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GEOS-Chem "Science Codebase" repository. Contains GEOS-Chem science routines, run directory generation scripts, and interface code. This repository is used as a submodule within the GCClassic and GCHP wrappers, as well as in other modeling contexts (external ESMs).
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MERRA2 .20170101.I3.4x5.nc4 - Cannot get field PS_NEXTDAY #2474

Closed Naaimaben closed 3 weeks ago

Naaimaben commented 3 weeks ago

What happened? What did you expect to happen?

I faced this issue when I tried to run a simulation for the year 2017.

HEMCO ERROR: Cannot find field with valid time stamp in /home/.../ExtData//GEOS_4x5/MERRA2/2017/01/MERRA2
.20170101.I3.4x5.nc4 - Cannot get field PS_NEXTDAY. Please check file name and time (incl. time range flag) in the config. file

This is the file's ncdump


netcdf MERRA2.20170101.I3.4x5 {
dimensions:
        time = 8 ;
        lev = 72 ;
        lat = 46 ;
        lon = 72 ;
variables:
        int time(time) ;
                time:calendar = "gregorian" ;
                time:long_name = "time" ;
                time:standard_name = "time" ;
                time:units = "minutes since 2017-01-01 00:00:00.0" ;
                time:delta_t = "0000-00-00 03:00:00" ;
                time:begin_date = "20170101" ;
                time:begin_time = "000000" ;
                time:time_increment = "030000" ;
        float lev(lev) ;
                lev:long_name = "levels" ;
                lev:standard_name = "levels" ;
                lev:units = "1" ;
        float lat(lat) ;
                lat:long_name = "latitude" ;
                lat:standard_name = "latitude" ;
                lat:units = "degrees_north" ;
float lon(lon) ;
                lon:long_name = "longitude" ;
                lon:units = "degrees_east" ;
        float PS(time, lat, lon) ;
                PS:long_name = "surface_pressure" ;
                PS:standard_name = "surface_pressure" ;
                PS:units = "Pa" ;
                PS:gamap_category = "GMAO-2D" ;
                PS:missing_value = 1.e+15f ;
                PS:_FillValue = 1.e+15f ;
                PS:scale_factor = 1.f ;
                PS:add_offset = 0.f ;
        float PV(time, lev, lat, lon) ;
                PV:long_name = "ertels_potential_vorticity" ;
                PV:standard_name = "ertels_potential_vorticity" ;
                PV:units = "K m+2 kg-1 s-1" ;
                PV:gamap_category = "GMAO-3D$" ;
                PV:missing_value = 1.e+15f ;
                PV:_FillValue = 1.e+15f ;
                PV:scale_factor = 1.f ;
                PV:add_offset = 0.f ;
        float QV(time, lev, lat, lon) ;
                QV:long_name = "specific_humidity" ;
                QV:standard_name = "specific_humidity" ;
                QV:units = "kg kg-1" ;
                QV:gamap_category = "GMAO-3D$" ;
                QV:missing_value = 1.e+15f ;
                QV:_FillValue = 1.e+15f ;
                QV:scale_factor = 1.f ;
                QV:add_offset = 0.f ;
float T(time, lev, lat, lon) ;
                T:long_name = "air_temperature" ;
                T:standard_name = "air_temperature" ;
                T:units = "K" ;
                T:gamap_category = "GMAO-3D$" ;
                T:missing_value = 1.e+15f ;
                T:_FillValue = 1.e+15f ;
                T:scale_factor = 1.f ;
                T:add_offset = 0.f ;
// global attributes:
                :Title = "MERRA2 instantaneous 3-hour parameters (I3), processed for GEOS-Chem input" ;
                :Contact = "GEOS-Chem Support Team (geos-chem-support@as.harvard.edu)" ;
                :References = "www.geos-chem.org; wiki.geos-chem.org" ;
                :Filename = "MERRA2.20170101.I3.4x5.nc4" ;
                :History = "File generated on: 2017/06/08 18:40:40 GMT-0300" ;
                :ProductionDateTime = "File generated on: 2017/06/08 18:40:40 GMT-0300" ;
                :ModificationDateTime = "File generated on: 2017/06/08 18:40:40 GMT-0300" ;
                :Format = "NetCDF-4" ;
                :SpatialCoverage = "global" ;
                :Conventions = "COARDS" ;
                :Version = "MERRA2" ;
                :VersionID = "5.12.4" ;
                :Nlayers = "72" ;
                :Start_Date = "20170101" ;
                :Start_Time = "00:00:00.0" ;
                :End_Date = "20170101" ;
                :End_Time = "23:59:59.99999" ;
                :Delta_Time = "030000" ;
                :Delta_Lon = "5" ;
                :Delta_Time = "030000" ;
                :Delta_Lon = "5" ;
                :Delta_Lat = "4" ;

What are the steps to reproduce the bug?

Running the simulation

Please attach any relevant configuration and log files.

No response

What GEOS-Chem version were you using?

14.4.2

What environment were you running GEOS-Chem on?

Other (please explain below)

What compiler and version were you using?

Supercomputer

Will you be addressing this bug yourself?

Yes

In what configuration were you running GEOS-Chem?

GCClassic

What simulation were you running?

Full chemistry

As what resolution were you running GEOS-Chem?

4x5

What meterology fields did you use?

MERRA-2

Additional information

No response

yantosca commented 3 weeks ago

Thanks for writing @Naaimaben. Would you be able to attach your geoschem_config.yml, HEMCO_Config.rc, and GEOS-Chem log file to this issue? That would help us to diagnose the problem.

Naaimaben commented 3 weeks ago

Thanks @yantosca. My case is a little bit different as I'm trying to iterate through the months, the following is the script that generates input.files which automatically generate a unique geoschem_config.yml file for each month. 

#!/bin/bash
runDir=../gc_4x5_merra2_fullchem
dataDir=../lustre/aq_model-z5xz2cq4sae/shared/ExtData
uniq='geosmerra_4x5_14.4.2'

init=F

#rm -rf logs/*
#rm -rf scripts/*
#rm -rf input.files/*

nSimPerSubmit=1        # Number of sims per script
simCount=$nSimPerSubmit # To trigger first script generation

#this to check if the directories exist, if not it will be created
# Initialize run directory environment
if [ ! -d logs        ]; then mkdir logs; fi
#if [ ! -d output      ]; then mkdir output; fi
# if [ ! -d restarts    ]; then mkdir restarts; fi
if [ ! -d input.files ]; then mkdir input.files; fi
if [ ! -d scripts     ]; then mkdir scripts; fi
if [ ! -d temp        ]; then mkdir temp; fi

#This block creates a new file called submit_global_batch.sh (used for batch submission of jobs)
#writing the #!/bin/bash shebang inside it using cat

# Generate submit script
cat > submit_global_batch.sh <<EOF
#!/bin/bash
EOF
chmod 755 submit_global_batch.sh
first=1

for year in {2017..2018}; do    
for mon in {01..12}; do          
month=$mon #`printf "%0*d" 2 $mon`

# Skip months that have already run

for day0 in 01; do

    day2=01; v1=3; v2=0
    if [[ 10#$month -eq 12 ]]; then
        year2=`printf "%0*d" 4 $((10#$year+1))`; month2=01
    else
        year2=$year; month2=`printf "%0*d" 2 $((10#$month+1))`
    fi
echo $year $month $day0

## Create yml file
cat > input.files/geoschem_config_$year.$month.$day0.yml <<EOF
---
### geoschem_config.yml: GEOS-Chem Runtime configuration options.
### Customized for simulations using the KPP "fullchem" mechanism.
###
### NOTE: Add quotes around nitrogen oxide ('NO'), because YAML
### parsers will confuse this with a negative "no" value.

