours}}:{{cpu_minutes}}:{{cpu_seconds}}
    … …  
    4146BD:#SBATCH --output={{job_protocol_file}}
    4247BD:#SBATCH --error={{job_protocol_file}}
     48#BD:#SBATCH --mail-type=ALL
     49#BD:#SBATCH --mail-user=<replace_by_your_email_address>
    4350
    4451# BATCH-directives for batch jobs used to send back the jobfile from a remote to a local host
    4552BDT:#!/bin/bash
     53BDT:#SBATCH -A {{project_account}}
    4654BDT:#SBATCH --job-name=job_transfer
    4755BDT:#SBATCH --time=00:30:00
    … …  
    7482# OUTPUT-commands - executed when program terminates normally
    7583#----------------------------------------------------------------------------
    76 
    7784# Combine 1D- and 3D-profile output (these files are not usable for plotting)
    7885#OC:[[ -f LIST_PROFIL_1D     ]]  &&  cat  LIST_PROFIL_1D  >>  LIST_PROFILE

  • palm/trunk/SCRIPTS/.palm.config.atosg

    r4798 r4814  
    33#name of variable  value of variable (~ must not be used)
    44#----------------------------------------------------------------------------
     5%base_directory      $HOME/palm/current_version
    56%base_data           $HOME/palm/current_version/JOBS
    6 %base_directory      $HOME/palm/current_version
    77%source_path         $HOME/palm/current_version/trunk/SOURCE
    8 %user_source_path    $base_directory/JOBS/$run_identifier/USER_CODE
     8%user_source_path    $base_data/$run_identifier/USER_CODE
    99%fast_io_catalog     /scratch/usr/<replace_by_your_HLRN_username>
    10 %local_jobcatalog    /home/<replace_by_your_local_username>/job_logfiles
    11 %remote_jobcatalog   /home/<replace_by_your_HLRN_username>/job_logfiles
    12 #
     10%restart_data_path   $fast_io_catalog
     11%output_data_path    $base_data
     12%local_jobcatalog    $base_data/$run_identifier/LOG_FILES
     13%remote_jobcatalog   $base_data/$run_identifier/LOG_FILES
     14
    1315%local_ip            <replace by IP of your local computer>
    1416%local_username      <replace_by_your_local_username>
    … …  
    1820%ssh_key             id_rsa_hlrn
    1921%defaultqueue        standard96:test
     22%project_account     <replace_by_your_default_HLRN_project_account>
    2023%submit_command      /cm/shared/batch/bin/sbatch
    2124
    … …  
    3336# BATCH-directives to be used for batch jobs. If $-characters are required, hide them with 3 backslashes
    3437BD:#!/bin/bash
     38#BD:#SBATCH --dependency=afterany:{{previous_job}}
     39BD:#SBATCH -A {{project_account}}
    3540BD:#SBATCH --job-name={{run_id}}
    3641BD:#SBATCH --time={{cpu_hours}}:{{cpu_minutes}}:{{cpu_seconds}}
    … …  
    4146BD:#SBATCH --output={{job_protocol_file}}
    4247BD:#SBATCH --error={{job_protocol_file}}
     48#BD:#SBATCH --mail-type=ALL
     49#BD:#SBATCH --mail-user=<replace_by_your_email_address>
    4350
    44 #
    4551# BATCH-directives for batch jobs used to send back the jobfile from a remote to a local host
    4652BDT:#!/bin/bash
     53BDT:#SBATCH -A {{project_account}}
    4754BDT:#SBATCH --job-name=job_transfer
    4855BDT:#SBATCH --time=00:30:00
    … …  
    7582# OUTPUT-commands - executed when program terminates normally
    7683#----------------------------------------------------------------------------
    77 
    7884# Combine 1D- and 3D-profile output (these files are not usable for plotting)
    79 OC:[[ -f LIST_PROFIL_1D     ]]  &&  cat  LIST_PROFIL_1D  >>  LIST_PROFILE
    80 OC:[[ -f LIST_PROFIL        ]]  &&  cat  LIST_PROFIL     >>  LIST_PROFILE
     85#OC:[[ -f LIST_PROFIL_1D     ]]  &&  cat  LIST_PROFIL_1D  >>  LIST_PROFILE
     86#OC:[[ -f LIST_PROFIL        ]]  &&  cat  LIST_PROFIL     >>  LIST_PROFILE
    8187
    8288# Combine all particle information files
    83 OC:[[ -f PARTICLE_INFOS/_0000 ]]  &&  cat  PARTICLE_INFOS/* >> PARTICLE_INFO
     89#OC:[[ -f PARTICLE_INFOS/_0000 ]]  &&  cat  PARTICLE_INFOS/* >> PARTICLE_INFO

  • palm/trunk/SCRIPTS/.palm.config.atosg_debug

    r4798 r4814  
    33#name of variable  value of variable (~ must not be used)
    44#----------------------------------------------------------------------------
     5%base_directory      $HOME/palm/current_version
    56%base_data           $HOME/palm/current_version/JOBS
    6 %base_directory      $HOME/palm/current_version
    77%source_path         $HOME/palm/current_version/trunk/SOURCE
    8 %user_source_path    $base_directory/JOBS/$run_identifier/USER_CODE
     8%user_source_path    $base_data/$run_identifier/USER_CODE
    99%fast_io_catalog     /scratch/usr/<replace_by_your_HLRN_username>
    10 %local_jobcatalog    /home/<replace_by_your_local_username>/job_logfiles
    11 %remote_jobcatalog   /home/<replace_by_your_HLRN_username>/job_logfiles
    12 #
     10%restart_data_path   $fast_io_catalog
     11%output_data_path    $base_data
     12%local_jobcatalog    $base_data/$run_identifier/LOG_FILES
     13%remote_jobcatalog   $base_data/$run_identifier/LOG_FILES
     14
    1315%local_ip            <replace by IP of your local computer>
    1416%local_username      <replace_by_your_local_username>
    … …  
    1820%ssh_key             id_rsa_hlrn
    1921%defaultqueue        standard96:test
     22%project_account     <replace_by_your_default_HLRN_project_account>
    2023%submit_command      /cm/shared/batch/bin/sbatch
    2124
    … …  
    3336# BATCH-directives to be used for batch jobs. If $-characters are required, hide them with 3 backslashes
    3437BD:#!/bin/bash
     38#BD:#SBATCH --dependency=afterany:{{previous_job}}
     39BD:#SBATCH -A {{project_account}}
    3540BD:#SBATCH --job-name={{run_id}}
    3641BD:#SBATCH --time={{cpu_hours}}:{{cpu_minutes}}:{{cpu_seconds}}
    … …  
    4146BD:#SBATCH --output={{job_protocol_file}}
    4247BD:#SBATCH --error={{job_protocol_file}}
     48#BD:#SBATCH --mail-type=ALL
     49#BD:#SBATCH --mail-user=<replace_by_your_email_address>
    4350
    44 #
    4551# BATCH-directives for batch jobs used to send back the jobfile from a remote to a local host
    4652BDT:#!/bin/bash
     53BDT:#SBATCH -A {{project_account}}
    4754BDT:#SBATCH --job-name=job_transfer
    4855BDT:#SBATCH --time=00:30:00
    … …  
    7582# OUTPUT-commands - executed when program terminates normally
    7683#----------------------------------------------------------------------------
    77 
    7884# Combine 1D- and 3D-profile output (these files are not usable for plotting)
    79 OC:[[ -f LIST_PROFIL_1D     ]]  &&  cat  LIST_PROFIL_1D  >>  LIST_PROFILE
    80 OC:[[ -f LIST_PROFIL        ]]  &&  cat  LIST_PROFIL     >>  LIST_PROFILE
     85#OC:[[ -f LIST_PROFIL_1D     ]]  &&  cat  LIST_PROFIL_1D  >>  LIST_PROFILE
     86#OC:[[ -f LIST_PROFIL        ]]  &&  cat  LIST_PROFIL     >>  LIST_PROFILE
    8187
    8288# Combine all particle information files
    83 OC:[[ -f PARTICLE_INFOS/_0000 ]]  &&  cat  PARTICLE_INFOS/* >> PARTICLE_INFO
     89#OC:[[ -f PARTICLE_INFOS/_0000 ]]  &&  cat  PARTICLE_INFOS/* >> PARTICLE_INFO

