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Changeset 3744 for branches/2012/dev_MERGE_2012 – NEMO

Ignore:
Timestamp:
2013-01-12T13:59:49+01:00 (11 years ago)
Author:
vichi
Message:

Update of the GYRE_BFM configuration

The BFM namelists have been removed because they are part of
the BFM tree and can be taken from there.
An updated version of the README has been incuded.

Location:
branches/2012/dev_MERGE_2012/NEMOGCM/CONFIG/GYRE_BFM
Files:
12 deleted
3 edited

Legend:

Unmodified
Added
Removed

  • branches/2012/dev_MERGE_2012/NEMOGCM/CONFIG/GYRE_BFM/EXP00/namelist

    r3399 r3744  
    2525!----------------------------------------------------------------------- 
    2626   nn_no       =       0   !  job number 
    27    cn_exp      =  "GYRE"   !  experience name  
     27   cn_exp      = "GYRE_BFM"!  experience name  
    2828   nn_it000    =       1   !  first time step 
    29    nn_itend    =    12   !  last  time step 
     29   nn_itend    =    4320   !  last  time step 
    3030   nn_date0    =  010101   !  initial calendar date yymmdd (used if nn_rstctl=1) 
    3131   nn_leapy    =      30   !  Leap year calendar (1) or not (0) 
    … …  
    3838   nn_istate   =       0   !  output the initial state (1) or not (0) 
    3939   nn_stock    =    4320   !  frequency of creation of a restart file (modulo referenced to 1) 
    40    nn_write    =      12   !  frequency of write in the output file   (modulo referenced to nn_it000) 
     40   nn_write    =     120   !  frequency of write in the output file   (modulo referenced to nn_it000) 
    4141   ln_dimgnnn  = .false.   !  DIMG file format: 1 file for all processors (F) or by processor (T) 
    4242   ln_mskland  = .false.   !  mask land points in NetCDF outputs (costly: + ~15%) 
    … …  
    252252   ln_qsr_rgb  = .false.   !  RGB (Red-Green-Blue) light penetration 
    253253   ln_qsr_2bd  = .true.    !  2 bands              light penetration 
    254    ln_qsr_bio  = .false.   !  bio-model light penetration 
     254   ln_qsr_bio  = .true.   !  bio-model light penetration 
    255255   nn_chldta   =      0    !  RGB : Chl data (=1) or cst value (=0) 
    256256   rn_abs      =   0.58    !  RGB & 2 bands: fraction of light (rn_si1) 

  • branches/2012/dev_MERGE_2012/NEMOGCM/CONFIG/GYRE_BFM/EXP00/namelist_top

    r3718 r3744  
    1111!,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,, 
    1212   nn_dttrc      =  1        !  time step frequency for passive sn_tracers       
    13    nn_writetrc   =  360     !  time step frequency for sn_tracer outputs 
    14    ln_top_euler  = .true.   !  use Euler timestepping at first step (T) or not (F) 
     13   nn_writetrc   =  0        !  time step frequency for sn_tracer outputs 
     14   ln_top_euler  = .true.    !  use Euler timestepping for TOP 
    1515   ln_rsttr      = .false.   !  start from a restart file (T) or not (F) 
    1616   nn_rsttr      =   0       !  restart control = 0 initial time step is not compared to the restart file value 
    … …  
    6767 
    6868!----------------------------------------------------------------------- 
    69 &namtrc_dta 
     69&namtrc_dta    ! initial conditions 
    7070!----------------------------------------------------------------------- 
    71 !              ! file name                ! frequency (hr) ! variable ! time interp. ! clim    !'yearly' or ! weights  ! rotation 
    72 !              !                          !  (if <0 mon)   !   name   !  (logical)   ! (T/F)   ! 'monthly'  ! filename ! pairing 
    73    sn_trcdta(1)  = 'data_O2_nomask'       ,        -1      ,  'O2'      ,    .true.  , .true.  , 'yearly'   , ''       , '' 
    74    sn_trcdta(2)  = 'data_PO4_nomask'      ,        -1      ,  'PO4'     ,    .true.  , .true.  , 'yearly'   , ''       , '' 
    75    sn_trcdta(3)  = 'data_NO3_nomask'      ,        -1      ,  'NO3'     ,    .true.  , .true.  , 'yearly'   , ''       , '' 
    76    sn_trcdta(6)  = 'data_Si_nomask'       ,        -1      ,  'Si'      ,    .true.  , .true.  , 'yearly'   , ''       , '' 
    77    sn_trcdta(43) = 'data_DOC_nomask'      ,        -12     ,  'DOC'     ,    .false. , .true.  , 'yearly'   , ''       , '' 
    78    sn_trcdta(49) = 'data_DIC_nomask'      ,        -12     ,  'DIC'     ,    .false. , .true.  , 'yearly'   , ''       , '' 
    79    sn_trcdta(50) = 'data_Alkalini_nomask' ,        -12     ,  'Alkalini',    .false. , .true.  , 'yearly'   , ''       , '' 
    80    ! 
    81    cn_dir       = './'     !  root directory for the location of the input files 
    8271/ 
    8372 
    8473!----------------------------------------------------------------------- 
    85 &namtrc_bc 
     74&namtrc_bc     ! boundary conditions 
    8675!----------------------------------------------------------------------- 
    87 !              ! file name                ! frequency (hr) ! variable ! time interp. ! clim    !'yearly' or ! weights  ! rotation 
    88 !              !                          !  (if <0 mon)   !   name   !  (logical)   ! (T/F)   ! 'monthly'  ! filename ! pairing 
    89    sn_trcsbc(3)  = 'ndeposition.orca.nc'  ,        -12     ,  ''      ,    .true.  , .true.  , 'yearly'   , ''       , '' 
    90    ! 
    91    cn_dir       = './'     !  root directory for the location of the boundary condition files 
    9276/ 
     77 
    9378!----------------------------------------------------------------------- 
    9479&namtrc_trd       !   diagnostics on tracer trends        ('key_trdtrc') 
    … …  
    9681!---------------------------------------------------------------------- 
    9782/ 
     83 
    9884!----------------------------------------------------------------------- 
    9985&namtrc_dia       !   parameters for passive tracer additional diagnostics 

