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benw |
1.4 |
c $Header: /u/gcmpack/MITgcm_contrib/darwin2/pkg/quota/quota_generate_phyto.F,v 1.3 2013/06/12 17:53:27 jahn Exp $ |
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jahn |
1.1 |
C $Name: $ |
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#include "CPP_OPTIONS.h" |
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#include "PTRACERS_OPTIONS.h" |
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#include "DARWIN_OPTIONS.h" |
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#ifdef ALLOW_PTRACERS |
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#ifdef ALLOW_DARWIN |
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#ifdef ALLOW_QUOTA |
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c ========================================================== |
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c SUBROUTINE QUOTA_GENERATE_PHYTO |
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c generate parameters for "Operational Taxonomic Units" of plankton (index jp) |
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c using an allometric approach |
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c |
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c Ben Ward 2009/10 |
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c ========================================================== |
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SUBROUTINE QUOTA_GENERATE_PHYTO(myThid) |
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implicit none |
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#include "EEPARAMS.h" |
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#include "DARWIN_PARAMS.h" |
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#include "QUOTA_SIZE.h" |
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#include "QUOTA.h" |
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C !INPUT PARAMETERS: =================================================== |
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C myThid :: thread number |
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INTEGER myThid |
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C === Functions === |
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_RL DARWIN_RANDOM |
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EXTERNAL DARWIN_RANDOM |
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_RL DARWIN_RANDOM_NORMAL |
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EXTERNAL DARWIN_RANDOM_NORMAL |
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C !LOCAL VARIABLES: |
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C === Local variables === |
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C msgBuf - Informational/error meesage buffer |
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CHARACTER*(MAX_LEN_MBUF) msgBuf |
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_RL RandNo |
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_RL mortdays |
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_RL year |
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_RL rtime |
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_RL standin |
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_RL tmpsrt |
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_RL tmpend |
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_RL tmprng |
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_RL iimaxm1 |
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_RL npmaxm1 |
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_RL komaxm1 |
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_RL prd_pry |
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_RL factor |
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benw |
1.4 |
#ifdef ALLOWPFT |
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jahn |
1.1 |
_RL taxon_mu(npmax) |
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benw |
1.4 |
#endif |
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jahn |
1.1 |
_RL a,b,p,error |
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_RL heterotrophy(npmax) |
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benw |
1.4 |
_RL tau1,tau2 |
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_RL ESD1,pi |
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_RL logvol(npmax) |
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INTEGER ii,io,jp,ko,ni |
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INTEGER jp2,icount,ntroph |
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jahn |
1.1 |
INTEGER signvar |
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CEOP |
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c |
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benw |
1.4 |
standin= 0. _d 0 |
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pi = 4. _d 0 * datan(1. _d 0) |
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jahn |
1.1 |
c each time generate another functional group add one to ngroups |
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ngroups = ngroups + 1 |
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iimaxm1 = float(iimax-1) |
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npmaxm1 = float(npmax-1) |
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komaxm1 = float(komax-1) |
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c |
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c.......................................................... |
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c Generate plankton volumes and stochastic parameters |
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c.......................................................... |
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benw |
1.4 |
#ifdef ALLOWPFT |
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jahn |
1.1 |
factor = 2. _d 0 |
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benw |
1.4 |
tau1=1.0 _d 0 |
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tau2=1.0 _d 0 |
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jahn |
1.1 |
c Allocate Phytoplankton Taxa |
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c Prochloro |
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do jp=1,2 |
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benw |
1.2 |
biovol(jp) = 0.125 _d 0 * factor**(jp-1) |
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jahn |
1.1 |
autotrophy(jp)= 1.00 _d 0 |
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benw |
1.2 |
use_NO3(jp) = 1 |
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jahn |
1.1 |
use_Si(jp) = 0 |
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taxon_mu(jp) = 1.00 _d 0 |
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pft(jp) = 1 |
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enddo |
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c Synnecho |
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do jp=3,5 |
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biovol(jp) = 0.50 _d 0 * factor**(jp-3) |
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autotrophy(jp)= 1.00 _d 0 |
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use_NO3(jp) = 1 |
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use_Si(jp) = 0 |
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benw |
1.2 |
taxon_mu(jp) = 1.40 _d 0 |
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jahn |
1.1 |
pft(jp) = 2 |
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enddo |
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c Small Euk |
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do jp=6,9 |
