id	summary	reporter	owner	description	type	status	priority	milestone	component	version	resolution	keywords	cc
868	IMPORTANT: BIO_FENNEL Ecosystem Model Updated	arango		"This update includes several enhancements to the BIO_FENNEL ecosystem module.  Many thanks to Katja Fennel and Arnaud Laurent for providing the updated '''fennel.h''', '''fennel_def.h''', '''fennel_inp.h''', '''fennel_mod.h''', '''fennel_var.h''', and '''fennel_wrt.h''' files. 

* The ecosystem model can be configurated up to '''15''' biological tracers:
{{{
    NO3               Nitrate concentration
    NH4               Ammonium concentration
    chlorophyll       Chorophyll concentration
    phytoplankton     Phytoplankton biomass
    zooplankton       Zooplankton biomass
    LdetritusN        Large detritus N-concentration
    SdetritusN        Small detritus N-concentration
    LdetritusC        Large detritus C-concentration     if CARBON
    SdetritusC        Small detritus C-concentration     if CARBON
    TIC               Total inorganic carbon             if CARBON
    alkalinity        Alkalinity                         if CARBON
    oxygen            Oxygen concentration               if OXYGEN
    PO4               Phosphate concentration            if PO4
    RdetritusN        River detritus N-concentration     if RIVER_DON
    RdetritusC        River detritus C-concentration     if RIVER_DON
}}}

* If '''P04''' is activated, an additional component is added representing phosphate concentration. With this option, the phytoplankton growth can be limited by either nitrogen or phosphorous (see Laurent ''et al.'', 2012).

* '''RIVER_DON''' is activated, an additional biological tracer       (or two if '''CARBON''' is defined) is added, representing the non-sinking dissolved organic matter from rivers described in Yu ''et al.''  (2015).

* If the '''RW14_OXYGEN_SC''' and or '''RW14_CO2_SC''' options are used, the model will use Wanninkhof (2014) air-sea flux parameterization of the Schmidt transfer coefficients. With the '''TALK_NONCONSERV''' option,   alkalinity is affected by biological fluxes, as described in  Laurent ''et al.'' (2017).

* With the '''PCO2AIR_DATA''' option, atmospheric '''pCO2''' uses Laurent ''et al.'' (2017) annual climatory curve. The '''PCO2AIR_SECULAR'''option provides an alternative time-dependent atmospheric''' pCO2''' evolution. If none of the two options are defined, atmospheric '''pCO2''' is constant.

* [[span(style=color: #FF0000, '''WARNING:''' )]] The input '''bio_Fennel.in''' script was modified to include new parameters. Also, several new variables were added to the '''varinfo.dat''' metadata file.

----

Also, included minor updates to few files:

* '''mp_routines.F:''' Added Fortran 2003 '''FLUSH (unit)''' intrinsic to '''my_flush''' subroutine to flush the contents of a unit buffer.

* '''comp_Jb0.F:''' Removed CPP conditional around '''USE mod_scalars''' to avoid compilation errors.

* Change information format in '''get_2dfld.F''', '''get_2dfldr.F''', '''get_3dfld.F''', and '''get_3dfldr.F'''."	upgrade	new	major	Release ROMS/TOMS 3.9	Nonlinear	3.9