  • palm/trunk/SCRIPTS/.palm.config.aurora

    r4759 r4814  
    33#name of variable  value of variable (~ must not be used)
    44#----------------------------------------------------------------------------
    5 %base_data         ~/palm/current_version/JOBS
    6 %base_directory    $HOME/palm/current_version
    7 %fast_io_catalog   /scratch/<replace by LUIS username>
    8 %source_path       $HOME/palm/current_version/trunk/SOURCE
    9 %user_source_path  $base_directory/JOBS/$run_identifier/USER_CODE
    10 %local_jobcatalog  $HOME/job_queue
    11 #
     5%base_directory      $HOME/palm/current_version
     6%base_data           ~/palm/current_version/JOBS
     7%source_path         $HOME/palm/current_version/trunk/SOURCE
     8%user_source_path    $base_data/$run_identifier/USER_CODE
     9%fast_io_catalog     /scratch/<replace by LUIS username>
     10%restart_data_path   /scratch/<replace by LUIS username>
     11%output_data_path    $base_data
     12%local_jobcatalog    $base_data/$run_identifier/LOG_FILES
     13
    1214%local_ip            130.75.7.130
    1315%local_username      <replace by LUIS username>
     16%defaultqueue        all
     17%submit_command      /usr/bin/qsub
     18
    1419%compiler_name       mpinfort
    1520%compiler_name_ser   mpinfort
    … …  
    1823%compiler_options    -O3 -traceback -finline-functions -g -report-all -Werror -I /home/nhbkklau/opt/NetCDF_parallel_nec/include -I /home/nhbkklau/opt/fftw3_nec/include
    1924%linker_options      -L/home/nhbkklau/opt/NetCDF_parallel_nec/lib -lnetcdff -lnetcdf -Wl,-rpath=/home/nhbkklau/opt/NetCDF_parallel_nec/lib -L/home/nhbkklau/opt/hdf5_parallel_nec/lib -lhdf5 -lhdf5_hl -Wl,-rpath=/home/nhbkklau/opt/hdf5_parallel_nec/lib -L/home/nhbkklau/opt/fftw3_nec/lib -lfftw3 -lmpi
    20 #%hostfile            auto
    21 %defaultqueue        all
    22 %submit_command      /usr/bin/qsub
     25%execute_command     mpirun -v -ve 0-3  -np {{mpi_tasks}}  ./palm
    2326%memory              2000
    2427%login_init_cmd      source /opt/nec/ve/mpi/2.2.0/bin/necmpivars.sh
    25 %execute_command     mpirun -v -ve 0-3  -np {{mpi_tasks}}  ./palm
    26 #
    27 #----------------------------------------------------------------------------
    28 # INPUT-commands, executed before running PALM - lines must start with "IC:"
    29 #----------------------------------------------------------------------------
    30 #IC:ulimit -s unlimited
    31 #
    32 #----------------------------------------------------------------------------
    33 # ERROR-commands - executed when program terminates abnormally
    34 #----------------------------------------------------------------------------
    35 EC:[[ \$locat = execution ]]  &&  cat  RUN_CONTROL
    36 EC:[[ \$locat = execution ]]  &&  cat  PARTICLE_INFOS/*
    37 #
    38 #----------------------------------------------------------------------------
    39 # OUTPUT-commands - executed when program terminates normally
    40 #----------------------------------------------------------------------------
    41 #
    42 # Combine 1D- and 3D-profile output (these files are not usable for plotting)
    43 OC:[[ -f LIST_PROFIL_1D     ]]  &&  cat  LIST_PROFIL_1D  >>  LIST_PROFILE
    44 OC:[[ -f LIST_PROFIL        ]]  &&  cat  LIST_PROFIL     >>  LIST_PROFILE
    45 #
    46 # Combine all particle information files
    47 OC:[[ -f PARTICLE_INFOS/_0000 ]]  &&  cat  PARTICLE_INFOS/* >> PARTICLE_INFO
    48 #
     28
    4929# BATCH-directives to be used for batch jobs.
    50 # ATTENTION: The batch following batch directives still need to be adjusted for the
     30# ATTENTION: The following batch directives still need to be adjusted for the
    5131#            NEC Aurora system!!!!!!!!!!!!!!
    5232BD:#!/bin/bash
     33#BD:#PBS -A {{project_account}}
    5334BD:#PBS -N {{run_id}}
    5435BD:#PBS -l walltime={{cpu_hours}}:{{cpu_minutes}}:{{cpu_seconds}}
    … …  
    6041BD:#PBS -j oe
    6142BD:#PBS -q {{queue}}
     43
     44#----------------------------------------------------------------------------
     45# INPUT-commands, executed before running PALM - lines must start with "IC:"
     46#----------------------------------------------------------------------------
     47#IC:ulimit -s unlimited
     48
     49#----------------------------------------------------------------------------
     50# ERROR-commands - executed when program terminates abnormally
     51#----------------------------------------------------------------------------
     52EC:[[ \$locat = execution ]]  &&  cat  RUN_CONTROL
     53EC:[[ \$locat = execution ]]  &&  cat  PARTICLE_INFOS/*
     54
     55#----------------------------------------------------------------------------
     56# OUTPUT-commands - executed when program terminates normally
     57#----------------------------------------------------------------------------
     58# Combine 1D- and 3D-profile output (these files are not usable for plotting)
     59OC:[[ -f LIST_PROFIL_1D     ]]  &&  cat  LIST_PROFIL_1D  >>  LIST_PROFILE
     60OC:[[ -f LIST_PROFIL        ]]  &&  cat  LIST_PROFIL     >>  LIST_PROFILE
     61
     62# Combine all particle information files
     63OC:[[ -f PARTICLE_INFOS/_0000 ]]  &&  cat  PARTICLE_INFOS/* >> PARTICLE_INFO

  • palm/trunk/SCRIPTS/.palm.config.aurora_debug

    r4759 r4814  
    33#name of variable  value of variable (~ must not be used)
    44#----------------------------------------------------------------------------
    5 %base_data         ~/palm/current_version/JOBS
    6 %base_directory    $HOME/palm/current_version
    7 %fast_io_catalog   /scratch/<replace by LUIS username>
    8 %source_path       $HOME/palm/current_version/trunk/SOURCE
    9 %user_source_path  $base_directory/JOBS/$run_identifier/USER_CODE
    10 %local_jobcatalog  $HOME/job_queue
    11 #
     5%base_directory      $HOME/palm/current_version
     6%base_data           ~/palm/current_version/JOBS
     7%source_path         $HOME/palm/current_version/trunk/SOURCE
     8%user_source_path    $base_data/$run_identifier/USER_CODE
     9%fast_io_catalog     /scratch/<replace by LUIS username>
     10%restart_data_path   /scratch/<replace by LUIS username>
     11%output_data_path    $base_data
     12%local_jobcatalog    $base_data/$run_identifier/LOG_FILES
     13
    1214%local_ip            130.75.7.130
    1315%local_username      <replace by LUIS username>
     16%defaultqueue        all
     17%submit_command      /usr/bin/qsub
     18
    1419%compiler_name       mpinfort
    1520%compiler_name_ser   mpinfort
    … …  
    1823%compiler_options    -O0 -fcheck=all -traceback -ftrace -proginf -report-all -g -Werror -fdiag-vector=0  -I /home/nhbkklau/opt/NetCDF_parallel_nec/include -I /home/nhbkklau/opt/fftw3_nec/include
    1924%linker_options      -ftrace -L/home/nhbkklau/opt/NetCDF_parallel_nec/lib -lnetcdff -lnetcdf -Wl,-rpath=/home/nhbkklau/opt/NetCDF_parallel_nec/lib -L/home/nhbkklau/opt/hdf5_parallel_nec/lib -lhdf5 -lhdf5_hl -Wl,-rpath=/home/nhbkklau/opt/hdf5_parallel_nec/lib -L/home/nhbkklau/opt/fftw3_nec/lib -lfftw3 -lmpi
    20 #%hostfile            auto
    21 %defaultqueue        all
    22 %submit_command      /usr/bin/qsub
     25%execute_command     mpirun -v -ve 0  -np {{mpi_tasks}}  ./palm
    2326%memory              2000
    2427%login_init_cmd      source /opt/nec/ve/mpi/2.2.0/bin/necmpivars.sh
    25 %execute_command     mpirun -v -ve 0  -np {{mpi_tasks}}  ./palm
    26 #
    27 #----------------------------------------------------------------------------
    28 # INPUT-commands, executed before running PALM - lines must start with "IC:"
    29 #----------------------------------------------------------------------------
    30 #IC:ulimit -s unlimited
    31 IC:export VE_ERRCTL_DEALLOCATE=ABORT
    32 IC:export VE_FPE_ENABLE=DIV,FOF,INV
    33 IC:export VE_TRACEBACK=ALL
    34 #
    35 #----------------------------------------------------------------------------
    36 # ERROR-commands - executed when program terminates abnormally
    37 #----------------------------------------------------------------------------
    38 EC:[[ \$locat = execution ]]  &&  cat  RUN_CONTROL
    39 EC:[[ \$locat = execution ]]  &&  cat  PARTICLE_INFOS/*
    40 #
    41 #----------------------------------------------------------------------------
    42 # OUTPUT-commands - executed when program terminates normally
    43 #----------------------------------------------------------------------------
    44 #
    45 # Combine 1D- and 3D-profile output (these files are not usable for plotting)
    46 OC:[[ -f LIST_PROFIL_1D     ]]  &&  cat  LIST_PROFIL_1D  >>  LIST_PROFILE
    47 OC:[[ -f LIST_PROFIL        ]]  &&  cat  LIST_PROFIL     >>  LIST_PROFILE
    48 #
    49 # Combine all particle information files
    50 OC:[[ -f PARTICLE_INFOS/_0000 ]]  &&  cat  PARTICLE_INFOS/* >> PARTICLE_INFO
    51 #
     28
    5229# BATCH-directives to be used for batch jobs.
    53 # ATTENTION: The batch following batch directives still need to be adjusted for the
     30# ATTENTION: The following batch directives still need to be adjusted for the
    5431#            NEC Aurora system!!!!!!!!!!!!!!
    5532BD:#!/bin/bash
     33#BD:#PBS -A {{project_account}}
    5634BD:#PBS -N {{run_id}}
    5735BD:#PBS -l walltime={{cpu_hours}}:{{cpu_minutes}}:{{cpu_seconds}}
    … …  
    6341BD:#PBS -j oe
    6442BD:#PBS -q {{queue}}
     43
     44#----------------------------------------------------------------------------
     45# INPUT-commands, executed before running PALM - lines must start with "IC:"
     46#----------------------------------------------------------------------------
     47#IC:ulimit -s unlimited
     48IC:export VE_ERRCTL_DEALLOCATE=ABORT
     49IC:export VE_FPE_ENABLE=DIV,FOF,INV
     50IC:export VE_TRACEBACK=ALL
     51
     52#----------------------------------------------------------------------------
     53# ERROR-commands - executed when program terminates abnormally
     54#----------------------------------------------------------------------------
     55EC:[[ \$locat = execution ]]  &&  cat  RUN_CONTROL
     56EC:[[ \$locat = execution ]]  &&  cat  PARTICLE_INFOS/*
     57
     58#----------------------------------------------------------------------------
     59# OUTPUT-commands - executed when program terminates normally
     60#----------------------------------------------------------------------------
     61# Combine 1D- and 3D-profile output (these files are not usable for plotting)
     62OC:[[ -f LIST_PROFIL_1D     ]]  &&  cat  LIST_PROFIL_1D  >>  LIST_PROFILE
     63OC:[[ -f LIST_PROFIL        ]]  &&  cat  LIST_PROFIL     >>  LIST_PROFILE
     64
     65# Combine all particle information files
     66OC:[[ -f PARTICLE_INFOS/_0000 ]]  &&  cat  PARTICLE_INFOS/* >> PARTICLE_INFO

