Changeset 10363


Ignore:
Timestamp:
2018-11-30T16:39:29+01:00 (22 months ago)
Author:
aumont
Message:

Various bug fixes and improvements

Location:
NEMO/trunk/cfgs/SHARED
Files:
2 edited

Legend:

Unmodified
Added
Removed
  • NEMO/trunk/cfgs/SHARED/field_def_nemo-pisces.xml

    r10226 r10363  
    240240       <field id="Irondep"     long_name="Iron deposition from dust"               unit="mol/m2/s"                        /> 
    241241       <field id="Ironsed"     long_name="Iron deposition from sediment"           unit="mol/m2/s"   grid_ref="grid_T_3D" /> 
     242      <field id="FESCAV"      long_name="Scavenging of Iron"                      unit="mmol-Fe/m3/s"   grid_ref="grid_T_3D" /> 
     243       <field id="FECOLL"      long_name="Colloidal Pumping of FeL"                unit="mmol-FeL/m3/s"  grid_ref="grid_T_3D" /> 
     244       <field id="LGWCOLL"     long_name="Coagulation loss of ligands"             unit="mmol-L/m3/s"  grid_ref="grid_T_3D" /> 
     245       <field id="REMINF"      long_name="Oxic remineralization suppy of Fe"       unit="mmol-Fe/m3/s"  grid_ref="grid_T_3D" /> 
     246       <field id="BACT"        long_name="Bacterial Biomass"                       unit="mmol/m3"  grid_ref="grid_T_3D" /> 
     247       <field id="FEBACT"      long_name="Bacterial uptake of Fe"                  unit="molFe/m3/s"  grid_ref="grid_T_3D" /> 
     248       <field id="LPRODR"      long_name="OM remineralisation ligand production rate" unit="nmol-L/m3/s"  grid_ref="grid_T_3D" /> 
     249       <field id="LPRODP"      long_name="phytoplankton ligand production rate"    unit="nmol-L/m3/s"  grid_ref="grid_T_3D" /> 
     250       <field id="LIGREM"      long_name="Remineralisation loss of ligands"        unit="nmol-L/m3/s"  grid_ref="grid_T_3D" /> 
     251       <field id="LIGPR"       long_name="Photochemical loss of ligands"           unit="nmol-L/m3/s"  grid_ref="grid_T_3D" /> 
     252       <field id="LDETP"       long_name="Ligand destruction during phytoplankton uptake" unit="nmol-L/m3/s"  grid_ref="grid_T_3D" /> 
     253       <field id="LPRODZ2"     long_name="mesozooplankton ligand production rate"  unit="nmol-L/m3/s"  grid_ref="grid_T_3D" /> 
     254       <field id="LPRODZ"      long_name="microzooplankton ligand production rate" unit="nmol-L/m3/s"  grid_ref="grid_T_3D" /> 
     255       <field id="FEZOO"       long_name="microzooplankton iron recycling rate"    unit="nmol-FeL/m3/s"  grid_ref="grid_T_3D" /> 
     256       <field id="FEZOO2"      long_name="mesozooplankton iron recycling rate"     unit="nmol-FeL/m3/s"  grid_ref="grid_T_3D" /> 
    242257 
    243258       <!-- dbio_T on T grid : variables available with diaar5 --> 
  • NEMO/trunk/cfgs/SHARED/namelist_pisces_ref

    r10227 r10363  
    5555!                         !  ln_ligand enabled 
    5656   wfep       =  0.2      ! FeP sinking speed  
    57    ldocp      =  1.E-5    ! Phyto ligand production per unit doc  
    58    ldocz      =  1.E-5    ! Zoo ligand production per unit doc  
     57   ldocp      =  1.E-4    ! Phyto ligand production per unit doc  
     58   ldocz      =  1.E-4    ! Zoo ligand production per unit doc  
    5959   lthet      =  0.5      ! Proportional loss of ligands due to Fe uptake  
    6060!                         !  ln_p5z enabled 
     
    210210   resrat2    =  0.005    ! exsudation rate of mesozooplankton 
    211211   mzrat2     =  0.03     ! mesozooplankton mortality rate 
    212    xprefc     =  1.       ! mesozoo preference for diatoms 
    213    xprefp     =  0.3      ! mesozoo preference for nanophyto. 
    214    xprefz     =  1.       ! mesozoo preference for microzoo. 
    215    xprefpoc   =  0.3      ! mesozoo preference for poc 
     212   xpref2d    =  1.       ! mesozoo preference for diatoms 
     213   xpref2n    =  0.3      ! mesozoo preference for nanophyto. 
     214   xpref2z    =  1.       ! mesozoo preference for microzoo. 
     215   xpref2c    =  0.3      ! mesozoo preference for poc 
    216216   xthresh2zoo = 1E-8     ! zoo feeding threshold for mesozooplankton  
    217217   xthresh2dia = 1E-8     ! diatoms feeding threshold for mesozooplankton  
     