  • branches/2012/dev_MERGE_2012/NEMOGCM/CONFIG/GYRE_BFM/README

    r3399 r3744  
    1 To compile with the BFM: 
    2 export BFMDIR=path/to/bfm 
    3 cd .. 
    4 ./makenemo -n GYRE_BFM -m ARCHFILE -e $BFMDIR/src/nemo -j 8 
     1----------------------------------------------------------------------- 
     2Coupling with the Biogeochemical Flux Model (BFM) 
     3----------------------------------------------------------------------- 
     4Author: M. Vichi, BFM system team and NEMO system team 
     5INFO HELPDESK: info@bfm-community.eu 
     6WEB SITE: www.bfm-community.eu 
     7REVISION DATE: January 2013 
     8 
     9Please address any technical query to the BFM System Team  
     10bfm_st@lists.cmcc.it 
     11----------------------------------------------------------------------- 
     12 
     13----------------------------------------------------------------------- 
     14What is the BFM? 
     15----------------------------------------------------------------------- 
     16The Biogeochemical Flux Model (BFM) is a numerical model for the  
     17simulation of the dynamics of major biogeochemical properties  
     18in marine ecosystems.  The BFM is open source software freely available  
     19under the GNU Public License. The model can be used in standalone mode  
     20to simulate a 0-D system or coupled with other OGCM. 
     21The coupling with NEMO is maintained by CMCC as part of the  
     22NEMO system team activity 
     23 
     24----------------------------------------------------------------------- 
     25How to get the BFM code 
     26----------------------------------------------------------------------- 
     27The code can be downloaded from http://www.bfm-community.eu after 
     28the registration of a new user. Follow the instructions on how to  
     29install the code. It is recommended to run the STANDALONE test cases  
     30before using the NEMO-BFM coupled system. 
     31 
     32----------------------------------------------------------------------- 
     33Compile NEMO with the BFM  
     34----------------------------------------------------------------------- 
     35Make sure that the BFMDIR variable is defined in your environment 
     36(ex: export BFMDIR=path/to/bfm) 
     37Define the variable NEMODIR pointing to the root of NEMO source code 
     38(ex: export NEMODIR=path/to/nemo) 
     39 
     40Go to the $BFMDIR/build directory and modify the script 
     41config_GYRE_BFM.sh 
     42adding the appropriate ARCHFILE that is used for the NEMO compilation. 
     43The script will generate the BFM code and then launch makenemo 
     44to build the executable in this directory. 
     45 
     46Once the BFM code has been generated the first time, the code can be  
     47rebuilt with the following command: 
     48./makenemo -n GYRE_BFM -m ARCHFILE -e $BFMDIR/src/nemo  
     49 
     50----------------------------------------------------------------------- 
     51Standard test case 
     52----------------------------------------------------------------------- 
     53The distributed standard test case is GYRE_BFM, a version of GYRE 
     54with a full-blown BFM. It is a demnstration simulation and it is not 
     55meant to produce any published result. The namelistsfor the BFM are  
     56not distributed with NEMO but are found in the BFM tree, in 
     57directory $BFMDIR/run/nemo/GYRE_BFM. The user can either copy the content 
     58of $NEMODIR/NEMOGCM/CONFIG/GYRE_BFM/EXP00 in this directory or the 
     59other way around. GYRE_BFM runs with analytical input data only. 
     60 
     61----------------------------------------------------------------------- 
     62Other examples 
     63----------------------------------------------------------------------- 
     64Other couplings with NEMO are available in $BFMDIR/run/nemo/. 
     65Please refer to the README file in each directory for more information. 
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