  • palm/trunk/SCRIPTS/.palm.config.default

    r4484 r4814  
    44#-----------------------------------------------------------------------------
    55# working directory from where palmrun or palmbuild are called
    6 %base_directory    $HOME/palm/current_version
     6%base_directory      $HOME/palm/current_version
    77
    88# directory where PALM I/O is stored (used in .palm.iofiles)
    9 %base_data         ~/palm/current_version/JOBS
     9%base_data           ~/palm/current_version/JOBS
    1010
    1111# path to PALM's FORTRAN sources (installation folder)
    12 %source_path       $HOME/palm/current_version/trunk/SOURCE
     12%source_path         $base_directory/trunk/SOURCE
    1313
    1414# path to user interface routines
    15 %user_source_path  $base_directory/JOBS/$run_identifier/USER_CODE
     15%user_source_path    $base_data/$run_identifier/USER_CODE
    1616
    17 # path to file system with fast discs (if available). This folder
    18 # is used for temporary catalogs generated by palmrun and to store large
    19 # I/O files (used in .palm.iofiles). This folder must be accessible from
    20 # all compute nodes, i.e. it must reside in a global file system
    21 %fast_io_catalog   <replace by a folder name which allows for fast I/O>
     17# path to temporary working directory. This folder contains the files
     18# temporarily created by PALM during execution.
     19# WARNING:
     20# Large I/O files are generated during execution! It is recommended to direct
     21# this path to a file system with fast discs (if available). This folder must
     22# be accessible from all compute nodes, i.e. it must reside in a global file
     23# system.
     24%fast_io_catalog     $base_directory/tmp
     25
     26# directory where PALM restart files are stored. It is recommended to set this
     27# path to the same file system as the temporary directory (fast_io_catalog) to
     28# allow internal linking of the restart files instead of copying (increases
     29# post-processing performance of palmrun).
     30%restart_data_path   $fast_io_catalog
     31
     32# directory where PALM output files are stored (see also .palm.iofiles)
     33%output_data_path    $base_data
    2234
    2335# folder for job protocols
    24 #%local_jobcatalog    $HOME/job_logfiles
     36%local_jobcatalog    $base_data/$run_identifier/LOG_FILES
    2537
    2638# folder for job protocols to be used on the remote host
    27 #%remote_jobcatalog   <path/to/directory on remote host>
     39#%remote_jobcatalog   $local_jobcatalog
    2840
    2941# local ip of your computer. Use 127.0.0.0 if you are running PALM
    … …  
    4961#%defaultqueue        <queue>
    5062
     63# default project account to be used if palmrun-option -A is omitted. For this
     64# setting to be active, the batch directive must also be activated (see BD and
     65# BDT settings below).
     66#%project_account     <project-account>
     67
    5168# command to submit batch jobs
    5269#%submit_command      /opt/moab/default/bin/msub -E
    … …  
    6582
    6683# options to be used to compile PALM
    67 %compiler_options    -fpe0 -O3 -xHost -fp-model source -ftz -no-prec-div -no-prec-sqrt -ip -I /muksoft/packages/fftw/3.3.4/include -L/muksoft/packages/fftw/3.3.4/lib64 -lfftw3 -I /muksoft/packages/netcdf/4_intel/include -L/muksoft/packages/netcdf/4_intel/lib -lnetcdf -lnetcdff
     84%compiler_options    -fpe0 -O3 -xHost -fp-model source -ftz -no-prec-div -no-prec-sqrt -ip -I /path/to/fftw/include -I /path/to/netcdf/include
    6885
    6986# options to be used to link the PALM executable
    70 %linker_options      -fpe0 -O3 -xHost -fp-model source -ftz -no-prec-div -no-prec-sqrt -ip -I /muksoft/packages/fftw/3.3.4/include -L/muksoft/packages/fftw/3.3.4/lib64 -lfftw3 -I /muksoft/packages/netcdf/4_intel/include -L/muksoft/packages/netcdf/4_intel/lib -lnetcdf -lnetcdff
     87%linker_options      -L/path/to/fftw/lib -lfftw3 -L/path/to/netcdf/lib -lnetcdf -lnetcdff
    7188
    72 # name of hostfile to be used
    73 %hostfile            auto
     89# name of hostfile to be used (see online documentation for more details)
     90#%hostfile            auto
    7491
    7592# command to start the PALM executable
    76 %execute_command     mpiexec  -machinefile hostfile  -n {{mpi_tasks}}  palm
     93%execute_command     mpirun -n {{mpi_tasks}}  ./palm
    7794
    7895# memory request per core
    … …  
    8097
    8198# module commands to load required libraries
    82 #%module_commands     module switch craype-ivybridge craype-haswell; module load fftw cray-hdf5-parallel cray-netcdf-hdf5parallel
     99#%module_commands     module switch env-ivybridge env-haswell && module load fftw netcdf
    83100
    84101# special commands to be carried out at login and start of batch jobs on the remote host
    85102#%login_init_cmd      .execute_special_profile
    86103
     104#-------------------------------------------------------------------------------
     105# Directives to be used for batch jobs
     106# Lines must start with "BD:". If $-characters are required, hide them with \
     107# Internal variables can be used as {{variable_name}}. Please see documentation.
     108#-------------------------------------------------------------------------------
     109# Example using PBS:
     110BD:#!/bin/bash
     111#BD:#PBS -A {{project_account}}
     112BD:#PBS -N {{run_id}}
     113BD:#PBS -l walltime={{cpu_hours}}:{{cpu_minutes}}:{{cpu_seconds}}
     114BD:#PBS -l nodes={{nodes}}:ppn={{tasks_per_node}}
     115BD:#PBS -o {{job_protocol_file}}
     116BD:#PBS -j oe
     117BD:#PBS -q {{queue}}
     118#
     119# Example using SLURM:
     120#BD:#!/bin/bash
     121##BD:#SBATCH --dependency=afterany:{{previous_job}}
     122#BD:#SBATCH -A {{project_account}}
     123#BD:#SBATCH --job-name={{run_id}}
     124#BD:#SBATCH --time={{cpu_hours}}:{{cpu_minutes}}:{{cpu_seconds}}
     125#BD:#SBATCH --ntasks={{mpi_tasks}}
     126#BD:#SBATCH --nodes={{nodes}}
     127#BD:#SBATCH --ntasks-per-node={{tasks_per_node}}
     128#BD:#SBATCH --partition={{queue}}
     129#BD:#SBATCH --output={{job_protocol_file}}
     130#BD:#SBATCH --error={{job_protocol_file}}
     131#BD:#SBATCH --mail-type=ALL
     132#BD:#SBATCH --mail-user=user@somewhere
     133
     134#-------------------------------------------------------------------------------
     135# Directives for batch jobs used to send back the jobfiles from a remote to a local host
     136# Lines must start with "BDT:". If $-characters are required, excape them with triple backslash
     137# Internal variables can be used as {{variable_name}}. Please see documentation.
     138#-------------------------------------------------------------------------------
     139# Example using PBS:
     140BDT:#!/bin/bash
     141#BDT:#PBS -A {{project_account}}
     142BDT:#PBS -N job_protocol_transfer
     143BDT:#PBS -l walltime=00:30:00
     144BDT:#PBS -l nodes=1:ppn=1
     145BDT:#PBS -o {{job_transfer_protocol_file}}
     146BDT:#PBS -j oe
     147BDT:#PBS -q dataq
     148#
     149# Example using SLURM:
     150#BDT:#!/bin/bash
     151#BDT:#SBATCH -A {{project_account}}
     152#BDT:#SBATCH --job-name=job_transfer
     153#BDT:#SBATCH --time=00:30:00
     154#BDT:#SBATCH --ntasks=1
     155#BDT:#SBATCH --nodes=1
     156#BDT:#SBATCH --ntasks-per-node=1
     157#BDT:#SBATCH --partition={{queue}}
     158#BDT:#SBATCH --output={{job_transfer_protocol_file}}
     159#BDT:#SBATCH --error={{job_transfer_protocol_file}}
    87160
    88161#----------------------------------------------------------------------------
    89 # INPUT-commands, executed before running PALM - lines must start with "IC:" 
     162# INPUT-commands, executed before running PALM - lines must start with "IC:"
    90163#----------------------------------------------------------------------------
    91164#IC:ulimit -s unlimited
    … …  
    100173#----------------------------------------------------------------------------
    101174#OC:echo \\\"PALM job finished\\\" | mailx user@somewhere
    102 
    103 
    104 #-------------------------------------------------------------------------------
    105 # Directives to be used for batch jobs
    106 # Lines must start with "BD:". If $-characters are required, hide them with \
    107 # Internal variables can be used as {{variable_name}}. Please see documentation.
    108 #-------------------------------------------------------------------------------
    109 BD:#!/bin/bash
    110 BD:#PBS -N {{run_id}}
    111 BD:#PBS -l walltime={{cpu_hours}}:{{cpu_minutes}}:{{cpu_seconds}}
    112 BD:#PBS -l nodes={{nodes}}:ppn={{tasks_per_node}}
    113 BD:#PBS -o {{job_protocol_file}}
    114 BD:#PBS -j oe
    115 BD:#PBS -q {{queue}}
    116 
    117 
    118 #-------------------------------------------------------------------------------
    119 # Directives for batch jobs used to send back the jobfiles from a remote to a local host
    120 # Lines must start with "BDT:". If $-characters are required, excape them with triple backslash
    121 # Internal variables can be used as {{variable_name}}. Please see documentation.
    122 #-------------------------------------------------------------------------------
    123 BDT:#!/bin/bash
    124 BDT:#PBS -N job_protocol_transfer
    125 BDT:#PBS -l walltime=00:30:00
    126 BDT:#PBS -l nodes=1:ppn=1
    127 BDT:#PBS -o {{job_transfer_protocol_file}}
    128 BDT:#PBS -j oe
    129 BDT:#PBS -q dataq