#============================================================================
# Simulation settings
#============================================================================

simulation:
  name: fullchem
  start_date: [$year$month$day0, 000000]
  end_date: [$year2$month2$day2, 000000]
  root_data_dir: /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData
  met_field: MERRA2
  species_database_file: ./species_database.yml
  species_metadata_output_file: OutputDir/geoschem_species_metadata.yml
  verbose:
    activate: false
    on_cores: root       # Allowed values: root all
  use_gcclassic_timers: false

#============================================================================
# Grid settings
#============================================================================
grid:
  resolution: 4.0x5.0
  number_of_levels: 72
  longitude:
    range: [-180.0, 180.0]
    center_at_180: true 
  latitude:
    range: [-90.0, 90.0]
    half_size_polar_boxes: true 
  nested_grid_simulation:
    activate: false
    buffer_zone_NSEW: [0, 0, 0, 0]

#============================================================================
# Timesteps settings
#============================================================================
timesteps:
  transport_timestep_in_s: 600
  chemistry_timestep_in_s: 1200
  radiation_timestep_in_s: 10800

#============================================================================
# Settings for GEOS-Chem operations
#============================================================================
operations:

  chemistry:
    activate: true
    linear_chemistry_aloft:
      activate: true
      use_linoz_for_O3: true
    active_strat_H2O:
      activate: true
      use_static_bnd_cond: true
    gamma_HO2: 0.2
    autoreduce_solver:
      activate: false
      use_target_threshold:
        activate: true
        oh_tuning_factor: 0.00005
        no2_tuning_factor: 0.0001
      use_absolute_threshold:
        scale_by_pressure: true
        absolute_threshold: 100.0
      keep_halogens_active: false
      append_in_internal_timestep: false

  convection:
    activate: true

  dry_deposition:
    activate: true
    CO2_effect:
      activate: false
      CO2_level: 600.0
      reference_CO2_level: 380.0
    diag_alt_above_sfc_in_m: 10

  pbl_mixing:
     activate: true
     use_non_local_pbl: true 

  photolysis:
    activate: true
    num_levs_with_cloud: 34
    input_directories:
      fastjx_input_dir: /home/naaima.benkadour/../shared/ExtData//CHEM_INPUTS/FAST_JX/v2024-05/
      cloudj_input_dir: /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//CHEM_INPUTS/CLOUD_J/v2023-05/
    overhead_O3:
      use_online_O3_from_model: true 
      use_column_O3_from_met: true
      use_TOMS_SBUV_O3: false
    photolyze_nitrate_aerosol:
      activate: true
      NITs_Jscale: 100.0
      NIT_Jscale: 100.0
      percent_channel_A_HONO: 66.667
      percent_channel_B_NO2: 33.333

  rrtmg_rad_transfer_model:
    activate: false
    aod_wavelengths_in_nm:
      - 550
    longwave_fluxes: false
    shortwave_fluxes: false
    clear_sky_flux: false
    all_sky_flux: false
    fixed_dyn_heating: false
    seasonal_fdh: false
    read_dyn_heating: false
    co2_ppmv: 390.0

  transport:
    gcclassic_tpcore:                 # GEOS-Chem Classic only
      activate: true                  # GEOS-Chem Classic only
      fill_negative_values: true      # GEOS-Chem Classic only
      iord_jord_kord: [3, 3, 7]       # GEOS-Chem Classic only
    transported_species:
      - ACET
      - ACTA
      - AERI
      - ALD2
      - ALK4
      - AONITA
      - AROMP4
      - AROMP5
      - ATOOH
      - BALD
      - BCPI
      - BCPO
      - BENZ
      - BENZP
      - Br
      - Br2
      - BrCl
      - BrNO2
      - BrNO3
      - BrO
      - BrSALA
      - BrSALC
      - BUTDI
      - BZCO3H
      - BZPAN
      - C2H2
      - C2H4
      - C2H6
      - C3H8
      - CCl4
      - CFC11
      - CFC113
      - CFC114
      - CFC115
      - CFC12
      - CH2Br2
      - CH2Cl2
      - CH2I2
      - CH2IBr
      - CH2ICl
      - CH2O
      - CH3Br
      - CH3CCl3
      - CH3Cl
      - CH3I
      - CH4
      - CHBr3
      - CHCl3
      - Cl
      - Cl2
      - Cl2O2
      - ClNO2
      - ClNO3
      - ClO
      - ClOO
      - CLOCK
      - CO
      - CSL
      - DMS
      - DST1
      - DST2
      - DST3
      - DST4
      - EOH
      - ETHLN
      - ETHN
      - ETHP
      - ETNO3
      - ETP
      - FURA
      - GLYC
      - GLYX
      - H1211
      - H1301
      - H2402
      - H2O
      - H2O2
      - HAC
      - HBr
      - HC5A
      - HCFC123
      - HCFC141b
      - HCFC142b
      - HCFC22
      - HCl
      - HCOOH
      - HI
      - HMHP
      - HMML
      - HMS
      - HNO2
      - HNO3
      - HNO4
      - HOBr
      - HOCl
      - HOI
      - HONIT
      - HPALD1
      - HPALD2
      - HPALD3
      - HPALD4
      - HPETHNL
      - I
      - I2
      - I2O2
      - I2O3
      - I2O4
      - IBr
      - ICHE
      - ICl
      - ICN
      - ICPDH
      - IDC
      - IDCHP
      - IDHDP
      - IDHPE
      - IDN
      - IEPOXA
      - IEPOXB
      - IEPOXD
      - IHN1
      - IHN2
      - IHN3
      - IHN4
      - INDIOL
      - INO
      - INPB
      - INPD
      - IO
      - IONITA
      - IONO
      - IONO2
      - IPRNO3
      - ISALA
      - ISALC
      - ISOP
      - ITCN
      - ITHN
      - LIMO
      - LVOC
      - LVOCOA
      - MACR
      - MACR1OOH
      - MAP
      - MCRDH
      - MCRENOL
      - MCRHN
      - MCRHNB
      - MCRHP
      - MCT
      - MEK
      - MENO3
      - MGLY
      - MOH
      - MONITA
      - MONITS
      - MONITU
      - MP
      - MPAN
      - MPN
      - MSA
      - MTPA
      - MTPO
      - MVK
      - MVKDH
      - MVKHC
      - MVKHCB
      - MVKHP
      - MVKN
      - MVKPC
      - N2O
      - N2O5
      - NH3
      - NH4
      - NIT
      - NITs
      - 'NO'
      - NO2
      - NO3
      - NPHEN
      - NPRNO3
      - O3
      - OClO
      - OCPI
      - OCPO
      - OCS
      - OIO
      - PAN
      - pFe
      - PHEN
      - PIP
      - PP
      - PPN
      - PROPNN
      - PRPE
      - PRPN
      - PYAC
      - R4N2
      - R4P
      - RA3P
      - RB3P
      - RCHO
      - RIPA
      - RIPB
      - RIPC
      - RIPD
      - RP
      - SALA
      - SALAAL
      - SALACL
      - SALC
      - SALCAL
      - SALCCL
      - SO2
      - SO4
      - SO4s
      - SOAGX
      - SOAIE
      - SOAP
      - SOAS
      - TOLU
      - XYLE

  wet_deposition:
    activate: true

#============================================================================
# Settings for GEOS-Chem aerosols
#============================================================================
aerosols:

  carbon:
    activate: true
    brown_carbon: false
    enhance_black_carbon_absorption:
      activate: true
      hydrophilic: 1.5
      hydrophobic: 1.0

  complex_SOA:
    activate:  false
    semivolatile_POA: false

  dust:
    activate: true
    acid_uptake_on_dust: false

  sea_salt:
    activate: true
    SALA_radius_bin_in_um: [0.01, 0.5]
    SALC_radius_bin_in_um: [0.5,  8.0]
    marine_organic_aerosols: false

  stratosphere:
    settle_strat_aerosol: true
    polar_strat_clouds:
      activate: true
      het_chem: true
    allow_homogeneous_NAT: false
    NAT_supercooling_req_in_K: 3.0
    supersat_factor_req_for_ice_nucl: 1.2
    calc_strat_aod: true

  sulfate:
    activate: true
    metal_cat_SO2_oxidation: true

#============================================================================
# Settings for diagnostics (other than HISTORY and HEMCO)
#============================================================================
extra_diagnostics:

  obspack:
    activate: false
    quiet_logfile_output: false
    input_file: ./obspack_co2_1_OCO2MIP_2018-11-28.YYYYMMDD.nc
    output_file: ./OutputDir/GEOSChem.ObsPack.YYYYMMDD_hhmmz.nc4
    output_species:
      - CO
      - 'NO'
      - O3

  planeflight:
    activate: false
    flight_track_file: Planeflight.dat.YYYYMMDD
    output_file: plane.log.YYYYMMDD