    221221   xkgraz2    =  20.E-6   ! half saturation constant for meso grazing 
    222222   epsher2    =  0.35     ! Efficicency of Mesozoo growth 
     223   epsher2min =  0.35     ! Minimum efficiency of mesozoo growth 
    223224   sigma2     =  0.6      ! Fraction of mesozoo excretion as DOM 
    224225   unass2     =  0.3      ! non assimilated fraction of P by mesozoo 
     
    246247   xkgraz2     =  20.E-6   ! half sturation constant for meso grazing 
    247248   epsher2     =  0.5      ! Efficicency of Mesozoo growth 
     249   epsher2min  =  0.2     ! Minimum efficiency of mesozoo growth 
    248250   ssigma2     =  0.5     ! Fraction excreted as semi-labile DOM 
    249251   srespir2    =  0.2     ! Active respiration 
     
    260262   resrat     =  0.03     ! exsudation rate of zooplankton 
    261263   mzrat      =  0.004    ! zooplankton mortality rate 
    262    xpref2c    =  0.1      ! Microzoo preference for POM 
    263    xpref2p    =  1.       ! Microzoo preference for Nanophyto 
    264    xpref2d    =  0.5      ! Microzoo preference for Diatoms 
     264   xprefc     =  0.1      ! Microzoo preference for POM 
     265   xprefn     =  1.       ! Microzoo preference for Nanophyto 
     266   xprefd     =  0.6      ! Microzoo preference for Diatoms 
    265267   xthreshdia =  1.E-8    ! Diatoms feeding threshold for microzooplankton  
    266268   xthreshphy =  1.E-8    ! Nanophyto feeding threshold for microzooplankton  
     
    269271   xkgraz     =  20.E-6   ! half sturation constant for grazing 
    270272   epsher     =  0.3      ! Efficiency of microzoo growth 
     273   epshermin  =  0.3      ! Minimum efficiency of microzoo growth 
    271274   sigma1     =  0.6      ! Fraction of microzoo excretion as DOM 
    272275   unass      =  0.3      ! non assimilated fraction of phyto by zoo 
     
    293296   xkgraz     =  20.E-6   ! half sturation constant for grazing 
    294297   epsher     =  0.5      ! Efficiency of microzoo growth 
     298   epshermin  =  0.2      ! Minimum efficiency of microzoo growth 
    295299   ssigma     =  0.5      ! Fraction excreted as semi-labile DOM 
    296300   srespir    =  0.2      ! Active respiration 
     
    304308   ln_fechem =  .false.   ! complex iron chemistry ( T/F ) 
    305309   ln_ligvar =  .false.   ! variable ligand concentration 
    306    ln_fecolloid = .false. ! variable colloidal fraction 
    307310   xlam1        =  0.005  ! scavenging rate of Iron 
    308311   xlamdust     =  150.0  ! Scavenging rate of dust 
    309312   ligand       =  0.6E-9 ! Ligands concentration  
    310    kfep         =  0.     ! Nanoparticle formation rate constant 
     313   kfep         =  0.01   ! Nanoparticle formation rate constant 
    311314/ 
    312315!-----------------------------------------------------------------------   
     
    383386   fep_rats    =  1.       ! Fep/Fer ratio from sed sources  
    384387   fep_rath    =  1.       ! Fep/Fer ratio from sed hydro sources  
     388   rdustfep    =  0.0      ! Fraction of dust that is FeP 
    385389   lgw_rath    =  0.5      ! Weak ligand ratio from sed hydro sources  
    386390/ 
     
    389393!----------------------------------------------------------------------- 
    390394   rfep        =  0.001    ! Dissolution rate of FeP 
    391    rlgw        =  1     ! Lifetime (years) of weak ligands 
     395   rlgw        =  100.     ! Lifetime (years) of weak ligands 
    392396   rlig        =  1.E-4    ! Remin ligand production per unit C 
    393397   prlgw       =  1.E-4    ! Photolysis of weak ligand 
    394    rlgs        =  1000.    ! Lifetime (years) of strong ligands 
     398   rlgs        =  1.       ! Lifetime (years) of strong ligands 
    395399/ 
    396400!----------------------------------------------------------------------- 
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