  • palm/trunk/SCRIPTS/.palm.config.default.in

    r4484 r4814  
    1515%user_source_path    @CMAKE_INSTALL_PREFIX@/JOBS/$run_identifier/USER_CODE
    1616%fast_io_catalog     @CMAKE_INSTALL_PREFIX@/tmp
    17 %local_jobcatalog    @CMAKE_INSTALL_PREFIX@/job_logfiles
     17%restart_data_path   @CMAKE_INSTALL_PREFIX@/tmp
     18%output_data_path    @CMAKE_INSTALL_PREFIX@/JOBS
     19%local_jobcatalog    @CMAKE_INSTALL_PREFIX@/JOBS/$run_identifier/LOG_FILES
    1820#%remote_jobcatalog   <path/to/directory>
    1921#
    … …  
    2931#
    3032#%defaultqueue        <queue>
     33#%project_account     <project-account>
    3134#%submit_command      /opt/moab/default/bin/msub -E
    3235#
    … …  
    4851#-------------------------------------------------------------------------------
    4952BD:#!/bin/bash
     53#BD:#PBS -A {{project_account}}
    5054BD:#PBS -N {{run_id}}
    5155BD:#PBS -l walltime={{cpu_hours}}:{{cpu_minutes}}:{{cpu_seconds}}
    … …  
    6165#-------------------------------------------------------------------------------
    6266BDT:#!/bin/bash
     67#BDT:#PBS -A {{project_account}}
    6368BDT:#PBS -N job_protocol_transfer
    6469BDT:#PBS -l walltime=00:30:00
    … …  
    6974#
    7075#-------------------------------------------------------------------------------
    71 # INPUT-commands. These commands are executed before running PALM 
    72 # Lines must start with "IC:" 
     76# INPUT-commands. These commands are executed before running PALM
     77# Lines must start with "IC:"
    7378#-------------------------------------------------------------------------------
    7479IC:ulimit  -s unlimited
    … …  
    7681#-------------------------------------------------------------------------------
    7782# ERROR-commands. These commands are executed when PALM terminates abnormally
    78 # Lines must start with "EC:" 
     83# Lines must start with "EC:"
    7984#-------------------------------------------------------------------------------
    8085EC:[[ $locat = execution ]]  &&  cat  RUN_CONTROL
    … …  
    8287#-------------------------------------------------------------------------------
    8388# OUTPUT-commands. These commands are executed when PALM terminates normally
    84 # Lines must start with "OC:" 
     89# Lines must start with "OC:"
    8590#-------------------------------------------------------------------------------
    8691#
    … …  
    9196# Combine all particle information files
    9297OC:[[ -f PARTICLE_INFOS/_0000 ]]  &&  cat  PARTICLE_INFOS/* >> PARTICLE_INFO
    93 