EOF

# Generate script for queue
scriptname=$uniq.$year.$month.$day0
cat > scripts/$scriptname <<EOF
#!/bin/bash
#SBATCH --account aq_model-z5xz2cq4sae-default-cpu
#SBATCH -c 112               # Number of cores for himem partition
#SBATCH -N 1                 # Ensure that all cores are on one machine
#SBATCH -t 0-18:00           # Runtime in D-HH:MM, himem partition has infinite timelimit
#SBATCH --exclusive           # Memory pool for all cores (no other job will use the same node)
#SBATCH --mem=1500GB 
#SBATCH --partition himem            # Use himem partition
#SBATCH --qos=himem-cpu                 # Explicitly set the QOS to himem-cpu

hostname
module load intel-compilers/2022.2.0 
module load GCC/11.2.0
module load slurm-aux/1.0.0 
module load ncurses/6.3-GCCcore-11.3.0 
module load GCC/11.3.0  
module load gompi/2022a
module load rhel8/global 
module load gettext/0.21-GCCcore-11.3.0
module load numactl/2.0.14-GCCcore-11.3.0
module load Szip/2.1.1-GCCcore-11.3.0
module load intel-compilers/2022.2.0 
module load libreadline/8.1.2-GCCcore-11.3.0 
module load libpciaccess/0.16-GCCcore-11.3.0 
module load HDF5/1.12.2-gompi-2022a
module load GCCcore/11.3.0 
module load DB/18.1.40-GCCcore-11.3.0   
module load hwloc/2.7.1-GCCcore-11.3.0 
module load  gzip/1.12-GCCcore-11.3.0
module load zlib/1.2.12-GCCcore-11.3.0 
module load Perl/5.34.1-GCCcore-11.3.0 
module load libevent/2.1.12-GCCcore-11.3.0
module load lz4/1.9.3-GCCcore-11.3.0
module load OpenSSL/1.1 
module load git/2.36.0-GCCcore-11.3.0-nodocs 
module load UCX/1.12.1-GCCcore-11.3.0 
module load zstd/1.5.2-GCCcore-11.3.0
module load cURL/7.83.0-GCCcore-11.3.0 
module load bzip2/1.0.8-GCCcore-11.3.0 
module load libfabric/1.15.1-GCCcore-11.3.0 
module load netCDF/4.9.0-gompi-2022a
module load expat/2.4.8-GCCcore-11.3.0 
module load libarchive/3.6.1-GCCcore-11.3.0 
module load PMIx/4.1.2-GCCcore-11.3.0
module load XZ/5.2.5-GCCcore-11.3.0 
module load CMake/3.24.3-GCCcore-11.3.0 
module load UCC/1.0.0-GCCcore-11.3.0
module load libxml2/2.9.13-GCCcore-11.3.0
module load binutils/2.38-GCCcore-11.3.0  
module load flex/2.6.4-GCCcore-12.3.0
module load  GMP/6.2.1-GCCcore-11.3.0
module load OpenMPI/4.1.4-GCC-11.3.0
module load MPFR/4.1.0-GCCcore-11.3.0  
module load netCDF-Fortran/4.6.0-gompi-2022a

#Launch the program
echo "Program started at:"
date

export OMP_NUM_THREADS=32
export F_UFMTENDIAN=big
export OMP_STACKSIZE=500m

EOF
chmod 755 scripts/$scriptname

if [ $first -eq 1 ]; then
  echo "JOBID=\`sbatch scripts/$scriptname\`"                          >> submit_global_batch.sh
  first=0
  echo "echo \$JOBID"                                                >> submit_global_batch.sh
  echo "PREV=\$JOBID"                                                >> submit_global_batch.sh
fi 

    ##########################
    # Execute GEOS-Chem
    ##########################

echo "## Execute GEOS-Chem ##"                                                 >> scripts/$scriptname
echo "cd $runDir"                                                              >> scripts/$scriptname
echo "cp $runDir/input.files/geoschem_config_$year.$month.$day0.yml $runDir/geoschem_config.yml" >> scripts/$scriptname
echo "cp $runDir/OutputDir/GEOSChem.BoundaryConditions.${year}${month}${day0}_0000z.nc4 $runDir/OutputDir/temp/GEOSChem.BoundaryConditions.${year}${month}${day0}_0000z.nc4" >> scripts/$scriptname
echo "$runDir/gcclassic >& $runDir/logs/geosmerra_4x5_global.log.$year.$month.$day0.log"       >> scripts/$scriptname
simCount=$((simCount+1))

echo ""                                                                        >> scripts/$scriptname
echo "## Exit Script Upon Error ##"                                            >> scripts/$scriptname
echo "filesize=\$(stat -c%s \"./OutputDir/HEMCO_diagnostics.${year}${month}${day0}0000.nc\")"     >> scripts/$scriptname
echo "if [ \$filesize -le 200 ]; then exit 1; fi"                              >> scripts/$scriptname 

# if [ ! -d $runDir/output/$year ]; then mkdir -p $runDir/output/$year; fi

echo "" >> scripts/$scriptname

echo "cd $runDir"                                                                 >> scripts/$scriptname
if [ $first -eq 0 ]; then
    echo "if [ -f ${oldoutname} ]; then"                                              >> $runDir/scripts/$oldscriptname
    echo "  filesize=\$(stat -c%s \"$oldoutname\")"                                   >> $runDir/scripts/$oldscriptname
    echo "  if [ \$filesize -gt 136 ]; then sbatch ${runDir}/scripts/${scriptname}; fi" >> $runDir/scripts/$oldscriptname
    echo "fi"                                                                         >> $runDir/scripts/$oldscriptname
    echo ""                                                                           >> $runDir/scripts/$oldscriptname
    echo "exit 0;"                                                                    >> $runDir/scripts/$oldscriptname
fi
oldscriptname=$scriptname
oldoutname=OutputDir/HEMCO_diagnostics.${year}${month}${day0}0000.nc

first=0
done # day    
done # month
done # year

echo "exit 0;" >> submit_global_batch.sh

exit 0;

The following file is log file 

*************   S T A R T I N G   G E O S - C H E M   *************

===> Mode of operation         : GEOS-Chem "Classic"
===> GEOS-Chem version         : 14.4.2
===> Compiler                  : GNU Fortran compiler (aka gfortran)
===> Flexible precision set to : 8-byte real (aka REAL*8)
===> Parallelization w/ OpenMP : ON
===> netCDF diagnostics        : ON
===> netCDF file compression   : SUPPORTED
===> Luo et al (2019) wetdep?  : OFF

===> SIMULATION START TIME: 2024/09/25 16:12 <===

===============================================================================
G E O S - C H E M   U S E R   I N P U T

READ_INPUT_FILE: Opening ./geoschem_config.yml

SIMULATION SETTINGS
-------------------
Simulation name             : fullchem
CHEM_INPUTS directory       : /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData/CHEM_INPUTS/
Species database file       : ./species_database.yml
Turn on verbose output      :     F
Verbose output printed on   : root core only
Start time of run           : 20170101 000000
End time of run             : 20170201 000000
Data Directory              : /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData/
Meteorology field           : MERRA2
Turn on GEOS-Chem timers    :     F

