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sediment_martini800_v8_7mud2sand.in
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!
! ROMS/TOMS Cohesive and Non-cohesive Sediment Model Parameters.
!
!svn $Id: sediment_sed_toy.in 429 2009-12-20 17:30:26Z arango $
!========================================================= Hernan G. Arango ===
!========================================================= John C. Warner =====
!========================================================Tarandeep S. Kalra ===
! Copyright (c) 2002-2016 The ROMS/TOMS Group !
! Licensed under a MIT/X style license !
! See License_ROMS.txt !
!==============================================================================
! !
! Input parameters can be entered in ANY order, provided that the parameter !
! KEYWORD (usually, upper case) is typed correctly followed by "=" or "==" !
! symbols. Any comment lines are allowed and must begin with an exclamation !
! mark (!) in column one. Comments may appear to the right of a parameter !
! specification to improve documentation. Comments will be ignored during !
! reading. Blank lines are also allowed and ignored. Continuation lines in !
! a parameter specification are allowed and must be preceded by a backslash !
! (\). In some instances, more than one value is required for a parameter. !
! If fewer values are provided, the last value is assigned for the entire !
! parameter array. The multiplication symbol (*), without blank spaces in !
! between, is allowed for a parameter specification. For example, in a two !
! grids nested application: !
! !
! AKT_BAK == 2*1.0d-6 2*5.0d-6 ! m2/s !
! !
! indicates that the first two entries of array AKT_BAK, in fortran column- !
! major order, will have the same value of "1.0d-6" for grid 1, whereas the !
! next two entries will have the same value of "5.0d-6" for grid 2. !
! !
! In multiple levels of nesting and/or multiple connected domains step-ups, !
! "Ngrids" entries are expected for some of these parameters. In such case, !
! the order of the entries for a parameter is extremely important. It must !
! follow the same order (1:Ngrids) as in the state variable declaration. The !
! USER may follow the above guidelines for specifying his/her values. These !
! parameters are marked by "==" plural symbol after the KEYWORD. !
! !
!==============================================================================
!
!------------------------------------------------------------------------------
! Sediment model control switch.
!------------------------------------------------------------------------------
! Switch is used to control sediment model computation within nested and/or
! multiple connected grids, [1:Ngrids].
Lsediment == T
!------------------------------------------------------------------------------
! Tracer horizontal and vertical advection scheme.
!------------------------------------------------------------------------------
!
! Set horizontal and vertical advection schemes for sediment tracers.
! A different advection scheme is allowed for each tracer. For example,
! a positive-definite (monotonic) algorithm can be activated for
! salinity and biological tracers, while a different one is set for
! temperature. [1:NAT+NPT,Ngrids] values are expected.
!
! Keyword Advection Algorithm
!
! A4 4th-order Akima (horizontal/vertical)
! C2 2nd-order centered differences (horizontal/vertical)
! C4 4th-order centered differences (horizontal/vertical)
! HSIMT 3th-order HSIMT-TVD (horizontal/vertical)
! MPDATA recursive flux corrected MPDATA (horizontal/vertical)
! SPLINES parabolic splines (only vertical)
! SU3 split third-order upstream (horizontal/vertical)
! U3 3rd-order upstream-biased (only horizontal)
!
! The user has the option of specifying the full Keyword or the first
! two letters, regardless if using uppercase or lowercase. If nested
! grids, specify values for each grid.
Hadvection == HSIMT ! idsed(:), compact
Vadvection == HSIMT ! idsed(:), compact
! Adjoint-based algorithms can have different horizontal and schemes
! for active and inert tracers.
ad_Hadvection == U3 ! idsed(:), compact
ad_Vadvection == C4 ! idsed(:), compact
!
!------------------------------------------------------------------------------
! Lateral boundary condition flags for all sediment tracers.
!------------------------------------------------------------------------------
!
! Set lateral boundary conditions keyword. Notice that a value is expected
! for each boundary segment per nested grid for each state variable.
!
! The sediment tracer variables (cohesive and noncohesive) require
! [1:4,1:NCS+NNS,Ngrids] values. If specifying every tracer, enter first
! 1:NCS cohesive sediment entries followed by 1:NNS noncohesive sediment
! entries. The boundary order is: 1=west, 2=south, 3=east, and 4=north.
! That is, anticlockwise starting at the western boundary.
!
! The keyword is case insensitive and usually has three characters. However,
! it is possible to have compound keywords, if applicable. For example, the
! keyword "RadNud" implies radiation boundary condition with nudging. This
! combination is usually used in active/passive radiation conditions.
!
! NOTICE: It is possible to specify the lateral boundary conditions for
! ====== all sediment tracers (cohesive and noncohesive) in a compact
! form with a single entry. If so, all the sediment tracers are assumed to
! have the same boundary condition as in the single entry.
!
! Keyword Lateral Boundary Condition Type
!
! Cla Clamped _____N_____ j=Mm
! Clo Closed | 4 |
! Gra Gradient | |
! Nes Nested 1 W E 3
! Nud Nudging | |
! Per Periodic |_____S_____|
! Rad Radiation 2 j=1
! i=1 i=Lm
! W S E N
! e o a o
! s u s r
! t t t t
! h h
!
! 1 2 3 4
LBC(isTvar) == RadNud RadNud Clo RadNud ! idsed(:), compact
! Adjoint-based algorithms can have different lateral boundary
! conditions keywords.
ad_LBC(isTvar) == Gra Gra Clo Gra ! idsed(:), compact
!------------------------------------------------------------------------------
! General sediment bed model controls.