  • palm/trunk/SCRIPTS/.palm.config.default_trace

    r4484 r4814  
    44#-----------------------------------------------------------------------------
    55# working directory from where palmrun or palmbuild are called
    6 %base_directory    $HOME/palm/current_version
     6%base_directory      $HOME/palm/current_version
    77
    88# directory where PALM I/O is stored (used in .palm.iofiles)
    9 %base_data         ~/palm/current_version/JOBS
     9%base_data           ~/palm/current_version/JOBS
    1010
    1111# path to PALM's FORTRAN sources (installation folder)
    12 %source_path       $HOME/palm/current_version/trunk/SOURCE
     12%source_path         $base_directory/trunk/SOURCE
    1313
    1414# path to user interface routines
    15 %user_source_path  $base_directory/JOBS/$run_identifier/USER_CODE
     15%user_source_path    $base_data/$run_identifier/USER_CODE
    1616
    17 # path to file system with fast discs (if available). This folder
    18 # is used for temporary catalogs generated by palmrun and to store large
    19 # I/O files (used in .palm.iofiles). This folder must be accessible from
    20 # all compute nodes, i.e. it must reside in a global file system
    21 %fast_io_catalog   <replace by a folder name which allows for fast I/O>
     17# path to temporary working directory. This folder contains the files
     18# temporarily created by PALM during execution.
     19# WARNING:
     20# Large I/O files are generated during execution! It is recommended to direct
     21# this path to a file system with fast discs (if available). This folder must
     22# be accessible from all compute nodes, i.e. it must reside in a global file
     23# system.
     24%fast_io_catalog     $base_directory/tmp
     25
     26# directory where PALM restart files are stored. It is recommended to set this
     27# path to the same file system as the temporary directory (fast_io_catalog) to
     28# allow internal linking of the restart files instead of copying (increases
     29# post-processing performance of palmrun).
     30%restart_data_path   $fast_io_catalog
     31
     32# directory where PALM output files are stored (see also .palm.iofiles)
     33%output_data_path    $base_data
    2234
    2335# folder for job protocols
    24 #%local_jobcatalog    $HOME/job_logfiles
     36%local_jobcatalog    $base_data/$run_identifier/LOG_FILES
    2537
    2638# folder for job protocols to be used on the remote host
    27 #%remote_jobcatalog   <path/to/directory on remote host>
     39#%remote_jobcatalog   $local_jobcatalog
    2840
    2941# local ip of your computer. Use 127.0.0.0 if you are running PALM
    … …  
    4961#%defaultqueue        <queue>
    5062
     63# default project account to be used if palmrun-option -A is omitted. For this
     64# setting to be active, the batch directive must also be activated (see BD and
     65# BDT settings below).
     66#%project_account     <project-account>
     67
    5168# command to submit batch jobs
    5269#%submit_command      /opt/moab/default/bin/msub -E
    … …  
    6481%make_options        -j 4
    6582
    66 # options to be used to compile PALM in debug mode
    67 %compiler_options    -fpe0 -O0 -check -check nooutput_conversion-ffree-line-length-none  -traceback -g -I /muksoft/packages/fftw/3.3.4/include -L/muksoft/packages/fftw/3.3.4/lib64 -lfftw3 -I /muksoft/packages/netcdf/4_intel/include -L/muksoft/packages/netcdf/4_intel/lib -lnetcdf -lnetcdff
     83# options to be used to compile PALM
     84%compiler_options    -fpe0 -O0 -check -check nooutput_conversion-ffree-line-length-none  -traceback -g -I /path/to/fftw/include -I /path/to/netcdf/include
    6885
    6986# options to be used to link the PALM executable
    70 %linker_options      -fpe0 -O0 -check -check nooutput_conversion -ffree-line-length-none -traceback -g -I /muksoft/packages/fftw/3.3.4/include -L/muksoft/packages/fftw/3.3.4/lib64 -lfftw3 -I /muksoft/packages/netcdf/4_intel/include -L/muksoft/packages/netcdf/4_intel/lib -lnetcdf -lnetcdff
     87%linker_options      -L/path/to/fftw/lib -lfftw3 -L/path/to/netcdf/lib -lnetcdf -lnetcdff
    7188
    72 # name of hostfile to be used
    73 %hostfile            auto
     89# name of hostfile to be used (see online documentation for more details)
     90#%hostfile            auto
    7491
    7592# command to start the PALM executable
    76 %execute_command     mpiexec  -machinefile hostfile  -n {{mpi_tasks}}  palm
     93%execute_command     mpirun -n {{mpi_tasks}}  ./palm
    7794
    7895# memory request per core
    … …  
    8097
    8198# module commands to load required libraries
    82 #%module_commands     module switch craype-ivybridge craype-haswell; module load fftw cray-hdf5-parallel cray-netcdf-hdf5parallel
     99#%module_commands     module switch env-ivybridge env-haswell && module load fftw netcdf
    83100
    84101# special commands to be carried out at login and start of batch jobs on the remote host
    85102#%login_init_cmd      .execute_special_profile
    86103
     104#-------------------------------------------------------------------------------
     105# Directives to be used for batch jobs
     106# Lines must start with "BD:". If $-characters are required, hide them with \
     107# Internal variables can be used as {{variable_name}}. Please see documentation.
     108#-------------------------------------------------------------------------------
     109# Example using PBS:
     110BD:#!/bin/bash
     111#BD:#PBS -A {{project_account}}
     112BD:#PBS -N {{run_id}}
     113BD:#PBS -l walltime={{cpu_hours}}:{{cpu_minutes}}:{{cpu_seconds}}
     114BD:#PBS -l nodes={{nodes}}:ppn={{tasks_per_node}}
     115BD:#PBS -o {{job_protocol_file}}
     116BD:#PBS -j oe
     117BD:#PBS -q {{queue}}
     118#
     119# Example using SLURM:
     120#BD:#!/bin/bash
     121##BD:#SBATCH --dependency=afterany:{{previous_job}}
     122#BD:#SBATCH -A {{project_account}}
     123#BD:#SBATCH --job-name={{run_id}}
     124#BD:#SBATCH --time={{cpu_hours}}:{{cpu_minutes}}:{{cpu_seconds}}
     125#BD:#SBATCH --ntasks={{mpi_tasks}}
     126#BD:#SBATCH --nodes={{nodes}}
     127#BD:#SBATCH --ntasks-per-node={{tasks_per_node}}
     128#BD:#SBATCH --partition={{queue}}
     129#BD:#SBATCH --output={{job_protocol_file}}
     130#BD:#SBATCH --error={{job_protocol_file}}
     131#BD:#SBATCH --mail-type=ALL
     132#BD:#SBATCH --mail-user=user@somewhere
     133
     134#-------------------------------------------------------------------------------
     135# Directives for batch jobs used to send back the jobfiles from a remote to a local host
     136# Lines must start with "BDT:". If $-characters are required, excape them with triple backslash
     137# Internal variables can be used as {{variable_name}}. Please see documentation.
     138#-------------------------------------------------------------------------------
     139# Example using PBS:
     140BDT:#!/bin/bash
     141#BDT:#PBS -A {{project_account}}
     142BDT:#PBS -N job_protocol_transfer
     143BDT:#PBS -l walltime=00:30:00
     144BDT:#PBS -l nodes=1:ppn=1
     145BDT:#PBS -o {{job_transfer_protocol_file}}
     146BDT:#PBS -j oe
     147BDT:#PBS -q dataq
     148#
     149# Example using SLURM:
     150#BDT:#!/bin/bash
     151#BDT:#SBATCH -A {{project_account}}
     152#BDT:#SBATCH --job-name=job_transfer
     153#BDT:#SBATCH --time=00:30:00
     154#BDT:#SBATCH --ntasks=1
     155#BDT:#SBATCH --nodes=1
     156#BDT:#SBATCH --ntasks-per-node=1
     157#BDT:#SBATCH --partition={{queue}}
     158#BDT:#SBATCH --output={{job_transfer_protocol_file}}
     159#BDT:#SBATCH --error={{job_transfer_protocol_file}}
    87160
    88161#----------------------------------------------------------------------------
    89 # INPUT-commands, executed before running PALM - lines must start with "IC:" 
     162# INPUT-commands, executed before running PALM - lines must start with "IC:"
    90163#----------------------------------------------------------------------------
    91164#IC:ulimit -s unlimited
    … …  
    100173#----------------------------------------------------------------------------
    101174#OC:echo \\\"PALM job finished\\\" | mailx user@somewhere
    102 
    103 
    104 #-------------------------------------------------------------------------------
    105 # Directives to be used for batch jobs
    106 # Lines must start with "BD:". If $-characters are required, hide them with \
    107 # Internal variables can be used as {{variable_name}}. Please see documentation.
    108 #-------------------------------------------------------------------------------
    109 BD:#!/bin/bash
    110 BD:#PBS -N {{run_id}}
    111 BD:#PBS -l walltime={{cpu_hours}}:{{cpu_minutes}}:{{cpu_seconds}}
    112 BD:#PBS -l nodes={{nodes}}:ppn={{tasks_per_node}}
    113 BD:#PBS -o {{job_protocol_file}}
    114 BD:#PBS -j oe
    115 BD:#PBS -q {{queue}}
    116 
    117 
    118 #-------------------------------------------------------------------------------
    119 # Directives for batch jobs used to send back the jobfiles from a remote to a local host
    120 # Lines must start with "BDT:". If $-characters are required, excape them with triple backslash
    121 # Internal variables can be used as {{variable_name}}. Please see documentation.
    122 #-------------------------------------------------------------------------------
    123 BDT:#!/bin/bash
    124 BDT:#PBS -N job_protocol_transfer
    125 BDT:#PBS -l walltime=00:30:00
    126 BDT:#PBS -l nodes=1:ppn=1
    127 BDT:#PBS -o {{job_transfer_protocol_file}}
    128 BDT:#PBS -j oe
    129 BDT:#PBS -q dataq

  • palm/trunk/SCRIPTS/.palm.config.eddy_gfort

    r3346 r4814  
    33#name of variable  value of variable (~ must not be used)
    44#----------------------------------------------------------------------------
     5%base_directory      $HOME/palm/current_version
    56%base_data           $HOME/palm/current_version/JOBS
    6 %output_data         $WORK/palm/current_version/JOBS
    7 %base_directory      $HOME/palm/current_version
    87%source_path         $HOME/palm/current_version/trunk/SOURCE
    9 %user_source_path    $base_directory/JOBS/$run_identifier/USER_CODE
     8%user_source_path    $base_data/$run_identifier/USER_CODE
    109%fast_io_catalog     $WORK/palm_restart_tmp
     10%restart_data_path   $fast_io_catalog
     11%output_data_path    $WORK/palm/current_version/JOBS
    1112%local_jobcatalog    $HOME/job_queue
    1213################################################################################
    … …  
    4344#
    4445#----------------------------------------------------------------------------
    45 # INPUT-commands, executed before running PALM - lines must start with "IC:" 
     46# INPUT-commands, executed before running PALM - lines must start with "IC:"
    4647#----------------------------------------------------------------------------
    4748IC:export ATP_ENABLED=1
    … …  
    5758# OUTPUT-commands - executed when program terminates normally
    5859#----------------------------------------------------------------------------
    59 #
    6060# Combine 1D- and 3D-profile output (these files are not usable for plotting)
    6161OC:[[ -f LIST_PROFIL_1D     ]]  &&  cat  LIST_PROFIL_1D  >>  LIST_PROFILE

  • palm/trunk/SCRIPTS/.palm.config.eddy_ifort

    r3346 r4814  
    33#name of variable  value of variable (~ must not be used)
    44#----------------------------------------------------------------------------
     5%base_directory      $HOME/palm/current_version
    56%base_data           $HOME/palm/current_version/JOBS
    6 %output_data         $WORK/palm/current_version/JOBS
    7 %base_directory      $HOME/palm/current_version
    87%source_path         $HOME/palm/current_version/trunk/SOURCE
    9 %user_source_path    $base_directory/JOBS/$run_identifier/USER_CODE
     8%user_source_path    $base_data/$run_identifier/USER_CODE
    109%fast_io_catalog     $WORK/palm_restart_tmp
     10%restart_data_path   $fast_io_catalog
     11%output_data_path    $WORK/palm/current_version/JOBS
    1112%local_jobcatalog    $HOME/job_queue
    1213################################################################################
    … …  
    2728%execute_command_for_combine     mpirun  -n 1  ./combine_plot_fields.x
    2829%memory              2333
    29 %module_commands     module load PALMDependencies/icc     
     30%module_commands     module load PALMDependencies/icc
    3031#
    3132# BATCH-directives to be used for batch jobs
    … …  
    4344#
    4445#----------------------------------------------------------------------------
    45 # INPUT-commands, executed before running PALM - lines must start with "IC:" 
     46# INPUT-commands, executed before running PALM - lines must start with "IC:"
    4647#----------------------------------------------------------------------------
    4748IC:export ATP_ENABLED=1
    … …  
    5758# OUTPUT-commands - executed when program terminates normally
    5859#----------------------------------------------------------------------------
    59 #
    6060# Combine 1D- and 3D-profile output (these files are not usable for plotting)
    6161OC:[[ -f LIST_PROFIL_1D     ]]  &&  cat  LIST_PROFIL_1D  >>  LIST_PROFILE