GRID SETTINGS
------------
Grid resolution             : 4.0x5.0
Min/max longitude           :  -180.0000   180.0000
Min/max latitude            :   -90.0000    90.0000
X grid dimension            :    72
Y grid dimension            :    46
Z grid dimension            :    72
Use half-sized polar boxes? :     T
Center on Intl Date Line?   :     T
Is this a nested-grid sim?  :     F
 --> Buffer zone (N S E W ) :     0    0    0    0

TIMESTEP SETTINGS
-----------------
Transport/Convection [sec]  :   600
Chemistry/Emissions  [sec]  :  1200
RRTMG rad transfer   [sec]  : 10800

TRANSPORT SETTINGS
------------------
Turn on transport?          :     T
Let TPCORE Fill negatives?  :     T
IORD, JORD, KORD for TPCORE?:     3    3    7

CONVECTION SETTINGS
-------------------
Turn on cloud convection?   :     T

PBL MIXING SETTINGS
-------------------
Turn on PBL mixing?         :     T
Turn on non-local PBL?      :     T

AEROSOL SETTINGS
----------------
Online SULFATE AEROSOLS?    :     T
Metal catalyzed SO2 ox.?    :     T
Online CARBON AEROSOLS?     :     T
Brown Carbon Aerosol?       :     F
BC Absorption Enhancement?  :     T
Hydrophilic BC AE factor    :     1.50
Hydrophobic BC AE factor    :     1.00
Online COMPLEX SOA?         :     F
Semivolatile POA?           :     F
Online DUST AEROSOLS?       :     T
Acid uptake on dust?        :     F
Online SEA SALT AEROSOLS?   :     T
Accum  SEA SALT radii [um]  :     0.01 -     0.50
Coarse SEA SALT radii [um]  :     0.50 -     8.00
MARINE ORGANIC AEROSOLS?    :     F
Settle strat. aerosols?     :     T
Online SOLID PSC aerosols?  :     T
Allow hom. NAT nucleation?  :     F
NAT supercooling requirement:     3.00K
Ice supersaturation req.    :    20.00K
Perform PSC het. chemistry? :     T
Use strat. aerosol OD?      :     T

DRY DEPOSITION SETTINGS
-----------------------
Turn on dry deposition?     :     T
Dry dep over full PBL?      :     F
Turn on CO2 effect?         :     F
CO2 level                   :   600.00
CO2 reference level         :   380.00
RIX scaling factor          :     1.00

WET DEPOSITION SETTINGS
-----------------------
Turn on wet deposition?     :     T

CHEMISTRY SETTINGS
------------------
Turn on chemistry?          :     T
Use linear. mesospheric chem:     T
 => Use Linoz for O3?       :     T
Online strat. H2O?          :     T
Use robust strat H2O BC?    :     T
GAMMA HO2                   : 0.20
Use auto-reduce solver?     :     F
Use target species threshold:     T
OH tuning factor:             5.0E-05
NO2 tuning factor:            1.0E-04
Keep halogen spec. active?  :     F
Use append in auto-reduce?  :     F

PHOTOLYSIS SETTINGS
-------------------
Turn on photolysis?         :     T
Number levels with cloud    :    34
FAST-JX input directory     : /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//CHEM_INPUTS/FAST_JX/v2024-05/
Cloud-J input directory     : /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//CHEM_INPUTS/CLOUD_J/v2023-05/
Use online ozone?           :     T
Use ozone from met?         :     T
Use TOMS/SBUV ozone?        :     F
Photolyse nitrate aerosol?  :     T
JNITs scaling of JHNO3      :  100.000
JNIT scaling of JHNO3       :  100.000
JNIT(s) channel A (HONO)    :   66.667
JNIT(s) channel B (NO2)     :   33.333

NOTE ABOUT OVERHEAD O3 FOR FAST-JX:
 Online O3 from GEOS-Chem will be used
 to weight the O3 column within the
 chemistry grid and O3 from met or TOMS
 will be used outside the chemistry grid.

RRTMG SETTINGS
--------------
AOD output wavelength (nm)  :   550.0
Turn on radiation?          :     F
Consider longwave?          :     F
Consider shortwave?         :     F
Clear-sky flux?             :     F
All-sky flux?               :     F
CO2 VMR in ppmv             :   390.0
Fixed dyn. heat. assumption?:     F
 --> Seasonal evolution?    :     F
 --> Extend to TOA?         :     F
 --> Read in dyn. heating?  :     F

OBSPACK SETTINGS
----------------
Turn on ObsPack diagnostic? :     F
Suppress logfile output?    :     F
ObsPack input file          : ./obspack_co2_1_OCO2MIP_2018-11-28.YYYYMMDD.nc
ObsPack output file         : ./OutputDir/GEOSChem.ObsPack.YYYYMMDD_hhmmz.nc4

PLANEFLIGHT DIAGNOSTIC SETTINGS
-------------------------------
Turn on planeflight diag?   :     F
Flight track input file     : Planeflight.dat.YYYYMMDD
Output file name            : plane.log.YYYYMMDD

TIMESTEPS SETTINGS
------------------
Chemistry  Timestep [sec]   :   1200
Convection Timestep [sec]   :    600
Dynamics   Timestep [sec]   :    600
Emission   Timestep [sec]   :   1200
Unit Conv  Timestep [sec]   :    600
Diagnostic Timestep [sec]   :   1200
Radiation  Timestep [sec]   :  10800

%%%%%%%%%%%%%%% GLOBAL GRID %%%%%%%%%%%%%%%

Grid box longitude centers [degrees]: 
-180.00000 -175.00000 -170.00000 -165.00000 -160.00000 -155.00000 -150.00000
-145.00000 -140.00000 -135.00000 -130.00000 -125.00000 -120.00000 -115.00000
-110.00000 -105.00000 -100.00000  -95.00000  -90.00000  -85.00000  -80.00000
 -75.00000  -70.00000  -65.00000  -60.00000  -55.00000  -50.00000  -45.00000
 -40.00000  -35.00000  -30.00000  -25.00000  -20.00000  -15.00000  -10.00000
  -5.00000    0.00000    5.00000   10.00000   15.00000   20.00000   25.00000
  30.00000   35.00000   40.00000   45.00000   50.00000   55.00000   60.00000
  65.00000   70.00000   75.00000   80.00000   85.00000   90.00000   95.00000
 100.00000  105.00000  110.00000  115.00000  120.00000  125.00000  130.00000
 135.00000  140.00000  145.00000  150.00000  155.00000  160.00000  165.00000
 170.00000  175.00000

Grid box latitude centers [degrees]: 
 -89.00000  -86.00000  -82.00000  -78.00000  -74.00000  -70.00000  -66.00000
 -62.00000  -58.00000  -54.00000  -50.00000  -46.00000  -42.00000  -38.00000
 -34.00000  -30.00000  -26.00000  -22.00000  -18.00000  -14.00000  -10.00000
  -6.00000   -2.00000    2.00000    6.00000   10.00000   14.00000   18.00000
  22.00000   26.00000   30.00000   34.00000   38.00000   42.00000   46.00000
  50.00000   54.00000   58.00000   62.00000   66.00000   70.00000   74.00000
  78.00000   82.00000   86.00000   89.00000

%%%%%%%%%%%% USER-DEFINED GRID %%%%%%%%%%%%

  XMinOffset :            0
  XMaxOffset :           71
  YMinOffset :            0
  YMaxOffset :           45

Grid box longitude centers [degrees]: 
-180.00000 -175.00000 -170.00000 -165.00000 -160.00000 -155.00000 -150.00000
-145.00000 -140.00000 -135.00000 -130.00000 -125.00000 -120.00000 -115.00000
-110.00000 -105.00000 -100.00000  -95.00000  -90.00000  -85.00000  -80.00000
 -75.00000  -70.00000  -65.00000  -60.00000  -55.00000  -50.00000  -45.00000
 -40.00000  -35.00000  -30.00000  -25.00000  -20.00000  -15.00000  -10.00000
  -5.00000    0.00000    5.00000   10.00000   15.00000   20.00000   25.00000
  30.00000   35.00000   40.00000   45.00000   50.00000   55.00000   60.00000
  65.00000   70.00000   75.00000   80.00000   85.00000   90.00000   95.00000
 100.00000  105.00000  110.00000  115.00000  120.00000  125.00000  130.00000
 135.00000  140.00000  145.00000  150.00000  155.00000  160.00000  165.00000
 170.00000  175.00000