!------------------------------------------------------------------------------
! Depositional bed layer thickness criteria to create a new layer (m). If
! deposition exceeds this value, then a new layer is created, [1:Ngrids].
! NEWLAYER_THICK == 0.001d0
NEWLAYER_THICK == 0.002d0 !PWA: This seems a better shoice with fewer bed layers (Nbed=8 vs. 20)
! Bed load transport rate coefficient, [1:Ngrids].
BEDLOAD_COEFF == 0.15d0
! Maximum biodiffusivity, [1:Ngrids].
DBMAX == 1.0d-10
! Minimum biodiffusivity, [1:Ngrids].
DBMIN == 1.0d-12
! Depth of maximum biodiffusivity, [1:Ngrids].
DBZS == 0.002d0
! Depth of end of exponential biodiffusivity, [1:Ngrids].
DBZM == 0.08d0
! Depth of minimum biodiffusivity, [1:Ngrids].
DBZP == 0.01d0
! Logical switches (TRUE/FALSE) to activate writing of bed layer
! parameters, [1:Ngrids] values expected.
Hout(ithck) == T ! sediment layer thickness
Hout(iaged) == T ! sediment layer age
Hout(iporo) == T ! sediment layer porosity
Hout(idiff) == F ! biodiffusivity
! Logical switches (TRUE/FALSE) to activate writing of bed
! bottom sediment parameters, [1:Ngrids] values expected.
Hout(isd50) == T ! mean grain diameter
Hout(idens) == T ! mean grain density
Hout(iwsed) == T ! mean settling velocity
Hout(itauc) == T ! critical erosion stress
Hout(irlen) == T ! ripple length
Hout(irhgt) == T ! ripple height
Hout(ibwav) == T ! wave excursion amplitude
Hout(izdef) == T ! default bottom roughness
Hout(izapp) == T ! apparent bottom roughness
Hout(izNik) == T ! Nikuradse bottom roughness
Hout(izbio) == T ! biological bottom roughness
Hout(izbfm) == T ! bed form bottom roughness
Hout(izbld) == T ! bed load bottom roughness
Hout(izwbl) == T ! wave bottom roughness
Hout(iactv) == T ! active layer thickness
Hout(ishgt) == F ! saltation height
Hout(imaxD) == F ! maximum inundation depth
Hout(idnet) == F ! Erosion or deposition
Hout(idoff) == F ! dmix erodibility profile offset
Hout(idslp) == F ! dmix or erodibility slope
Hout(idtim) == F ! erodibility profile restore time
Hout(idbmx) == F ! Bed biodifusivity maximum
Hout(idbmm) == F ! Bed biodifusivity minimum
Hout(idbzs) == F ! Bed biodifusivity zs
Hout(idbzm) == F ! Bed biodifusivity zm
Hout(idbzp) == F ! Bed biodifusivity phi
Hout(idprp) == F ! cohesive behavior
!------------------------------------------------------------------------------
! Non-cohesive Sediment Parameters, [1:NNS,1:Ngrids] values expected.
!------------------------------------------------------------------------------
! Median sediment grain diameter (mm).
! SAND_SD50 == 0.0300d0 0.0625d0 0.1250d0
SAND_SD50 == 0.006546d0 0.017678d0 !PWA: see make_martini_lisst.m, martini_lisst_mass_fractions_7mud7sand.mat
! Sediment concentration (kg/m3).
! SAND_CSED == 0.000000d0 0.000000d0 0.000000d0 0.000000d0
SAND_CSED == 0.000000d0 0.000000d0
! Sediment grain density (kg/m3).
! SAND_SRHO == 2650.0d0 2650.0d0 2650.0d0 2650.0d0
SAND_SRHO == 2650.0d0 2650.0d0
! Particle settling velocity (mm/s).
! SAND_WSED == 0.4722d0 2.0421d0 7.9478d0 26.9607d0
SAND_WSED == 0.027138d0 0.197907d0 !PWA: Stokes law at (10degC,35 psu,0 db), vs = fn_Stokes_settling_velocity(PMfracrm.rhos, 1e-6*PMfracrm.diambinmc(3:7), 10, 35, 0)/1e-3
! Surface erosion rate (kg/m2/s).
! SAND_ERATE == 5.0d-4 5.0d-4 5.0d-4 5.0d-4
SAND_ERATE == 5.0d-4 5.0d-4
! Critical shear for erosion and deposition (N/m2).
! SAND_TAU_CE == 0.0854d0 0.1244d0 0.1601d0 0.1980d0
! SAND_TAU_CD == 60.0d0 60.0d0 60.0d0 60.0d0
SAND_TAU_CE == 0.0576d0 0.0715d0 !PWA: Linear interpolation of original values: Xplin(1e-3*PMfracrm.diambinmc(3:7)',[0.03 0.0625 0.125 0.25]',0)*[0.0854 0.1244 0.1601 0.1980]'
SAND_TAU_CD == 60.0d0 60.0d0
! Porosity (nondimensional: 0.0-1.0): Vwater/(Vwater+Vsed).
! SAND_POROS == 0.5d0 0.5d0 0.5d0 0.5d0
SAND_POROS == 0.5d0 0.5d0
! Harmonic/biharmonic horizontal diffusion of tracer for nonlinear model
! and adjoint-based algorithms.