  • palm/trunk/SCRIPTS/.palm.config.idefix

    r3455 r4814  
    66#name of variable  value of variable (~ must not be used)
    77#-------------------------------------------------------------------------------
    8 %base_data          ~/palm/current_version/JOBS
    9 %base_directory     $HOME/palm/current_version
    10 %fast_io_catalog    /work/<replace_by_your_IDEFIX_username>
    11 %local_jobcatalog   $HOME/job_logfiles
    12 %output_path        /work/<replace_by_your_IDEFIX_username>/JOBS/$run_identifier
    13 %remote_jobcatalog  $HOME/job_logfiles
    14 %source_path        $HOME/palm/current_version/trunk/SOURCE
    15 %user_source_path   $base_directory/JOBS/$run_identifier/USER_CODE
    16 #
     8%base_directory      $HOME/palm/current_version
     9%base_data           ~/palm/current_version/JOBS
     10%source_path         $HOME/palm/current_version/trunk/SOURCE
     11%user_source_path    $base_directory/JOBS/$run_identifier/USER_CODE
     12%fast_io_catalog     /work/<replace_by_your_IDEFIX_username>
     13%restart_data_path    $fast_io_catalog
     14%output_data_path    /work/<replace_by_your_IDEFIX_username>/JOBS/
     15%local_jobcatalog    $base_data/$run_identifier/LOG_FILES
     16%remote_jobcatalog   $base_data/$run_identifier/LOG_FILES
     17
    1718%local_ip            130.75.105.239
    1819%local_username      <replace_by_your_IDEFIX_username>
    1920%defaultqueue        workq
    2021%submit_command      /opt/pbspro/default/bin/qsub
    21 #
     22
    2223%compiler_name       mpif90
    2324%compiler_name_ser   ifort
    … …  
    2829%hostfile            auto
    2930%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
    30 #
    3131%execute_command     mpirun  -machinefile hostfile  -n {{mpi_tasks}} palm
    32 #
    33 #
     32
    3433# BATCH-directives to be used for batch jobs.
    3534BD:#!/bin/bash
    … …  
    4039BD:#PBS -j oe
    4140BD:#PBS -q{{queue}}
    42 #
     41
    4342# BATCH-directives for batch jobs used to send back the jobfile from a remote to a local host
    4443BDT:#!/bin/bash
    … …  
    4948BDT:#PBS -j oe
    5049BDT:#PBS -q workq
    51 #
    52 #
     50
    5351#----------------------------------------------------------------------------
    54 # INPUT-commands, executed before running PALM - lines must start with "IC:" 
     52# INPUT-commands, executed before running PALM - lines must start with "IC:"
    5553#----------------------------------------------------------------------------
    5654IC:export MV2_ENABLE_AFFINITY=0
    … …  
    5856IC:export MV2_CPU_BINDING_POLICY=scatter
    5957IC:ulimit -s unlimited
    60 #
     58
    6159#----------------------------------------------------------------------------
    6260# ERROR-commands - executed when program terminates abnormally
    … …  
    6462EC:[[ \$locat = execution ]]  &&  cat  RUN_CONTROL
    6563EC:[[ \$locat = execution ]]  &&  cat  PARTICLE_INFOS/*
    66 #
     64
    6765#----------------------------------------------------------------------------
    6866# OUTPUT-commands - executed when program terminates normally
    6967#----------------------------------------------------------------------------
    70 #
    7168# Combine 1D- and 3D-profile output (these files are not usable for plotting)
    7269OC:[[ -f LIST_PROFIL_1D     ]]  &&  cat  LIST_PROFIL_1D  >>  LIST_PROFILE
    7370OC:[[ -f LIST_PROFIL        ]]  &&  cat  LIST_PROFIL     >>  LIST_PROFILE
    74 #
     71
    7572# Combine all particle information files
    7673OC:[[ -f PARTICLE_INFOS/_0000 ]]  &&  cat  PARTICLE_INFOS/* >> PARTICLE_INFO

  • palm/trunk/SCRIPTS/.palm.config.imuk

    r3299 r4814  
    33#name of variable  value of variable (~ must not be used)
    44#----------------------------------------------------------------------------
    5 %base_data         ~/palm/current_version/JOBS
    6 %base_directory    $HOME/palm/current_version
    7 %fast_io_catalog   /localdata/<your user directory>
    8 %source_path       $HOME/palm/current_version/trunk/SOURCE
    9 %user_source_path  $base_directory/JOBS/$run_identifier/USER_CODE
    10 #
     5%base_directory      $HOME/palm/current_version
     6%base_data           ~/palm/current_version/JOBS
     7%source_path         $HOME/palm/current_version/trunk/SOURCE
     8%user_source_path    $base_directory/JOBS/$run_identifier/USER_CODE
     9%fast_io_catalog     /localdata/<your user directory>
     10%restart_data_path   $fast_io_catalog
     11%output_data_path    $base_data
     12%local_jobcatalog    $base_data/$run_identifier/LOG_FILES
     13
    1114%local_ip            130.75.105.<your pc's id>
    1215%local_username      <username>
     16
    1317%compiler_name       mpif90
    1418%compiler_name_ser   ifort
    … …  
    1620%make_options        -j 4
    1721%compiler_options    -fpe0 -O3 -xHost -fp-model source -ftz -fno-alias -no-prec-div -no-prec-sqrt -ip -I /muksoft/packages/fftw/3.3.7/mvapich2-2.3rc1/gnu/include/ -I /muksoft/packages/netcdf4_hdf5parallel/4411c_443f/hdf5-1.10.0-patch1/mvapich2-2.3rc1/intel/2018.1.163/include/
    18 %linker_options      -fpe0 -O3 -xHost -fp-model source -ftz -fno-alias -no-prec-div -no-prec-sqrt -ip -L/muksoft/packages/fftw/3.3.7/mvapich2-2.3rc1/gnu/lib64/ -lfftw3 -L/muksoft/packages/netcdf4_hdf5parallel/4411c_443f/hdf5-1.10.0-patch1/mvapich2-2.3rc1/intel/2018.1.163/lib64/ -lnetcdf -lnetcdff
     22%linker_options      -L/muksoft/packages/fftw/3.3.7/mvapich2-2.3rc1/gnu/lib64/ -lfftw3 -L/muksoft/packages/netcdf4_hdf5parallel/4411c_443f/hdf5-1.10.0-patch1/mvapich2-2.3rc1/intel/2018.1.163/lib64/ -lnetcdf -lnetcdff
    1923%hostfile            auto
    2024%execute_command     mpiexec  -machinefile hostfile  -n {{mpi_tasks}}  palm
    21 #
     25
    2226#----------------------------------------------------------------------------
    23 # INPUT-commands, executed before running PALM - lines must start with "IC:" 
     27# INPUT-commands, executed before running PALM - lines must start with "IC:"
    2428#----------------------------------------------------------------------------
    2529IC:ulimit -s unlimited
    26 #
     30
    2731#----------------------------------------------------------------------------
    2832# ERROR-commands - executed when program terminates abnormally
    … …  
    3034EC:[[ \$locat = execution ]]  &&  cat  RUN_CONTROL
    3135EC:[[ \$locat = execution ]]  &&  cat  PARTICLE_INFOS/*
    32 #
     36
    3337#----------------------------------------------------------------------------
    3438# OUTPUT-commands - executed when program terminates normally
    3539#----------------------------------------------------------------------------
    36 #
    3740# Combine 1D- and 3D-profile output (these files are not usable for plotting)
    3841OC:[[ -f LIST_PROFIL_1D     ]]  &&  cat  LIST_PROFIL_1D  >>  LIST_PROFILE
    3942OC:[[ -f LIST_PROFIL        ]]  &&  cat  LIST_PROFIL     >>  LIST_PROFILE
    40 #
     43
    4144# Combine all particle information files
    4245OC:[[ -f PARTICLE_INFOS/_0000 ]]  &&  cat  PARTICLE_INFOS/* >> PARTICLE_INFO