Grid box longitude edges [degrees]: 
-182.50000 -177.50000 -172.50000 -167.50000 -162.50000 -157.50000 -152.50000
-147.50000 -142.50000 -137.50000 -132.50000 -127.50000 -122.50000 -117.50000
-112.50000 -107.50000 -102.50000  -97.50000  -92.50000  -87.50000  -82.50000
 -77.50000  -72.50000  -67.50000  -62.50000  -57.50000  -52.50000  -47.50000
 -42.50000  -37.50000  -32.50000  -27.50000  -22.50000  -17.50000  -12.50000
  -7.50000   -2.50000    2.50000    7.50000   12.50000   17.50000   22.50000
  27.50000   32.50000   37.50000   42.50000   47.50000   52.50000   57.50000
  62.50000   67.50000   72.50000   77.50000   82.50000   87.50000   92.50000
  97.50000  102.50000  107.50000  112.50000  117.50000  122.50000  127.50000
 132.50000  137.50000  142.50000  147.50000  152.50000  157.50000  162.50000
 167.50000  172.50000  177.50000

Grid box latitude centers [degrees]: 
 -89.00000  -86.00000  -82.00000  -78.00000  -74.00000  -70.00000  -66.00000
 -62.00000  -58.00000  -54.00000  -50.00000  -46.00000  -42.00000  -38.00000
 -34.00000  -30.00000  -26.00000  -22.00000  -18.00000  -14.00000  -10.00000
  -6.00000   -2.00000    2.00000    6.00000   10.00000   14.00000   18.00000
  22.00000   26.00000   30.00000   34.00000   38.00000   42.00000   46.00000
  50.00000   54.00000   58.00000   62.00000   66.00000   70.00000   74.00000
  78.00000   82.00000   86.00000   89.00000

Grid box latitude edges [degrees]: 
 -90.00000  -88.00000  -84.00000  -80.00000  -76.00000  -72.00000  -68.00000
 -64.00000  -60.00000  -56.00000  -52.00000  -48.00000  -44.00000  -40.00000
 -36.00000  -32.00000  -28.00000  -24.00000  -20.00000  -16.00000  -12.00000
  -8.00000   -4.00000    0.00000    4.00000    8.00000   12.00000   16.00000
  20.00000   24.00000   28.00000   32.00000   36.00000   40.00000   44.00000
  48.00000   52.00000   56.00000   60.00000   64.00000   68.00000   72.00000
  76.00000   80.00000   84.00000   88.00000   90.00000

SIN( grid box latitude edges )
  -1.00000   -0.99939   -0.99452   -0.98481   -0.97030   -0.95106   -0.92718
  -0.89879   -0.86603   -0.82904   -0.78801   -0.74314   -0.69466   -0.64279
  -0.58779   -0.52992   -0.46947   -0.40674   -0.34202   -0.27564   -0.20791
  -0.13917   -0.06976    0.00000    0.06976    0.13917    0.20791    0.27564
   0.34202    0.40674    0.46947    0.52992    0.58779    0.64279    0.69466
   0.74314    0.78801    0.82904    0.86603    0.89879    0.92718    0.95106
   0.97030    0.98481    0.99452    0.99939    1.00000
===============================================================================
SPECIES NAMES AND INDICES