! SAND_TNU2 == 0.0d0 ! m2/s
! SAND_TNU4 == 0.0d0 ! m4/s
SAND_TNU2 == 2*10.0d0 ! m2/s PWA 11/09/2020: Increased 0->10 for consistency with bgc tracers
SAND_TNU4 == 2*0.0d0 ! m4/s
ad_SAND_TNU2 == 0.0d0 ! m2/s
ad_SAND_TNU4 == 0.0d0 ! m4/s
! Logical switches (TRUE/FALSE) to increase horizontal diffusivity
! of noncohesive sediment trace in specific areas of the application
! domain (like sponge areas) for the desired grid:
! SAND_Sponge == F
SAND_Sponge == 2*T ! PWA 11/09/2020: Switched on for consistency with bgc tracers
! Vertical mixing coefficients for tracers in nonlinear model and
! basic state scale factor in adjoint-based algorithms.
! SAND_AKT_BAK == 5.0d-6 ! m2/s
SAND_AKT_BAK == 2*1.0d-6 ! m2/s PWA 11/09/2020: Decreased 5->1 for consistency with bgc tracers
SAND_AKT_fac == 2*1.0d0 ! nondimensional
! Nudging/relaxation time scales, inverse scales will be computed
! internally.
! SAND_TNUDG == 0.0d0 ! days
SAND_TNUDG == 2*15.0d0 ! days PWA 11/09/2020: Increased 0->10 for consistency with bgc tracers
! Morphological time scale factor (greater than or equal to 1.0). A
! value of 1.0 has no scale effect.
SAND_MORPH_FAC == 2*1.0d0 ! nondimensional
! Logical switches (TRUE/FALSE) to activate tracers point Sources/Sinks
! (like river runoff) and to specify which tracer variables to consider.
! See glossary below for details.
! SAND_Ltsrc == F
SAND_Ltsrc == 2*T
! Logical switches (TRUE/FALSE) to read and process noncohesive sediment
! tracers climatology. See glossary below for details.
SAND_Ltclm == 2*F
! Logical switches (TRUE/FALSE) to nudge the desired noncohesive sediment
! tracer climatology field. If not analytical climatology fields, users
! need to turn on the logical switches above to process the fields from
! the climatology NetCDF file that are needed for nudging. See glossary
! below for details.
SAND_Tnudge == 2*F
! Logical switches (TRUE/FALSE) to activate writing of non-cohesive
! sediment into HISTORY output file.
Hout(idsand) == T ! suspended concentration
Hout(iSfrac) == T ! bed layer fraction
Hout(iSmass) == T ! bed layer mass
Hout(iSUbld) == T ! bed load at U-points
Hout(iSVbld) == T ! bed load at V-points
! Logical switches (TRUE/FALSE) to activate writing of time-averaged
! non-cohesive sediment fields into AVERAGE output file.
Aout(idsand) == T ! sand_01, ... suspended concentration
Aout(iSTTav) == F ! sand_01_2, ... quadratic <t*t> tracer terms
Aout(iSUTav) == F ! u_sand_01, ... quadratic <u*t> tracer terms
Aout(iSVTav) == F ! v_sand_01, ... quadratic <v*t> tracer terms
Aout(SHUTav) == F ! Huon_sand_01, ... tracer volume flux, <Huon*t>
Aout(SHVTav) == F ! Hvom_sand_01, ... tracer volume flux, <Hvom*t>
Aout(iSUbld) == T ! bedload_Usand_01, ... bed load at U-points
Aout(iSVbld) == T ! bedload_Vsand_01, ... bed load at V-points
! Logical switches (TRUE/FALSE) to activate writing of time-averaged,
! non-cohesive sediment diagnostic terms into DIAGNOSTIC output file.
Dout(STrate) == F ! sand_01_rate, ... time rate of change
Dout(SThadv) == F ! sand_01_hadv, ... horizontal total advection
Dout(STxadv) == F ! sand_01_xadv, ... horizontal XI-advection
Dout(STyadv) == F ! sand_01_yadv, ... horizontal ETA-advection
Dout(STvadv) == F ! sand_01_vadv, ... vertical advection
Dout(SThdif) == F ! sand_01_hdiff, ... horizontal total diffusion
Dout(STxdif) == F ! sand_01_xdiff, ... horizontal XI-diffusion
Dout(STydif) == F ! sand_01_ydiff, ... horizontal ETA-diffusion
Dout(STsdif) == F ! sand_01_sdiff, ... horizontal S-diffusion
Dout(STvdif) == F ! sand_01_vdiff, ... vertical diffusion
!------------------------------------------------------------------------------
! Suspended Cohesive Sediment Parameters, [1:NCS,1:Ngrids] values expected.
!------------------------------------------------------------------------------
! Median sediment grain diameter (mm).
! MUD_SD50 == 0.020000d0 0.027225d0 0.037059d0 0.050446d0 0.068669d0 0.093475d0 0.127241d0 0.173205d0 0.235773d0 0.320942d0 0.436877d0 0.594692d0 0.809516d0 1.101941d0 1.500000d0
MUD_SD50 == 0.000898d0 0.002424d0 0.006546d0 0.017678d0 0.047738d0 0.128917d0 0.348323d0 !PWA: see make_martini_lisst.m, martini_lisst_mass_fractions_v1.mat
! Sediment concentration (kg/m3).
! MUD_CSED == 0.0d0 0.0d0 0.0d0 0.0d0 0.0d0 0.0d0 0.0d0 0.0d0 0.0d0 0.0d0 0.0d0 0.0d0 0.0d0 0.0d0 0.0d0
MUD_CSED == 0.0d0 0.0d0 0.0d0 0.0d0 0.0d0 0.0d0 0.0d0
! Sediment grain density (kg/m3).