  • palm/trunk/SCRIPTS/.palm.iofiles

    r4781 r4814  
    11#$Id$
    22#
    3 #---------------------------------------------------------------------------------------------
     3#------------------------------------------------------------------------------------------------------------
    44# List of input-files
    5 #---------------------------------------------------------------------------------------------
    6 PARIN                    in:tr      d3#      $base_data/$run_identifier/INPUT          _p3d*
    7 PARIN                    in:tr      d3r      $base_data/$run_identifier/INPUT          _p3dr*
    8 PARIN                    in:tr      pcr      $base_data/$run_identifier/INPUT          _pcr*
    9 NAVIGATION_DATA          inopt:tr   d3#:d3r  $base_data/$run_identifier/INPUT          _nav*
    10 TOPOGRAPHY_DATA          inopt:tr   d3#:d3r  $base_data/$run_identifier/INPUT          _topo*
    11 PLANT_CANOPY_DATA_3D     inopt:tr   d3#:d3r  $base_data/$run_identifier/INPUT          _canopy*
    12 PIDS_STATIC              inopt:tr   d3#:d3r  $base_data/$run_identifier/INPUT          _static*
    13 PIDS_DYNAMIC             inopt:tr   d3#:d3r  $base_data/$run_identifier/INPUT          _dynamic*
    14 PIDS_SALSA               inopt:tr   d3#:d3r  $base_data/$run_identifier/INPUT          _salsa*
    15 PIDS_CHEM                inopt:tr   d3#:d3r  $base_data/$run_identifier/INPUT          _chemistry*
    16 PIDS_UVEM                inopt:tr   d3#:d3r  $base_data/$run_identifier/INPUT          _uvlookup*
    17 PIDS_VM                  inopt:tr   d3#:d3r  $base_data/$run_identifier/INPUT          _vmeas*
    18 PIDS_WTM                 inopt:tr   d3#:d3r  $base_data/$run_identifier/INPUT          _wtmpar*
    19 rrtmg_lw.nc              inopt:tr   d3#:d3r  $base_data/$run_identifier/INPUT          _rlw
    20 rrtmg_sw.nc              inopt:tr   d3#:d3r  $base_data/$run_identifier/INPUT          _rsw
    21 WTM_DATA                 inopt:tr   d3#:d3r  $base_data/$run_identifier/INPUT          _wtm
    22 BININ                    in:lnpe    d3r:rec  $fast_io_catalog/$run_identifier/RESTART  _d3d*
    23 PARTICLE_RESTART_DATA_IN in:lnpe    prtr     $fast_io_catalog/$run_identifier/RESTART  _rprt
    24 SVFIN                    in:lnpe    svfin    $fast_io_catalog/$run_identifier/SVF      _svf*
    25 DATA_1D_FL_NETCDF        inopt      flr      $base_data/$run_identifier/OUTPUT         _fl*       nc
    26 DATA_1D_PR_NETCDF        inopt      prr      $base_data/$run_identifier/OUTPUT         _pr*       nc
    27 DATA_1D_SP_NETCDF        inopt      spr      $base_data/$run_identifier/OUTPUT         _sp*       nc
    28 DATA_1D_TS_NETCDF        inopt      tsr      $base_data/$run_identifier/OUTPUT         _ts*       nc
    29 DATA_1D_PTS_NETCDF       inopt      ptsr     $base_data/$run_identifier/OUTPUT         _pts*      nc
    30 DATA_1D_SPTS_NETCDF      inopt      sptsr    $base_data/$run_identifier/OUTPUT         _spts*     nc
    31 DATA_2D_XY_NETCDF        inopt      xyr      $base_data/$run_identifier/OUTPUT         _xy*       nc
    32 DATA_2D_XY_AV_NETCDF     inopt      xyr      $base_data/$run_identifier/OUTPUT         _av_xy*    nc
    33 DATA_2D_XZ_NETCDF        inopt      xzr      $base_data/$run_identifier/OUTPUT         _xz*       nc
    34 DATA_2D_XZ_AV_NETCDF     inopt      xzr      $base_data/$run_identifier/OUTPUT         _av_xz*    nc
    35 DATA_2D_YZ_NETCDF        inopt      yzr      $base_data/$run_identifier/OUTPUT         _yz*       nc
    36 DATA_2D_YZ_AV_NETCDF     inopt      yzr      $base_data/$run_identifier/OUTPUT         _av_yz*    nc
    37 DATA_3D_NETCDF           inopt      3dr      $base_data/$run_identifier/OUTPUT         _3d*       nc
    38 DATA_3D_AV_NETCDF        inopt      3dr      $base_data/$run_identifier/OUTPUT         _av_3d*    nc
    39 DATA_MASK_NETCDF         inopt      mar      $base_data/$run_identifier/OUTPUT         _masked    nc
    40 DATA_MASK_AV_NETCDF      inopt      mar      $base_data/$run_identifier/OUTPUT         _av_masked nc
    41 DATA_PRT_NETCDF          inopt:pe   prtr     $base_data/$run_identifier/OUTPUT         _prt*
     5#------------------------------------------------------------------------------------------------------------
     6PARIN                    in:tr      d3#        $base_data/$run_identifier/INPUT            _p3d*
     7PARIN                    in:tr      d3r        $base_data/$run_identifier/INPUT            _p3dr*
     8PARIN                    in:tr      pcr        $base_data/$run_identifier/INPUT            _pcr*
     9NAVIGATION_DATA          inopt:tr   d3#:d3r    $base_data/$run_identifier/INPUT            _nav*
     10TOPOGRAPHY_DATA          inopt:tr   d3#:d3r    $base_data/$run_identifier/INPUT            _topo*
     11PLANT_CANOPY_DATA_3D     inopt:tr   d3#:d3r    $base_data/$run_identifier/INPUT            _canopy*
     12PIDS_STATIC              inopt:tr   d3#:d3r    $base_data/$run_identifier/INPUT            _static*
     13PIDS_DYNAMIC             inopt:tr   d3#:d3r    $base_data/$run_identifier/INPUT            _dynamic*
     14PIDS_SALSA               inopt:tr   d3#:d3r    $base_data/$run_identifier/INPUT            _salsa*
     15PIDS_CHEM                inopt:tr   d3#:d3r    $base_data/$run_identifier/INPUT            _chemistry*
     16PIDS_UVEM                inopt:tr   d3#:d3r    $base_data/$run_identifier/INPUT            _uvlookup*
     17PIDS_VM                  inopt:tr   d3#:d3r    $base_data/$run_identifier/INPUT            _vmeas*
     18PIDS_WTM                 inopt:tr   d3#:d3r    $base_data/$run_identifier/INPUT            _wtmpar*
     19rrtmg_lw.nc              inopt:tr   d3#:d3r    $base_data/$run_identifier/INPUT            _rlw
     20rrtmg_sw.nc              inopt:tr   d3#:d3r    $base_data/$run_identifier/INPUT            _rsw
     21WTM_DATA                 inopt:tr   d3#:d3r    $base_data/$run_identifier/INPUT            _wtm
     22BININ                    in:lnpe    d3r:cyclic $restart_data_path/$run_identifier/RESTART  _d3d*
     23PARTICLE_RESTART_DATA_IN in:lnpe    prtr       $restart_data_path/$run_identifier/RESTART  _rprt
     24SVFIN                    in:lnpe    svfin      $restart_data_path/$run_identifier/SVF      _svf*
     25DATA_1D_FL_NETCDF        inopt      flr        $output_data_path/$run_identifier/OUTPUT    _fl*       nc
     26DATA_1D_PR_NETCDF        inopt      prr        $output_data_path/$run_identifier/OUTPUT    _pr*       nc
     27DATA_1D_PTS_NETCDF       inopt      ptsr       $output_data_path/$run_identifier/OUTPUT    _pts*      nc
     28DATA_1D_SP_NETCDF        inopt      spr        $output_data_path/$run_identifier/OUTPUT    _sp*       nc
     29DATA_1D_SPTS_NETCDF      inopt      sptsr      $output_data_path/$run_identifier/OUTPUT    _spts*     nc
     30DATA_1D_TS_NETCDF        inopt      tsr        $output_data_path/$run_identifier/OUTPUT    _ts*       nc
     31DATA_2D_XY_AV_NETCDF     inopt      xyr        $output_data_path/$run_identifier/OUTPUT    _av_xy*    nc
     32DATA_2D_XY_NETCDF        inopt      xyr        $output_data_path/$run_identifier/OUTPUT    _xy*       nc
     33DATA_2D_XZ_AV_NETCDF     inopt      xzr        $output_data_path/$run_identifier/OUTPUT    _av_xz*    nc
     34DATA_2D_XZ_NETCDF        inopt      xzr        $output_data_path/$run_identifier/OUTPUT    _xz*       nc
     35DATA_2D_YZ_AV_NETCDF     inopt      yzr        $output_data_path/$run_identifier/OUTPUT    _av_yz*    nc
     36DATA_2D_YZ_NETCDF        inopt      yzr        $output_data_path/$run_identifier/OUTPUT    _yz*       nc
     37DATA_3D_NETCDF           inopt      3dr        $output_data_path/$run_identifier/OUTPUT    _3d*       nc
     38DATA_3D_AV_NETCDF        inopt      3dr        $output_data_path/$run_identifier/OUTPUT    _av_3d*    nc
     39DATA_MASK_AV_NETCDF      inopt      mar        $output_data_path/$run_identifier/OUTPUT    _av_masked nc
     40DATA_MASK_NETCDF         inopt      mar        $output_data_path/$run_identifier/OUTPUT    _masked    nc
     41#DATA_PRT_NETCDF          inopt:pe   prtr       $output_data_path/$run_identifier/OUTPUT    _prt*      nc
    4242#
    43 #---------------------------------------------------------------------------------------------
     43#------------------------------------------------------------------------------------------------------------
    4444# List of output-files
    45 #---------------------------------------------------------------------------------------------
    46 BINOUT*                    out:lnpe restart   $fast_io_catalog/$run_identifier/RESTART  _d3d
    47 PARTICLE_RESTART_DATA_OUT* out:lnpe prt#:prtr $fast_io_catalog/$run_identifier/RESTART  _rprt