Name               ModelId  DryDepId  WetDepId  PhotolId HygGrthId  KppSpcId
-------------------------------------------------------------------------------
ACET                     1         1         -         1         -       221
ACTA                     2         2         1         -         -       219
AERI                     3         3         2         -         -         4
ALD2                     4         4         3         2         -       264
ALK4                     5         -         -         -         -       114
AONITA                   6         5         4         -         -         5
AROMP4                   7         6         5         -         -       159
AROMP5                   8         7         6         -         -       148
ATOOH                    9         8         7         3         -       196
BALD                    10         9         8         4         -       101
BCPI                    11        10         9         -         1         -
BCPO                    12        11        10         -         -         -
BENZ                    13         -         -         -         -        64
BENZP                   14        12        11         5         -       107
Br                      15         -         -         -         -       273
Br2                     16        13        12         6         -       128
BrCl                    17        14        13         7         -       135
BrNO2                   18         -         -         8         -        51
BrNO3                   19        15         -         9         -       176
BrO                     20         -         -        10         -       274
BrSALA                  21        16        14         -         -       283
BrSALC                  22        17        15         -         -       277
BUTDI                   23         -         -         -         -         6
BZCO3H                  24        18        16        11         -        70
BZPAN                   25        19        17         -         -        97
C2H2                    26         -         -         -         -        58
C2H4                    27         -         -         -         -        76
C2H6                    28         -         -         -         -       161
C3H8                    29         -         -         -         -       124
CCl4                    30         -         -        12         -        52
CFC11                   31         -         -        13         -        53
CFC113                  32         -         -        14         -        55
CFC114                  33         -         -        15         -        56
CFC115                  34         -         -        16         -        57
CFC12                   35         -         -        17         -        54
CH2Br2                  36         -         -        18         -        71
CH2Cl2                  37         -         -        19         -        72
CH2I2                   38         -         -        20         -         1
CH2IBr                  39         -         -        21         -         2
CH2ICl                  40         -         -        22         -         3
CH2O                    41        20        18        23         -       263
CH3Br                   42         -         -        24         -       100
CH3CCl3                 43         -         -        25         -        43
CH3Cl                   44         -         -        26         -       149
CH3I                    45         -         -        27         -        46
CH4                     46         -         -         -         -       190
CHBr3                   47         -         -        28         -        77
CHCl3                   48         -         -        29         -        78
Cl                      49         -         -         -         -       290
Cl2                     50        21         -        30         -       197
Cl2O2                   51         -         -        31         -        75
ClNO2                   52        22         -        32         -       235
ClNO3                   53        23         -        33         -       262
ClO                     54        24         -        34         -       285
ClOO                    55        25         -        35         -       103
CLOCK                   56         -         -         -         -         -
CO                      57         -         -         -         -       267
CSL                     58        26        19         -         -       115
DMS                     59         -         -         -         -        90
DST1                    60        27        20         -         -         -
DST2                    61        28        21         -         -         -
DST3                    62        29        22         -         -         -
DST4                    63        30        23         -         -         -
EOH                     64        31        24         -         -       133
ETHLN                   65        32        25        36         -       208
ETHN                    66        33        26         -         -        68
ETHP                    67        34        27        37         -       120
ETNO3                   68        35         -        38         -        96
ETP                     69        36        28        39         -       110
FURA                    70        37        29         -         -        41
GLYC                    71        38        30        40         -       236
GLYX                    72        39        31        41         -       223
H1211                   73         -         -        42         -        59
H1301                   74         -         -        43         -        47
H2402                   75         -         -        44         -        48
H2O                     76         -         -         -         -       278
H2O2                    77        40        32        45         -       212
HAC                     78        41        33        46         -       250
HBr                     79        42        34         -         -       289
HC5A                    80        43        35        47         -       192
HCFC123                 81         -         -        48         -        81
HCFC141b                82         -         -        49         -        82
HCFC142b                83         -         -        50         -        83
HCFC22                  84         -         -        51         -        84
HCl                     85        44        36         -         -       275
HCOOH                   86        45        37         -         -       211
HI                      87        46        38         -         -        69
HMHP                    88        47        39        52         -        85
HMML                    89        48        40         -         -       105
HMS                     90        49        41         -         -        86
HNO2                    91         -         -        53         -       193
HNO3                    92        50        42        54         -       265
HNO4                    93         -         -        55         -       102
HOBr                    94        51        43        56         -       260
HOCl                    95        52        44        57         -       271
HOI                     96        53        45        58         -       268
HONIT                   97        54        46        59         -       134
HPALD1                  98        55         -        60         -       186
HPALD2                  99        56         -        61         -       188
HPALD3                 100        57         -        62         -       129
HPALD4                 101        58         -        63         -       127
HPETHNL                102        59        47        64         -       172
I                      103         -         -         -         -       269
I2                     104        60        48        65         -       143
I2O2                   105        61        49        66         -        44
I2O3                   106        62        50        67         -        49
I2O4                   107        63        51        68         -        42
IBr                    108        64        52        69         -        73
ICHE                   109        65        53         -         -       174
ICl                    110        66        54        70         -        99
ICN                    111        67        55        71         -       240
ICPDH                  112        68        56        72         -       206
IDC                    113        69         -         -         -       109
IDCHP                  114        70        57        73         -       125
IDHDP                  115        71        58        74         -       141
IDHPE                  116        72        59        75         -       164
IDN                    117        73        60        76         -       243
IEPOXA                 118        74        61         -         -       130
IEPOXB                 119        75        62         -         -       131
IEPOXD                 120        76        63         -         -       116
IHN1                   121        77        64        77         -       220
IHN2                   122        78        65        78         -       139
IHN3                   123        79        66        79         -       140
IHN4                   124        80        67        80         -       214
INDIOL                 125        81        68         -         -         8
INO                    126         -         -        81         -        60
INPB                   127        82        69        82         -       181
INPD                   128        83        70        83         -       151
IO                     129         -         -        84         -       227
IONITA                 130        84        71         -         -        98
IONO                   131        85        72        85         -       203
IONO2                  132        86        73        86         -       270
IPRNO3                 133        87         -        87         -        87
ISALA                  134        88        74         -         -         9
ISALC                  135        89        75         -         -        10
ISOP                   136         -         -         -         -       224
ITCN                   137        90        76        88         -       213
ITHN                   138        91        77        89         -       242
LIMO                   139        92        78         -         -       170
LVOC                   140        93        79         -         -        24
LVOCOA                 141        94        80         -         -        23
MACR                   142        95         -        90         -       251
MACR1OOH               143        96        81        91         -       136
MAP                    144        97        82        92         -        88
MCRDH                  145        98        83         -         -       132
MCRENOL                146        99        84        93         -       163
MCRHN                  147       100        85        94         -       200
MCRHNB                 148       101        86        95         -       175
MCRHP                  149       102        87        96         -       231
MCT                    150       103        88         -         -       142
MEK                    151         -        89        97         -       226
MENO3                  152       104         -        98         -        89
MGLY                   153       105        90        99         -       233
MOH                    154       106        91         -         -       218
MONITA                 155       107        92         -         -        45
MONITS                 156       108        93       100         -       178
MONITU                 157       109        94       101         -       199
MP                     158         -        95       102         -       137
MPAN                   159       110        96       103         -       153
MPN                    160         -        97       104         -        74
MSA                    161       111        98         -         -        28
MTPA                   162       112        99         -         -       154
MTPO                   163       113       100         -         -       155
MVK                    164       114       101       105         -       248
MVKDH                  165       115       102         -         -       117
MVKHC                  166       116       103       106         -       169
MVKHCB                 167       117       104       107         -       185
MVKHP                  168       118       105       108         -       230
MVKN                   169       119       106       109         -       241
MVKPC                  170       120       107       110         -       156
N2O                    171         -         -       111         -        61
N2O5                   172       121         -       112         -       173
NH3                    173       122       108         -         -         -
NH4                    174       123       109         -         -         -
NIT                    175       124       110       113         -        62
NITs                   176       125       111       114         -        63
NO                     177         -         -       115         -       279
NO2                    178       126         -       116         -       291
NO3                    179         -         -       117         -       281
NPHEN                  180       127       112       118         -       210
NPRNO3                 181       128         -       119         -        91
O3                     182       129         -       120         -       282
OClO                   183         -         -       121         -       111
OCPI                   184       130       113         -         2         -
OCPO                   185       131       114         -         -         -
OCS                    186         -         -       122         -        66
OIO                    187         -         -       123         -        92
PAN                    188       132       115       124         -        67
pFe                    189       133       116         -         -         -
PHEN                   190       134       117         -         -       118
PIP                    191         -         -       125         -       119
PP                     192       135       118       126         -       112
PPN                    193       136       119         -         -        50
PROPNN                 194       137       120       127         -       198
PRPE                   195         -       121         -         -       253
PRPN                   196       138       122       128         -       113
PYAC                   197       139       123       129         -       104
R4N2                   198       140       124       130         -       202
R4P                    199       141       125       131         -        93
RA3P                   200       142       126       132         -        94
RB3P                   201       143       127       133         -        95
RCHO                   202         -         -       134         -       259
RIPA                   203       144       128       135         -       157
RIPB                   204       145       129       136         -       162
RIPC                   205       146       130       137         -       171
RIPD                   206       147       131       138         -       165
RP                     207       148       132       139         -       106
SALA                   208       149       133         -         3         -
SALAAL                 209       150       134         -         -       147
SALACL                 210       151       135         -         -       280
SALC                   211       152       136         -         4         -
SALCAL                 212       153       137         -         -       138
SALCCL                 213       154       138         -         -       287
SO2                    214       155       139         -         -       276
SO4                    215       156       140       140         5       122
SO4s                   216       157       141         -         -        29
SOAGX                  217       158       142         -         -        30
SOAIE                  218       159       143         -         -        31
SOAP                   219         -         -         -         -         -
SOAS                   220       160       144         -         -         -
TOLU                   221         -         -         -         -        79
XYLE                   222         -         -         -         -        80
CO2                    223         -         -         -         -         7
LBRO2H                 224         -         -         -         -        11
LBRO2N                 225         -         -         -         -        12
BRO2                   226         -         -         -         -        13
LISOPOH                227         -         -         -         -        14
LISOPNO3               228         -         -         -         -        15
LNRO2H                 229         -         -         -         -        16
LNRO2N                 230         -         -         -         -        17
NRO2                   231         -         -         -         -        18
NAP                    232         -         -         -         -        19
LTRO2H                 233         -         -         -         -        20
LTRO2N                 234         -         -         -         -        21
TRO2                   235         -         -         -         -        22
LXRO2H                 236         -         -         -         -        25
LXRO2N                 237         -         -         -         -        26
XRO2                   238         -         -         -         -        27
PH2SO4                 239         -         -         -         -        32
PSO4AQ                 240         -         -         -         -        33
POx                    241         -         -         -         -        34
LOx                    242         -         -         -         -        35
PCO                    243         -         -         -         -        36
LCO                    244         -         -         -         -        37
PSO4                   245         -         -         -         -        38
LCH4                   246         -         -         -         -        39
PH2O2                  247         -         -         -         -        40
N                      248         -         -         -         -        65
ETO                    249         -         -         -         -       108
HPALD1OO               250         -         -         -         -       121
HPALD2OO               251         -         -         -         -       123
INA                    252         -         -         -         -       126
C4HVP1                 253         -         -         -         -       144
C4HVP2                 254         -         -         -         -       145
IDNOO                  255         -         -         -         -       146
ICNOO                  256         -         -         -         -       150
ISOPNOO2               257         -         -         -         -       152
ROH                    258         -         -         -         -       158
BENZO                  259         -         -         -         -       160
IDHNDOO1               260         -         -         -         -       166
ISOPNOO1               261         -         -         -         -       167
IDHNDOO2               262         -         -         -         -       168
H                      263         -         -         -         -       177
ETOO                   264         -         -         -         -       179
BZCO3                  265         -         -         -         -       180
IHPOO1                 266         -         -         -         -       182
IHPOO2                 267         -         -         -         -       183
AROMRO2                268         -         -         -         -       184
IHPOO3                 269         -         -         -         -       187
IHPNDOO                270         -         -         -         -       189
BENZO2                 271         -         -         -         -       191
ICHOO                  272         -         -         -         -       194
CH3CHOO                273         -         -         -         -       195
PRN1                   274         -         -         -         -       201
MVKOHOO                275         -         -         -         -       204
MCROHOO                276         -         -         -         -       205
MACR1OO                277         -         -         -         -       207
PO2                    278         -         -         -         -       209
OLNN                   279         -         -         -         -       215
OLND                   280         -         -         -         -       216
ETO2                   281         -         -         -         -       217
IHPNBOO                282         -         -         -         -       222
LIMO2                  283         -         -         -         -       225
IEPOXAOO               284         -         -         -         -       228
IEPOXBOO               285         -         -         -         -       229
IDHNBOO                286         -         -         -         -       232
CH2OO                  287         -         -         -         -       234
A3O2                   288         -         -         -         -       237
PIO2                   289         -         -         -         -       238
OTHRO2                 290         -         -         -         -       239
IHOO4                  291         -         -         -         -       244
IHOO1                  292         -         -         -         -       245
INO2D                  293         -         -         -         -       246
INO2B                  294         -         -         -         -       247
MACRNO2                295         -         -         -         -       249
ATO2                   296         -         -         -         -       252
KO2                    297         -         -         -         -       254
RCO3                   298         -         -         -         -       255
R4O2                   299         -         -         -         -       256
R4N1                   300         -         -         -         -       257
B3O2                   301         -         -         -         -       258
MCO3                   302         -         -         -         -       261
MO2                    303         -         -         -         -       266
O1D                    304         -         -         -         -       272
HO2                    305         -         -         -         -       284
OH                     306         -         -         -         -       286
O                      307         -         -         -         -       288
H2                     308         -         -         -         -       292
N2                     309         -         -         -         -       293
O2                     310         -         -       141         -       294
RCOOH                  311         -         -         -         -       295
===============================================================================
===============================================================================
V E R T I C A L   G R I D   S E T U P