! MUD_SRHO == 1350.000000d0 1263.753867d0 1200.395104d0 1153.850028d0 1119.656746d0 1094.537428d0 1076.084092d0 1062.527767d0 1052.568922d0 1045.252882d0 1039.878320d0 1035.930020d0 1033.029491d0 1030.898683d0 1029.333333d0
MUD_SRHO == 1981.330d0 1611.396d0 1313.938d0 1141.585d0 1064.706d0 1037.335d0 1029.366d0 !PWA: Khelifa and Hill (2006) with Dp=0.2 um, see make_martini_lisst.m, martini_lisst_mass_fractions_7mud7sand.mat
!PWA: NOTE: These values are not actually used - FLOCMOD uses the parameters F_DP0 and F_NF below + a hard-coded fundamental density = 2650 kg/m3
! Particle settling velocity (mm/s).
! MUD_WSED == 0.070850d0 0.096443d0 0.131282d0 0.178706d0 0.243261d0 0.331135d0 0.450752d0 0.613579d0 0.835225d0 1.136937d0 1.547638d0 2.106698d0 2.867710d0 3.903626d0 5.313750d0
MUD_WSED == 0.000300d0 0.001340d0 0.004799d0 0.013978d0 0.033572d0 0.067335d0 0.114143d0 !PWA: Khelifa and Hill (2006) with Dp=0.2 um, see make_martini_lisst.m, martini_lisst_mass_fractions_7mud7sand.mat
! Surface erosion rate (kg/m2/s).
! MUD_ERATE == 0.000500d0 0.000500d0 0.000500d0 0.000500d0 0.000500d0 0.000500d0 0.000500d0 0.000500d0 0.000500d0 0.000500d0 0.000500d0 0.000500d0 0.000500d0 0.000500d0 0.000500d0
MUD_ERATE == 0.000500d0 0.000500d0 0.000500d0 0.000500d0 0.000500d0 0.000500d0 0.000500d0
! Critical shear for erosion and deposition (N/m2).
! MUD_TAU_CE == 0.03d0 0.03d0 0.03d0 0.03d0 0.03d0 0.03d0 0.03d0 0.03d0 0.03d0 0.03d0 0.03d0 0.03d0 0.03d0 0.03d0 0.03d0
! MUD_TAU_CD == 60.00d0 60.00d0 60.00d0 60.00d0 60.00d0 60.00d0 60.00d0 60.00d0 60.00d0 60.00d0 60.00d0 60.00d0 60.00d0 60.00d0 60.00d0
MUD_TAU_CE == 0.03d0 0.03d0 0.03d0 0.03d0 0.03d0 0.03d0 0.03d0
MUD_TAU_CD == 60.00d0 60.00d0 60.00d0 60.00d0 60.00d0 60.00d0 60.00d0
! Porosity (nondimensional: 0.0-1.0): Vwater/(Vwater+Vsed).
! MUD_POROS == 0.500d0 0.500d0 0.500d0 0.500d0 0.500d0 0.500d0 0.500d0 0.500d0 0.500d0 0.500d0 0.500d0 0.500d0 0.500d0 0.500d0 0.500d0
MUD_POROS == 0.500d0 0.500d0 0.500d0 0.500d0 0.500d0 0.500d0 0.500d0
! Harmonic/biharmonic horizontal diffusion of tracer for nonlinear model
! and adjoint-based algorithms.
! MUD_TNU2 == 0.0d0 0.0d0 ! m2/s
! MUD_TNU4 == 0.0d0 0.0d0 ! m4/s
MUD_TNU2 == 7*10.0d0 ! m2/s PWA 11/09/2020: Increased 0->10 for consistency with bgc tracers
MUD_TNU4 == 7*0.0d0 ! m4/s
ad_MUD_TNU2 == 0.0d0 0.0d0 ! m2/s
ad_MUD_TNU4 == 0.0d0 0.0d0 ! m4/s
! Logical switches (TRUE/FALSE) to increase horizontal diffusivity
! of cohesive sediment trace in specific areas of the application
! domain (like sponge areas) for the desired grid:
! MUD_Sponge == F F
MUD_Sponge == 7*T ! PWA 11/09/2020: Switched on for consistency with bgc tracers
! Vertical mixing coefficients for tracers in nonlinear model and
! basic state scale factor in adjoint-based algorithms.
! MUD_AKT_BAK == 5.0d-6 5.0d-6 ! m2/s
MUD_AKT_BAK == 7*1.0d-6 ! m2/s PWA 11/09/2020: Decreased 5->1 for consistency with bgc tracers
MUD_AKT_fac == 7*1.0d0 ! nondimensional
! Nudging/relaxation time scales, inverse scales will be computed
! internally.
! MUD_TNUDG == 0.0d0 0.0d0 ! days
MUD_TNUDG == 7*15.0d0 ! days PWA 11/09/2020: Increased 0->10 for consistency with bgc tracers
! Morphological time scale factor (greater than or equal to 1.0). A
! value of 1.0 has no scale effect.
MUD_MORPH_FAC == 7*1.0d0 ! nondimensional
! Logical switches (TRUE/FALSE) to activate tracers point Sources/Sinks
! (like river runoff) and to specify which tracer variables to consider.
! See glossary below for details.
! MUD_Ltsrc == F F
MUD_Ltsrc == 7*T
! Logical switches (TRUE/FALSE) to read and process cohesive sediment
! tracers climatology. See glossary below for details.
MUD_Ltclm == 7*F
! Logical switches (TRUE/FALSE) to nudge the desired cohesive sediment
! tracer climatology field. If not analytical climatology fields, users
! need to turn on the logical switches above to process the fields from
! the climatology NetCDF file that are needed for nudging. See glossary
! below for details.