    48 SVFOUT*                    out:lnpe svfout    $fast_io_catalog/$run_identifier/SVF      _svf
     45#------------------------------------------------------------------------------------------------------------
     46BINOUT*                    out:lnpe restart:pcr $restart_data_path/$run_identifier/RESTART    _d3d
     47PARTICLE_RESTART_DATA_OUT* out:lnpe prt#:prtr   $restart_data_path/$run_identifier/RESTART    _rprt
     48SVFOUT*                    out:lnpe svfout      $restart_data_path/$run_identifier/SVF        _svf
    4949#
    50 STDOUT*                    out:tr   d3#:pcr   $base_data/$run_identifier/MONITORING     _stdout
    51 STDOUT*                    out:tra  d3r       $base_data/$run_identifier/MONITORING     _stdout
    52 RUN_CONTROL*               out:tr   d3#:pcr   $base_data/$run_identifier/MONITORING     _rc
    53 RUN_CONTROL*               out:tra  d3r       $base_data/$run_identifier/MONITORING     _rc
    54 HEADER*                    out:tr   d3#:pcr   $base_data/$run_identifier/MONITORING     _header
    55 HEADER*                    out:tra  d3r       $base_data/$run_identifier/MONITORING     _header
    56 CPU_MEASURES*              out:tr   d3#:pcr   $base_data/$run_identifier/MONITORING     _cpu
    57 CPU_MEASURES*              out:tra  d3r       $base_data/$run_identifier/MONITORING     _cpu
    58 PARTICLE_INFO*             out:tr   pt#       $base_data/$run_identifier/MONITORING     _prt_info
    59 PARTICLE_INFO*             out:tra  ptr       $base_data/$run_identifier/MONITORING     _prt_info
    60 LIST_PROFIL*               out:tr   *         $base_data/$run_identifier/MONITORING     _list_pr
     50PARIN*                     out:tr   d3#:d3r:pcr $output_data_path/$run_identifier/MONITORING  _parin
     51STDOUT*                    out:tr   d3#:d3r:pcr $output_data_path/$run_identifier/MONITORING  _stdout
     52RUN_CONTROL*               out:tr   d3#:d3r:pcr $output_data_path/$run_identifier/MONITORING  _rc
     53HEADER*                    out:tr   d3#:d3r:pcr $output_data_path/$run_identifier/MONITORING  _header
     54CPU_MEASURES*              out:tr   d3#:d3r:pcr $output_data_path/$run_identifier/MONITORING  _cpu
     55PARTICLE_INFOS*            out:tr   *           $output_data_path/$run_identifier/MONITORING  _prt_info
     56LIST_PROFIL*               out:tr   *           $output_data_path/$run_identifier/MONITORING  _list_pr
    6157#
    62 SURFACE_DATA_BIN*          out:lnpe *         $base_data/$run_identifier/OUTPUT         _surf
    63 SURFACE_DATA_AV_BIN*       out:lnpe *         $base_data/$run_identifier/OUTPUT         _av_surf
    64 SURFACE_DATA_NETCDF*       out:tr   *         $base_data/$run_identifier/OUTPUT         _surf      nc
    65 SURFACE_DATA_AV_NETCDF*    out:tr   *         $base_data/$run_identifier/OUTPUT         _av_surf   nc
    66 #
    67 DATA_1D_FL_NETCDF*         out:tr   *         $base_data/$run_identifier/OUTPUT         _fl        nc
    68 DATA_1D_PR_NETCDF*         out:tr   *         $base_data/$run_identifier/OUTPUT         _pr        nc
    69 DATA_1D_SP_NETCDF*         out:tr   *         $base_data/$run_identifier/OUTPUT         _sp        nc
    70 DATA_1D_TS_NETCDF*         out:tr   *         $base_data/$run_identifier/OUTPUT         _ts        nc
    71 DATA_1D_PTS_NETCDF*        out:tr   *         $base_data/$run_identifier/OUTPUT         _pts       nc
    72 DATA_1D_SPTS_NETCDF*       out:tr   *         $base_data/$run_identifier/OUTPUT         _spts      nc
    73 DATA_2D_XY_NETCDF*         out:tr   *         $base_data/$run_identifier/OUTPUT         _xy        nc
    74 DATA_2D_XY_AV_NETCDF*      out:tr   *         $base_data/$run_identifier/OUTPUT         _av_xy     nc
    75 DATA_2D_XZ_NETCDF*         out:tr   *         $base_data/$run_identifier/OUTPUT         _xz        nc
    76 DATA_2D_XZ_AV_NETCDF*      out:tr   *         $base_data/$run_identifier/OUTPUT         _av_xz     nc
    77 DATA_2D_YZ_NETCDF*         out:tr   *         $base_data/$run_identifier/OUTPUT         _yz        nc
    78 DATA_2D_YZ_AV_NETCDF*      out:tr   *         $base_data/$run_identifier/OUTPUT         _av_yz     nc
    79 DATA_3D_NETCDF*            out:tr   *         $base_data/$run_identifier/OUTPUT         _3d        nc
    80 DATA_3D_AV_NETCDF*         out:tr   *         $base_data/$run_identifier/OUTPUT         _av_3d     nc
    81 DATA_MASK_NETCDF*          out:tr   *         $base_data/$run_identifier/OUTPUT         _masked    nc
    82 DATA_MASK_AV_NETCDF*       out:tr   *         $base_data/$run_identifier/OUTPUT         _av_masked nc
    83 DATA_AGT_NETCDF*           out:tr   *         $base_data/$run_identifier/OUTPUT         _agt       nc
    84 VM_OUTPUT*                 out:pe   *         $base_data/$run_identifier/OUTPUT         _vm
    85 #
    86 DATA_PRT_NETCDF*           out:pe   *         $base_data/$run_identifier/OUTPUT         _prt
    87 DATA_PRT_NETCDF*           out:trpe *         $base_data/$run_identifier/OUTPUT         _prt
    88 PARTICLE_DATA*             out:lnpe *         $base_data/$run_identifier/OUTPUT         _prt_dat
    89 #
    90 DATA_1D_TS_WTM_NETCDF*     out:tr   *         $base_data/$run_identifier/OUTPUT          _wtm       nc
     58DATA_1D_FL_NETCDF*         out:tr   *           $output_data_path/$run_identifier/OUTPUT      _fl          nc
     59DATA_1D_PR_NETCDF*         out:tr   *           $output_data_path/$run_identifier/OUTPUT      _pr          nc
     60DATA_1D_PTS_NETCDF*        out:tr   *           $output_data_path/$run_identifier/OUTPUT      _pts         nc
     61DATA_1D_SP_NETCDF*         out:tr   *           $output_data_path/$run_identifier/OUTPUT      _sp          nc
     62DATA_1D_SPTS_NETCDF*       out:tr   *           $output_data_path/$run_identifier/OUTPUT      _spts        nc
     63DATA_1D_TS_NETCDF*         out:tr   *           $output_data_path/$run_identifier/OUTPUT      _ts          nc
     64DATA_1D_TS_WTM_NETCDF*     out:tr   *           $output_data_path/$run_identifier/OUTPUT      _wtm         nc
     65DATA_2D_XY_AV_NETCDF*      out:tr   *           $output_data_path/$run_identifier/OUTPUT      _av_xy       nc
     66DATA_2D_XY_NETCDF*         out:tr   *           $output_data_path/$run_identifier/OUTPUT      _xy          nc
     67DATA_2D_XZ_AV_NETCDF*      out:tr   *           $output_data_path/$run_identifier/OUTPUT      _av_xz       nc
     68DATA_2D_XZ_NETCDF*         out:tr   *           $output_data_path/$run_identifier/OUTPUT      _xz          nc
     69DATA_2D_YZ_AV_NETCDF*      out:tr   *           $output_data_path/$run_identifier/OUTPUT      _av_yz       nc
     70DATA_2D_YZ_NETCDF*         out:tr   *           $output_data_path/$run_identifier/OUTPUT      _yz          nc
     71DATA_3D_AV_NETCDF*         out:tr   *           $output_data_path/$run_identifier/OUTPUT      _av_3d       nc
     72DATA_3D_NETCDF*            out:tr   *           $output_data_path/$run_identifier/OUTPUT      _3d          nc
     73DATA_AGT_NETCDF*           out:tr   *           $output_data_path/$run_identifier/OUTPUT      _agt         nc
     74DATA_MASK_AV_NETCDF*       out:tr   *           $output_data_path/$run_identifier/OUTPUT      _av_masked   nc
     75DATA_MASK_NETCDF*          out:tr   *           $output_data_path/$run_identifier/OUTPUT      _masked      nc
     76#DATA_PRT_NETCDF*           out:pe   *           $output_data_path/$run_identifier/OUTPUT      _prt         nc
     77#DATA_PRT_NETCDF*           out:trpe *           $output_data_path/$run_identifier/OUTPUT      _prt         nc
     78PARTICLE_DATA*             out:lnpe *           $output_data_path/$run_identifier/OUTPUT      _prt_bin
     79SURFACE_DATA_AV_BIN*       out:lnpe *           $output_data_path/$run_identifier/OUTPUT      _av_surf_bin
     80SURFACE_DATA_BIN*          out:lnpe *           $output_data_path/$run_identifier/OUTPUT      _surf_bin
     81SURFACE_DATA_AV_NETCDF*    out:tr   *           $output_data_path/$run_identifier/OUTPUT      _av_surf     nc
     82SURFACE_DATA_NETCDF*       out:tr   *           $output_data_path/$run_identifier/OUTPUT      _surf        nc
     83VM_OUTPUT*                 out:pe   *           $output_data_path/$run_identifier/OUTPUT      _vm
     84#------------------------------------------------------------------------------------------------------------
     85# Deprecated settings (will be removed in a future revision)
     86#------------------------------------------------------------------------------------------------------------
     87BININ                      in:lnpe  rec         $restart_data_path/$run_identifier/RESTART  _d3d*
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