INIT_PRESSURE: Vertical coordinates!

Ap 
   0.000000    0.048048    6.593752   13.134800   19.613110   26.092010
  32.570810   38.982010   45.339010   51.696110   58.053210   64.362640
  70.621980   78.834220   89.099920   99.365210  109.181700  118.958600
 128.695900  142.910000  156.260000  169.609000  181.619000  193.097000
 203.259000  212.150000  218.776000  223.898000  224.363000  216.865000
 201.192000  176.930000  150.393000  127.837000  108.663000   92.365720
  78.512310   66.603410   56.387910   47.643910   40.175410   33.810010
  28.367810   23.730410   19.791600   16.457100   13.643400   11.276900
   9.292942    7.619842    6.216801    5.046801    4.076571    3.276431
   2.620211    2.084970    1.650790    1.300510    1.019440    0.795134
   0.616779    0.475806    0.365041    0.278526    0.211349    0.159495
   0.119703    0.089345    0.066000    0.047585    0.032700    0.020000
   0.010000

Bp 
   1.000000    0.984952    0.963406    0.941865    0.920387    0.898908
   0.877429    0.856018    0.834661    0.813304    0.791947    0.770637
   0.749378    0.721166    0.685900    0.650635    0.615818    0.581041
   0.546304    0.494590    0.443740    0.392891    0.343381    0.294403
   0.246741    0.200350    0.156224    0.113602    0.063720    0.028010
   0.006960    0.000000    0.000000    0.000000    0.000000    0.000000
   0.000000    0.000000    0.000000    0.000000    0.000000    0.000000
   0.000000    0.000000    0.000000    0.000000    0.000000    0.000000
   0.000000    0.000000    0.000000    0.000000    0.000000    0.000000
   0.000000    0.000000    0.000000    0.000000    0.000000    0.000000
   0.000000    0.000000    0.000000    0.000000    0.000000    0.000000
   0.000000    0.000000    0.000000    0.000000    0.000000    0.000000
   0.000000
===============================================================================
READ_DRYDEP_INPUTS: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData/CHEM_INPUTS/Olson_Land_Map_201203/Olson_2001_Drydep_Inputs.nc

LINOZ (LINOZ_READ): Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData/CHEM_INPUTS/Linoz_200910/Linoz_March2007.dat
HISTORY (INIT): Opening ./HISTORY.rc

===============================================================================
DEFINED DIAGNOSTIC COLLECTIONS:
===============================================================================
 Collection        Restart
   -> FileName     ./Restarts/GEOSChem.Restart.%y4%m2%d2_%h2%n2z.nc4
   -> Frequency    00000100000000
   -> Duration     00000100000000
   -> Mode         instantaneous
 Collection        Metrics
   -> FileName     OutputDir/GEOSChem.Metrics.%y4%m2%d2_%h2%n2z.nc4
   -> Frequency    End
   -> Duration     End
   -> Mode         time-averaged
 Collection        SpeciesConc
   -> FileName     OutputDir/GEOSChem.SpeciesConc.%y4%m2%d2_%h2%n2z.nc4
   -> Frequency    00000100000000
   -> Duration     00000100000000
   -> Mode         time-averaged
===============================================================================

%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%%%%%               HEMCO: Harmonized Emissions Component                 %%%%%
%%%%%               You are using HEMCO version 3.9.2                     %%%%%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