MUD_Tnudge == 7*F
! Logical switches (TRUE/FALSE) to activate writing of cohesive sediment
! fields into HISTORY output file.
Hout(idmud) == T ! mud_01, ... suspended concentration
Hout(iMfrac) == T ! mudfrac_01, ... bed layer fraction
Hout(iMmass) == T ! mudmass_01, ... bed layer mass
Hout(iMUbld) == T ! bedload_Umud_01, ... bed load at U-points
Hout(iMVbld) == T ! bedload_Vmud_01, ... bed load at V-points
! Logical switches (TRUE/FALSE) to activate writing of time-averaged
! cohesive sediment fields into AVERAGE output file.
Aout(idmud) == F ! mud_01, ... suspended concentration
Aout(iMTTav) == F ! mud_01_2, ... quadratic <t*t> tracer terms
Aout(iMUTav) == F ! u_mud_01, ... quadratic <u*t> tracer terms
Aout(iMVTav) == F ! v_mud_01, ... quadratic <v*t> tracer terms
Aout(MHUTav) == F ! Huon_mud_01, ... tracer volume flux, <Huon*t>
Aout(MHVTav) == F ! Hvom_mud_01, ... tracer volume flux, <Hvom*t>
Aout(iMUbld) == F ! bedload_Umud_01, ... bed load at U-points
Aout(iMVbld) == F ! bedload_Vmud_01, ... bed load at V-points
! Logical switches (TRUE/FALSE) to activate writing of time-averaged,
! cohesive sediment diagnostic terms into DIAGNOSTIC output file.
Dout(MTrate) == F ! mud_01_rate, ... time rate of change
Dout(MThadv) == F ! mud_01_hadv, ... horizontal total advection
Dout(MTxadv) == F ! mud_01_xadv, ... horizontal XI-advection
Dout(MTyadv) == F ! mud_01_yadv, ... horizontal ETA-advection
Dout(MTvadv) == F ! mud_01_vadv, ... vertical advection
Dout(MThdif) == F ! mud_01_hdiff, ... horizontal total diffusion
Dout(MTxdif) == F ! mud_01_xdiff, ... horizontal XI-diffusion
Dout(MTydif) == F ! mud_01_ydiff, ... horizontal ETA-diffusion
Dout(MTsdif) == F ! mud_01_sdiff, ... horizontal S-diffusion
Dout(MTvdif) == F ! mud_01_vdiff, ... vertical diffusion
!------------------------------------------------------------------------------
! Mixed Bed parameters- Transition threshold for cohesive mix
! and non-cohesive behaviors [1:Ngrids] values expected.
!------------------------------------------------------------------------------
! Cohesive transition- Under that value of total mud fraction
! entire bed behaves as a non-cohesive bed
TRANSC == 0.03d0
! Noncohesive transition- Over that value of total mud fraction
! entire bed behaves as a cohesive bed
TRANSN == 0.2d0
!------------------------------------------------------------------------------
! Cohesive/Mixed bed critical shear
! Bed critical shear stress values if cohesive or mixed Bed is active
! These values are applied to the entire bed. [1:Ngrids] values expected.
!------------------------------------------------------------------------------
! Minimum shear for erosion
MUD_TAUCR_MIN == 0.030000d0
! Maximum shear for erosion
MUD_TAUCR_MAX == 5.20d0
! Tau_crit profile slope
MUD_TAUCR_SLOPE == 0.300000d0
! Tau_crit profile offset
MUD_TAUCR_OFF == 1.000000d0
! Tau_crit consolidation rate
MUD_TAUCR_TIME == 28800.0d0
!------------------------------------------------------------------------------
! Flocculation Sediment Parameters.
!------------------------------------------------------------------------------
! Boolean set to .true. if differential settling aggregation
L_ADS == F
! Boolean set to .true. if shear aggregation
L_ASH == T
! Boolean set to .true. if collision-induced fragmentation enable
L_COLLFRAG == F
! Primary particle size (m), typically 4e-6 m
! F_DP0 == 0.000004d0
F_DP0 == 0.0000002d0 !PWA: Dp=0.2um, see make_martini_lisst.m
! Floc fractal dimension, typically ranging from 1.6 to 2.6
F_NF == 2.0d0
! Maximum diameter (m)
F_DMAX == 0.0015d0
! Number of fragments by shear erosion, If binary/ternary : 2.0
F_NB_FRAG == 2.0d0
! Flocculation efficiency, ranging from 0 to 1.0
F_ALPHA == 0.35d0
! Shear fragmentation rate
F_BETA == 0.15d0
! F_BETA == 0.12d0 !PWA: Verney et al. (2011) suggest (ALPHA,BETA) = (0.35,0.12) (BETAopt = 0.39*ALPHAopt-0.02), but BETA:0.15->0.12 seems to cause numerical blowup
! For ternary breakup, use 0.5, for binary : 0. (a boolean could be better)
F_ATER == 0.0d0
! Fraction of the shear fragmentation term transfered to shear erosion.
! Ranging from [(0.0 - no erosion to 1.0 - all erosion)]
F_ERO_FRAC == 0.0d0
! Number of fragments induced by shear erosion.
