Changeset 7695

Timestamp:

2017-02-17T16:54:43+01:00 (8 years ago)

Author:

flavoni

Message:

update README for DOMAINcfg tool

Location:

branches/2016/dev_merge_2016/NEMOGCM/TOOLS/DOMAINcfg

Files:

• README (modified) (4 diffs)
• namelist_cfg (modified) (1 diff)
• namelist_ref (modified) (3 diffs)

branches/2016/dev_merge_2016/NEMOGCM/TOOLS/DOMAINcfg/README

@@ -13 +13 @@
 = HOW TO RUN
 ================================
-just run :
+and just run according your architecture :
 :::::::::::::::::::::::::::::::::::::::::::::::::
-./make_domain_cfg.exe
+run in mpi mode with just 1 proc; example for IBM
+poe ./make_domain_cfg.exe -proc 1
 :::::::::::::::::::::::::::::::::::::::::::::::::
 NOTA: it can be run in multiproc mode, but in output there will be domain_cfg_00xx.nc files
@@ -28 +29 @@
    DOMAINcfg tool is working with revision 703 of xios)
 
-1) copy in DOMAINcfg  directory namelist_cfg all settings (that you had in 3.6_stable) of the configuration for which you want prepare domain_cfg.nc file
-IMPORTANT : keep the namelist_ref committed inchanged. 
+ VERY IMPORTANT : keep the namelist_ref committed inchanged!!!
+1) in DOMAINcfg directory: 
+   
+   - open namelist_cfg 
+   - copy "namcfg" block from your 3.6_stable namelist 
+   - copy "domzgr" block (and namzgr_sco block if ln_sco = .true.) from your 3.6_stable namelist
+   - copy "namdom" block from your 3.6_stable namelist
+   - copy ln_e3_dep from namelist_ref into namelist_cfg in "namcfg" block and set the value you want :
 
-NEW OPTION ln_e3_dep in the namelist_ref:
-till nemo_v3.6_stable e3 were done like an analytical derivative of depth function
-now  e3=dk[depth] in discret sens
-
-If you want to create same e3[tuvw] like 3.6 you've to use "ln_e3_dep=.false."
-
- ln_e3_dep   = .true.    ! =T : e3=dk[depth] in discret sens.
+   ln_e3_dep   = .true.    ! =T : e3=dk[depth] in discret sens.
    !                       !      ===>>> will become the only possibility in v4.0
    !                       ! =F : e3 analytical derivative of depth function
@@ -43 +44 @@
    !
 
-2) copy in DOMAINcfg directory same input files (of related configuration) required in v3.6_stable.
+Use ln_e3_dep=.false. : To create same e3[tuvw] like 3.6 (e3 were done like an analytical derivative of depth function)
+
+Use ln_e3_dep=.true.  : To create e3=dk[depth] in discret sens
+
+3) copy in DOMAINcfg directory same input files (of related configuration) required in v3.6_stable.
 
 DOMAINcfg package is EXACTLY what does exist in NEMO version 3.6 to define a model domain (both domain related namelist and initialization).
@@ -72 +77 @@
             field_def.xml
             iodef.xml
+
+4) verify that bathymetry created here (variable "bottom_level" in domain_cfg.nc) and your old bathymetry (variable "mbathy" in mesh_mask.nc) are the same if ln_e3_dep=F: 
+ncks -v bottom_level domain_cfg.nc new.nc
+ncks -v mbathy mesh_mask.nc old.nc
+ncrename -v mbathy,bottom_level old.nc
+ncdiff new.nc old.nc test_diff.nc
+
+Nota bene: if ln_e3_dep=T is used, it is ok to have few differences as long as it does not affect the boundaries (in a closed domain)
+

branches/2016/dev_merge_2016/NEMOGCM/TOOLS/DOMAINcfg/namelist_cfg

@@ -116 +116 @@
 &nameos        !   ocean physical parameters
 !-----------------------------------------------------------------------
-   ln_teos10    = .true.         !  = Use TEOS-10 equation of state
-/
 !-----------------------------------------------------------------------
 &namtra_adv    !   advection scheme for tracer

branches/2016/dev_merge_2016/NEMOGCM/TOOLS/DOMAINcfg/namelist_ref

@@ -27 +27 @@
 !-----------------------------------------------------------------------
    nn_no       =       0   !  job number (no more used...)
-   cn_exp      =  "ORCA2"  !  experience name
+   cn_exp      =  "tools-dom"  !  experience name
    nn_it000    =       1   !  first time step
-   nn_itend    =    5475   !  last  time step (std 5475)
+   nn_itend    =       1   !  last  time step (std 5475)
    nn_date0    =  010101   !  date at nit_0000 (format yyyymmdd) used if ln_rstart=F or (ln_rstart=T and nn_rstctl=0 or 1)
    nn_time0    =       0   !  initial time of day in hhmm
@@ -46 +46 @@
    nn_istate   =       0   !  output the initial state (1) or not (0)
    ln_rst_list = .false.   !  output restarts at list of times using nn_stocklist (T) or at set frequency with nn_stock (F)
-   nn_stock    =    5475   !  frequency of creation of a restart file (modulo referenced to 1)
+   nn_stock    =       1   !  frequency of creation of a restart file (modulo referenced to 1)
    nn_stocklist = 0,0,0,0,0,0,0,0,0,0 ! List of timesteps when a restart file is to be written
-   nn_write    =    5475   !  frequency of write in the output file   (modulo referenced to nn_it000)
+   nn_write    =       1   !  frequency of write in the output file   (modulo referenced to nn_it000)
    ln_mskland  = .false.   !  mask land points in NetCDF outputs (costly: + ~15%)
    ln_cfmeta   = .false.   !  output additional data to netCDF files required for compliance with the CF metadata standard
@@ -758 +758 @@
 &nameos        !   ocean physical parameters
 !-----------------------------------------------------------------------
-   ln_teos10   = .false.         !  = Use TEOS-10 equation of state
+   ln_teos10   = .true.          !  = Use TEOS-10 equation of state
    ln_eos80    = .false.         !  = Use EOS80 equation of state
    ln_seos     = .false.         !  = Use simplified equation of state (S-EOS)