Reading settings & switches of HEMCO configuration file: HEMCO_Config.rc

HEMCO verbose output is OFF

Reading fields of HEMCO configuration file: HEMCO_Config.rc

Reading entire HEMCO configuration file: HEMCO_Config.rc.gmao_metfields
Using HEMCO extension: ParaNOx (ship emission plumes)
HEMCO (PARANOX): Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/PARANOX/v2015-02/ship_plume_lut_02ms.nc
HEMCO (PARANOX): Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/PARANOX/v2015-02/ship_plume_lut_06ms.nc
HEMCO (PARANOX): Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/PARANOX/v2015-02/ship_plume_lut_10ms.nc
HEMCO (PARANOX): Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/PARANOX/v2015-02/ship_plume_lut_14ms.nc
HEMCO (PARANOX): Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/PARANOX/v2015-02/ship_plume_lut_18ms.nc
HEMCO (LIGHTNOX): Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/LIGHTNOX/v2014-07/light_dist.ott2010.dat
Using HEMCO extension: LightNOx (lightning NOx emissions
Using HEMCO extension: Volcano (volcanic SO2 emissions)
Using HEMCO extension: SeaFlux (air-sea flux emissions)
Using HEMCO extension: GFED (biomass burning)
Using HEMCO extension: Inorg_Iodine (HOI and I2 emissions)
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/XIAO/v2014-09/C3H8_C2H6_ngas.geos.1x1.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/BIOFUEL/v2019-08/biofuel.geos.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/BROMINE/v2015-02/Bromocarb_Liang2010.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/ACET/v2014-07/ACET_seawater.generic.1x1.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/MOH/v2019-12/MOH_seawater.low.kgCm3.generic.1x1.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//GEOS_4x5/MERRA2/2015/01/MERRA2.20150101.CN.4x5.nc4
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/OLSON_MAP/v2019-02/Olson_2001_Land_Type_Masks.025x025.generic.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/SfcFix/v2019-12/surface_VMR_OCS.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/SfcFix/v2019-12/surface_VMR_H2.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/OCEAN_O3_DRYDEP/v2020-02/WOA_2013_salinity.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/AnnualScalar/v2014-07/AnnualScalar.geos.1x1.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/EDGARv42/v2015-02/NO/EDGAR_hourly_NOxScal.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/VerticalScaleFactors/v2021-05/gc_layers.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/MASKS/v2018-09/China_mask.generic.1x1.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/MASKS/v2019-05/India_mask.generic.1x1.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/AnnualScalar/v2014-07/AnnualScalar.geos.1x1.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/NO-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/CO-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/SO2-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/NH3-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/BC-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/OC-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/EOH-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/ALK4_butanes-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/ALK4_pentanes-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/ALK4_hexanes-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/C2H4-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/PRPE-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/C2H2-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/BENZ-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/TOLU-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/XYLE-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/CH2O-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/ALD2-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/MEK-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/HCOOH-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/NH3/v2019-08/NH3_geos.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/NH3/v2018-04/NH3_Arctic_seabirds.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/C2H6_2010/v2019-06/C2H6_global_anth_biof.201008.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/IODINE/v2020-02/CH3I_monthly_emissions_Ordonez_2012_COARDS.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/IODINE/v2020-02/CH2I2_monthly_emissions_Ordonez_2012_COARDS.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/IODINE/v2020-02/CH2ICl_monthly_emissions_Ordonez_2012_COARDS.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/IODINE/v2020-02/CH2IBr_monthly_emissions_Ordonez_2012_COARDS.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GT_Chlorine/v2024-05/GT_Chlorine_01_01_2014_V1.0.0.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/CO-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/SO2-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/NH3-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/BC-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/OC-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/EOH-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/C2H6-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/C3H8-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/ALK4_butanes-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/ALK4_pentanes-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/ALK4_hexanes-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/C2H4-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/PRPE-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/C2H2-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/BENZ-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/TOLU-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/XYLE-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/CH2O-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/ALD2-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/MEK-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/HCOOH-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CEDS/v2021-06/2017/NO-em-anthro_CMIP_CEDS_2017.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/AEIC2019/v2022-03/2019_monmean/AEIC_monmean_201908.0.5x0.625.36L.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/ALD2/v2017-03/resp.geos.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/AFCID/v2018-04/PM25FINE_ECLIPSE_2015.geos.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/AFCID/v2018-04/PM25FINE_MEIC_2012.generic.025x025.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/AFCID/v2018-04/PM25FINE_IITB_2013.generic.025x025.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/DMS/v2015-07/DMS_lana.geos.1x1.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/ALD2/v2017-03/ALD2_seawater.geos.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/RONO2/v2019-05/RONO2_seawater.geos.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GFED4/v2023-03/2017/GFED4_gen.025x025.201701.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/TIMEZONES/v2024-02/timezones_vohra_2017_0.1x0.1.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/UVALBEDO/v2019-06/uvalbedo.geos.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/STRAT/v2015-01/Bry/GEOSCCM_Bry.200708.day.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/STRAT/v2015-01/Bry/GEOSCCM_Bry.200708.night.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.OH.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.ACET.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.ACTA.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.ALD2.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.ALK4.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.C2H6.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.C3H8.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.CCl4.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.CF2Cl2.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.CF2ClBr.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.CFC113.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.CFC114.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.CFC115.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.CFCl3.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.CH2O.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.CH3CCl3.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.CH3Cl.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.CH4.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.CO.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.Cl.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.Cl2.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.Cl2O2.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.ClO.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.EOH.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.ETP.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.GLYC.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.GLYX.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.H2402.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.H2O.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.H2O2.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.HAC.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.HCFC141b.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.HCFC142b.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.HCFC22.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.HCOOH.geos5.2x25.20170108.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.HCl.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.HNO2.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.HNO3.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.HNO4.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.HOCl.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.ISOP.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.MACR.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.MAP.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.MEK.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.MGLY.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.MOH.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.MP.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.MVK.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.N2O.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.N2O5.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.NO.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.NO2.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.NO3.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.O3.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.OClO.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.PAN.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.PP.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.PPN.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.PRPE.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.PRPN.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.R4N2.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.R4P.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.RA3P.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.RB3P.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.RCHO.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.RIPA.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.RIPB.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.RIPD.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/GMI/v2015-02/gmi.clim.RP.geos5.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/NOAA_GMD/v2023-10/monthly.gridded.surface.methane.1975-2022.1x1.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/CMIP6/v2020-03/2x2.5/CMIP6_GHG_surface_VMR_2014.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/SfcFix/v2019-12/WMO_2018/2x2.5/surface_VMRs_WMO2018_2017.2x25.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/OCEAN_O3_DRYDEP/v2020-02/Oi_prj_predicted_iodide_0.125x0.125_No_Skagerrak_Just_Ensemble.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/BROMINE/v2015-02/BromoCarb_Season.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/OFFLINE_DUST/v2021-08/0.5x0.625/2017/01/dust_emissions_05.20170101.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/OFFLINE_BIOVOC/v2021-12/0.5x0.625/2017/01/biovoc_05.20170101.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/OFFLINE_SEASALT/v2019-01/0.5x0.625/2017/01/seasalt_05.20170101.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//HEMCO/OFFLINE_SOILNOX/v2021-12/0.5x0.625/2017/01/soilnox_05.20170101.nc
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//GEOS_4x5/MERRA2/2017/01/MERRA2.20170101.A1.4x5.nc4
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//GEOS_4x5/MERRA2/2017/01/MERRA2.20170101.A3cld.4x5.nc4
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//GEOS_4x5/MERRA2/2017/01/MERRA2.20170101.A3dyn.4x5.nc4
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//GEOS_4x5/MERRA2/2017/01/MERRA2.20170101.A3mstC.4x5.nc4
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//GEOS_4x5/MERRA2/2017/01/MERRA2.20170101.A3mstE.4x5.nc4
HEMCO: Opening /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//GEOS_4x5/MERRA2/2017/01/MERRA2.20170101.I3.4x5.nc4

HEMCO ERROR: Cannot find field with valid time stamp in /home/naaima.benkadour/lustre/aq_model-z5xz2cq4sae/shared/ExtData//GEOS_4x5/MERRA2/2017/01/MERRA2.20170101.I3.4x5.nc4 - Cannot get field PS_NEXTDAY. Please check file name and time (incl. time range flag) in the config. file

HEMCO ERROR: Error encountered in routine HCOIO_Read!

HEMCO ERROR: Error in HCOIO_DATAREAD called from HEMCO ReadList_Fill: PS_NEXTDAY
 --> LOCATION: ReadList_Fill (HCO_ReadList_Mod.F90)

HEMCO ERROR: Error in ReadList_Fill (4) called from HEMCO ReadList_Read
 --> LOCATION: ReadList_Read (HCO_ReadList_Mod.F90)
 Error in ReadList_Read called from hco_run
===============================================================================
GEOS-Chem ERROR: Error encountered in "HCO_Run"!
 -> at HCOI_GC_Run (in module GeosCore/hco_interface_gc_mod.F90)

THIS ERROR ORIGINATED IN HEMCO!  Please check the HEMCO log file for 
additional error messages!
===============================================================================

Program received signal SIGSEGV: Segmentation fault - invalid memory reference.

Backtrace for this error:
#0  0x14895d55e5af in ???
#1  0x14895e0c90ad in sflush
    at ../../../libgfortran/io/unix.h:89
#2  0x5700f3 in __hco_interface_gc_mod_MOD_hcoi_gc_run
    at /home/naaima.benkadour/gc_4x5_merra2_fullchem/CodeDir/src/GEOS-Chem/GeosCore/hco_interface_gc_mod.F90:1005
#3  0x4d0cfb in __emissions_mod_MOD_emissions_run
    at /home/naaima.benkadour/gc_4x5_merra2_fullchem/CodeDir/src/GEOS-Chem/GeosCore/emissions_mod.F90:184
#4  0x4074e9 in geos_chem
    at /home/naaima.benkadour/gc_4x5_merra2_fullchem/CodeDir/src/GEOS-Chem/Interfaces/GCClassic/main.F90:667
#5  0x40ca8a in main
    at /home/naaima.benkadour/gc_4x5_merra2_fullchem/CodeDir/src/GEOS-Chem/Interfaces/GCClassic/main.F90:32
lizziel commented 3 weeks ago

I have run into this issue if the met data for the next day is not found. Are you sure you have data files for January 2nd? I also run into this issue if starting a GC-Classic simulation at an hour other than midnight, but it looks like that is not the case for your run.

Naaimaben commented 3 weeks ago

Thanks @lizziel for your comment. Indeed, the data of the following days was missing.