F_ERO_NBFRAG == 2.0d0
! Fragment size class (could be changed to a particle
! size or a particle distribution) (INTEGER)
F_ERO_IV == 1
! Fragmentation rate for collision-induced breakup
F_COLLFRAGPARAM == 0.01d0
! Min concentration below which flocculation processes are not calculated
! F_CLIM == 0.001d0 !0.001 kg/m3 is a rather high TSM concentration in MARTINI800 (1 mg/L)
F_CLIM == 0.0001d0 !Only ~3% saving in wall time wrt F_CLIM=0.0d0, testing 0.5 days from the IC, but may be more savings near equilibrium
! If .TRUE. sets G(t) to values from Verney et al., 2011 lab experiment
L_TESTCASE == F
!------------------------------------------------------------------------------
! Flocculation Decomposition in Bed Sediment Parameters
! Only #ifdef DEFLOC
!------------------------------------------------------------------------------
! Equilibrium fractional class distribution (they should add up to 1).
! There is no check for that
! [1:NCS,1:Ngrids] values expected.
! MUD_FRAC_EQ == 0.10d0 0.20d0 0.40d0 0.20d0 0.10d0 0.0d0 0.0d0 0.00d0 0.0d0 0.0d0 0.0d0 0.0d0 0.0d0 0.0d0 0.0d0
MUD_FRAC_EQ == 0.10d0 0.20d0 0.40d0 0.20d0 0.10d0 0.0d0 0.0d0
! Time scale of flocculation decomposition in bed
! [1:Ngrids] values expected.
MUD_T_DFLOC == 200.0d0
!
! GLOSSARY:
! =========
!
!------------------------------------------------------------------------------
! Sediment model control switch, [1:Ngrids].
!------------------------------------------------------------------------------
!
! Lsediment Switch to control sediment model computation within nested
! and/or multiple connected grids. By default this switch
! is set to TRUE in "mod_scalars" for all grids. The USER
! has the option, for example, to compute sediment in just
! one of the nested grids. If so, this switch needs to be
! consistent with the dimension parameter NST in input
! script (ocean.in). In order to make the model more
! efficient in memory usage, NST(:) should be zero in
! such grids.
!
!------------------------------------------------------------------------------
! Lateral boundary conditions parameters for all sediment tracers.
!------------------------------------------------------------------------------
!
! The lateral boundary conditions are now specified with logical switches
! instead of CPP flags to allow nested grid configurations. Their values are
! load into structured array:
!
! LBC(1:4, nLBCvar, Ngrids)
!
! where 1:4 are the number of boundary edges, nLBCvar are the number LBC state
! variables, and Ngrids is the number of nested grids. For Example, to apply
! gradient boundary conditions to any tracer we use:
!
! LBC(iwest, isTvar(itrc), ng) % gradient
! LBC(ieast, isTvar(itrc), ng) % gradient
! LBC(isouth, isTvar(itrc), ng) % gradient
! LBC(inorth, isTvar(itrc), ng) % gradient
!
! The lateral boundary conditions for all sediment tracers (cohesive plus
! noncohesive) are entered with a keyword. This keyword is case insensitive
! and usually has three characters. However, it is possible to have compound
! keywords, if applicable. For example, the keyword "RadNud" implies radiation
! boundary condition with nudging. This combination is usually used in
! active/passive radiation conditions.
!
! It is possible to specify the lateral boundary conditions for all sediment
! tracers in a compact form with a single entry. for example, in a East-West
! periodic application we can just have:
!
! W S E N
! e o a o
! s u s r
! t t t t
! h h
!
! 1 2 3 4
!
! LBC(isTvar) == Per Clo Per Clo
!
! Then, the standard input processing routine will assume that all the
! sediment tracers have the same lateral boundary condition specified by
! the single entry.
!
! Keyword Lateral Boundary Condition Type
!
! Cla Clamped _____N_____ j=Mm
! Clo Closed | 4 |
! Gra Gradient | |
! Nes Nested 1 W E 3
! Nud Nudging | |
! Per Periodic |_____S_____|
! Rad Radiation 2 j=1
! i=1 i=Lm
!
! LBC(isTvar) Sediment Tracers, [1:4, 1:NST, Ngrids] values are expected.
!
! Similarly, the adjoint-based algorithms (ADM, TLM, RPM) can have different
! lateral boundary conditions keywords:
!
! ad_LBC(isTvar) Sediment Tracers, [1:4, 1:NBT, Ngrids] values are expected.
!
!------------------------------------------------------------------------------
! General sediment bed model controls, [1:Ngrids] values are expected.
!------------------------------------------------------------------------------
!
! NEWLAYER_THICK Depositional bed layer thickness criteria to create a new
! layer (m). If deposition exceeds this value, then a new
! layer is created.
!
! BEDLOAD_COEFF Bed load transport rate coefficient.
!
! DBMAX Maximum biodiffusivity
!
! DBMIN Minimum biodiffusivity
!
! DBZS Depth of maximum biodiffusivity
!
! DBZM Depth of end of exponential biodiffusivity
!
! DBZP Depth of minimum biodiffusivity
!
!------------------------------------------------------------------------------
! Logical switches to activate writing of bed layer properties
! [1:Ngrids] values expected.
!------------------------------------------------------------------------------
!
! Hout(ithck) Sediment layer thickness.
!
! Hout(iaged) Sediment layer age.
!
! Hout(iporo) Sediment layer porosity.
!
! Hout(idiff) Biodiffusivity at the bottom of each layer.
!
!------------------------------------------------------------------------------
! Logical switches to activate writing of bottom layer parameters
! [1:Ngrids] values expected.
!------------------------------------------------------------------------------
!
! Hout(isd50) Mean grain diameter
!
! Hout(idens) Mean grain density
!
! Hout(iwsed) Mean settling velocity
!
! Hout(itauc) Critical erosion stress
!
! Hout(irlen) Ripple length
!
! Hout(irhgt) Ripple height
!
! Hout(ibwav) Wave Excursion Amplitude
!
! Hout(izdef) Default bottom roughness
!
! Hout(izapp) Apparent bottom roughness
!
! Hout(izNik) Nikuradse bottom roughness
!
! Hout(izbio) Biological bottom roughness
!
! Hout(izbfm) Bed form bottom roughness
!
! Hout(izbld) Bedload bottom roughness
!
! Hout(izwbl) Wave bottom roughness
!
! Hout(iactv) Active layer thickness
!
! Hout(ishgt) Saltation height
!
! Hout(imaxD) Maximum inundation depth
!
! Hout(idnet) Erosion or deposition
!
! Hout(idoff) Dmix erodibility profile offset
!
! Hout(idslp) Dmix or erodibility slope
!
! Hout(idtim) Erodibility profile restore time
!
! Hout(idbmx) Bed biodiffusivity maximum
!
! Hout(idbmm) Bed biodiffusivity minimum
!
! Hout(idbzs) Bed biodiffusivity
!
! Hout(idbzm) Bed biodiffusivity
!
! Hout(idbzp) Bed biodiffusivity
!
! Hout(idprp) Cohesive behavior
!
!------------------------------------------------------------------------------
! Suspended Non-cohesive Sediment KEYWORDS, [1:NNS,1:Ngrids] values expected.
!------------------------------------------------------------------------------
!
! SAND_SD50 Median sediment grain diameter (mm).
!
! SAND_CSED Sediment concentration (kg/m3). It may be used to initialize
! sediment fields using analytical expressions.
!
! SAND_SRHO Sediment grain density (kg/m3).
!
! SAND_WSED Particle settling velocity (mm/s).
!
! SAND_Erate Surface erosion rate (kg/m2/s).
!
! SAND_TAU_CE Critical shear for erosion (N/m2).
!
! SAND_TAU_CD Critical shear for deposition (N/m2).
!
! SAND_POROS Porosity (nondimensional: 0.0-1.0): Vwater/(Vwater+Vsed).
!
! SAND_TNU2 Nonlinar model lateral, harmonic, constant, mixing
! coefficient (m2/s) for suspended non-cohesive sediment;
! [1:NNS,1:Ngrids]. If variable horizontal diffusion
! is activated, SAND_TNU2 is the mixing coefficient for
! the largest grid-cell in the domain.
!
! SAND_TNU4 Nonlinar model lateral, harmonic, constant, mixing
! coefficient (m4/s) for suspended non-cohesive sediment;
! [1:NNS,1:Ngrids]. If variable horizontal diffusion
! is activated, SAND_TNU4 is the mixing coefficient for
! the largest grid-cell in the domain.
!
! ad_SAND_TNU2 Adjoint-based algorithms lateral, harmonic, constant,
! mixing coefficient (m2/s) for suspended non-cohesive
! sediment; [1:NNS,1:Ngrids]. If variable horizontal
! diffusion is activated, SAND_TNU2 is the mixing
! coefficient for the largest grid-cell in the domain.
!
! ad_SAND_TNU4 Adjoint-based algorithms lateral, harmonic, constant,
! mixing coefficient (m4/s) for suspended non-cohesive
! sediment; [1:NNS,1:Ngrids]. If variable horizontal
! diffusion is activated, SAND_TNU4 is the mixing
! coefficient for the largest grid-cell in the domain.
! SAND_Sponge Logical switches (TRUE/FALSE) to increase horizontal
! diffusivity of noncohesive sediment tracers in sponge
! areas of the domain. The CPP option SPONGE is now
! deprecated and replaced with this switch to
! facilitate or not sponge areas of desired tracer
! in a particular nested grid.
!
! SAND_AKT_BAK Background vertical mixing coefficient (m2/s),
! AKT_BAK(idsed(i)) with i=NCS+1:NST.
!
! SAND_AKT_fac Adjoint-based algorithms vertical mixing, basic state,
! scale factor (nondimensional) for sediment tracer
! variables; [1:NNS,1:Ngrids] values are expected.
! In some applications, a smaller/larger values of
! vertical mixing are necessary for stability. It is
! only used when FORWARD_MIXING is activated.
!
! SAND_TNUDG Nudging time scale (days), TNUDG(idsed(i)) with i=NCS+1:NST.
! Inverse scale will be computed internally,
!
! SAND_MORPH_FAC Morphological time scale factor (nondimensional; greater
! than or equal to 1.0). A value of 1.0 has no scale effect.
!
! SAND_Ltsrc Logical switches (T/F) to activate noncohesive sediment
! tracer variables point Sources/Sinks; [1:NNS,1:Ngrids]
! values are expected.
!
! SAND_Ltsrc( 1,ng) sand_01
! ... ...
! SAND_Ltsrc(NNS,ng) ...
!
! Recall that these switches are usually activated to add
! river runoff as a point source. At minimum, it is
! necessary to specify both temperature and salinity for
! all rivers. The other tracers are optional. The user needs
! to know the correspondence between sediment variables and
! indices idsed(NCS+1:NST) when activating one or more
! of these switches.
!
! This logical switch REPLACES and ELIMINATES the need to
! have or read the variable "river_flag(river)" in the input
! rivers forcing NetCDF file:
!
! double river_flag(river)
! river_flag:long_name = "river runoff tracer flag"
! river_flag:option_0 = "all tracers are off"
! river_flag:option_1 = "only temperature"
! river_flag:option_2 = "only salinity"
! river_flag:option_3 = "both temperature and salinity"
! river_flag:units = "nondimensional"
!
! This logic was too cumbersome and complicated when
! additional tracers are considered. However, this change
! is backward compatible.
!
! This logical switch will be used to activate the reading
! of respective tracer variable from input river forcing
! NetCDF file. If you want to add other tracer variables
! (other than temperature and salinity) as a source for a
! particular river(s), you just need to specify such values
! on those river(s). Then, set the values to ZERO on the
! other river(s) that do NOT require such river forcing for
! that tracer. Recall that you need to specify the tracer
! values for all rivers, even if their values are zero.
!
! SAND_Ltclm Logical switches (T/F) to process noncohesive sediment
! tracer climatology. The CPP option TCLIMATOLOGY is now
! obsolete and replaced with these switches to facilitate
! nesting applications. Currently, the CLIMA(ng)%tclm is
! used for horizontal mixing, sponges, and nudging.
!
! SAND_Ltclm( 1,ng) sand_01
! ... ...
! SAND_Ltclm(NNS,ng) ...
!
! These switches also controls which climatology tracer
! fields needs to be processed. So we may reduce the
! memory allocation for the CLIMA(ng)%tclm array.
!
! SAND_Tnudge Logical switches (T/F) to activate nugding of noncohesive
! sediment tracer climatology. These switches also control
! which sediment tracer variables to nudge. The CPP option
! TCLM_NUDGING is now obsolete and replaced with these
! switches to facilitate nesting.
!
! MUD_Tnudge( 1,ng) sand_01
! ... ...
! MUD_Tnudge(NNS,ng) ...
!
! User also needs to TURN ON the respective logical switches
! "SAND_Ltclm", described above, to process the required 3D
! sediment tracer climatology data. This data can be set
! with analytical functions (ANA_TCLIMA) or read from input
! climatology NetCDF file(s).
!
! The nudging coefficients CLIMA(ng)%Tnudgcof can be set
! with analytical functions in "ana_nudgcoef.h" using CPP
! option ANA_NUDGCOEF. Otherwise, it will be read from
! NetCDF file NUDNAME.
!
! Hout(idsand) Logical switches to activate writing of non-cohesive
! sediment concentration into HISTORY NetCDF file,
! HOUT(idTvar(idsed(i))) with i=1:NCS+1,NST.
!
! Hout(iSfrac) Logical switches to activate writing of non-cohesive
! sediment class fraction composition of each bed layer
! into HISTORY NetCDF file, HOUT(idfrac(i)) with
! i=NCS+1,NST.
!
! Hout(iSmass) Logical switches to activate writing of non-cohesive
! sediment mass of each bed layer into HISTORY NetCDF file,
! HOUT(idsed(i)) with i=NCS+1,NST.
!
! Hout(iSUbld) Logical switches to activate writing of non-cohesive
! sediment bed load at U-points into HISTORY NetCDF file,
! HOUT(idsed(i)) with i=NCS+1,NST.
!
! Hout(iSVbld) Logical switches to activate writing of non-cohesive
! sediment bed load at V-points into HISTORY NetCDF file,
! HOUT(idsed(i)) with i=NCS+1,NST.
!
! Aout(*S...) Logical switches to activate writing of time-averaged
! non-cohesive sediment concentration into AVERAGE
! NetCDF file, AOUT(idTvar(idsed(i))) with i=1:NCS+1,NST.
!
! Aout(idsand) suspended concentration
!
! Aout(iSTTav) quadratic <t*t> tracer terms
! Aout(iSUTav) quadratic <u*t> tracer terms
! Aout(iSVTav) quadratic <v*t> tracer terms
! Aout(SHUTav) tracer volume flux, <Huon*t>
! Aout(SHVTav) tracer volume flux, <Hvom*t>
!
! Aout(iSUbld) bed load at U-points
! Aout(iSVbld) bed load at V-points
!
! Dout(ST....) Logical switches to activate writing of time-averaged
! non-cohesive tracers diagnostic terms into DIAGNOSTIC
! NetCDF file, DOUT(idsed(i),ST....) with i=NCS+1,NST.
!
! Dout(STrate) Time rate of change
! Dout(SThadv) Horizontal total advection
! Dout(STxadv) Horizontal XI-advection
! Dout(STyadv) Horizontal ETA-advection
! Dout(STvadv) Vertical advection
! Dout(SThdif) Horizontal total diffusion
! Dout(STxdif) Horizonta1 XI-diffusion
! Dout(STydif) Horizontal ETA-diffusion
! Dout(STsdif) Horizontal S-diffusion
! Dout(STvdif) Vertical diffusion
!
!------------------------------------------------------------------------------
! Suspended Cohesive Sediment KEYWORDS, [1:NCS,1:Ngrids] values expected.
!------------------------------------------------------------------------------
!
! MUD_SD50 Median sediment grain diameter (mm).
!
! MUD_CSED Sediment concentration (kg/m3). It may be used to initialize
! sediment fields using analytical expressions.
!
! MUD_SRHO Sediment grain density (kg/m3).
!
! MUD_WSED Particle settling velocity (mm/s).
!
! MUD_ERATE Surface erosion rate (kg/m2/s).
!
! MUD_TAU_CE Critical shear for erosion (N/m2).
!
! MUD_TAU_CD Critical shear for deposition (N/m2).
!
! MUD_POROS Porosity (nondimensional: 0.0-1.0): Vwater/(Vwater+Vsed).
!
! MUD_TNU2 Nonlinar model lateral, harmonic, constant, mixing
! coefficient (m2/s) for suspended cohesive sediment;
! [1:NCS,1:Ngrids]. If variable horizontal diffusion is
! activated, MUD_TNU2 is the mixing coefficient for