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biovol(jp) = 4.00 _d 0 * factor**(jp-6) |
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autotrophy(jp)= 1.0 _d 0 |
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use_NO3(jp) = 1 |
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use_Si(jp) = 0 |
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taxon_mu(jp) = 2.10 _d 0 |
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pft(jp) = 3 |
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enddo |
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c Diatoms |
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do jp=10,15 |
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jahn |
1.3 |
biovol(jp) = 128.0 _d 0 * factor**(jp-10) |
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jahn |
1.1 |
autotrophy(jp)= 1.0 _d 0 |
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use_NO3(jp) = 1 |
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use_Si(jp) = 0 |
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taxon_mu(jp) = 3.8 _d 0 |
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pft(jp) = 4 |
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enddo |
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c Specialist grazers |
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do jp=16,16 |
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jahn |
1.3 |
biovol(jp) = 8.0 _d 0 * factor**(jp-16) |
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jahn |
1.1 |
autotrophy(jp)= 0.00 _d 0 |
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use_NO3(jp) = 0 |
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use_Si(jp) = 0 |
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taxon_mu(jp) = 0.00 _d 0 |
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pft(jp) = 6 |
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enddo |
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c |
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do jp=1,16 |
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heterotrophy(jp)=1.0 _d 0 - autotrophy(jp) |
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enddo |
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benw |
1.4 |
#else |
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ESD1 = 0.5 _d 0 ! minimum plankton ESD |
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ni = 2 ! ni size classes within diameter gaps of * 10 |
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factor = 1000. _d 0 ** (1. _d 0 / float(ni)) |
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tau1 = 1.25 _d 0 |
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tau2 = 1.0 _d 0 / tau1 |
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ntroph = 2 |
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if (ntroph.eq.1) then |
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tau1 = 0.0 _d 0 |
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tau2 = 0.0 _d 0 |
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endif |
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c Allocate plankton traits |
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icount=0 |
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do jp2=1,ntroph |
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do jp=1,npmax/ntroph |
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icount = icount + 1 |
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biovol(icount) = pi*ESD1**3/6. _d 0 *factor**(jp-1) |
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logvol(icount) = log10(biovol(icount)) |
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use_NO3(icount) = 1 |
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use_Si(icount) = 0 |
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if (ntroph.gt.1) then |
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autotrophy(icount) = 1.0 _d 0 - float(jp2-1) |
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& / float(ntroph - 1) |
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heterotrophy(icount)= 1.0 _d 0 - autotrophy(icount) |
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else |
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autotrophy(icount) = 0.5 _d 0 |
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heterotrophy(icount)= 0.5 _d 0 |
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endif |
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enddo |
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enddo |
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#endif |
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jahn |
1.1 |
c ---------------------------------------------------------------------- |
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c Allometry |
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#ifdef UNCERTAINTY |
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error = 1.0 _d 0 |
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#else |
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error = 0.0 _d 0 |
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! set stdev of allometric parameters to zero |
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#endif |
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c ---------------------------------------------------------------------- |
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do jp=1,npmax |
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! parameters independent of nutrient element |
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c CARBON CONTENT |
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p = darwin_random(myThid) |
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call invnormal(a,p, |
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& log10(a_qcarbon),log10(ae_qcarbon)*error) |
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call invnormal(b,p,b_qcarbon,be_qcarbon*error) |
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qcarbon(jp) = 10. _d 0**a * biovol(jp) ** b |
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c INITIAL SLOPE P-I |
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p = darwin_random(myThid) |
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call invnormal(a,p, |
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& log10(a_alphachl),log10(ae_alphachl)*error) |
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call invnormal(b,p,b_alphachl,be_alphachl*error) |
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alphachl(jp) = 10. _d 0**a * biovol(jp) ** b |
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c RESPIRATION RATE |
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p = darwin_random(myThid) |
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IF (a_respir.NE.0. _d 0) THEN |
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call invnormal(a,p, |
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& log10(a_respir),log10(ae_respir)*error) |
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call invnormal(b,p,b_respir,be_respir*error) |
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benw |
1.4 |
respiration(jp) = 10. _d 0**a * biovol(jp) ** b |
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jahn |
1.1 |
ELSE |
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respiration(jp) = 0.0 _d 0 |
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ENDIF |
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benw |
1.4 |
c GRAZING SIZE PREFERENCE RATIO |
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p = darwin_random(myThid) |
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call invnormal(a,p, |
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& log10(a_prdpry),log10(ae_prdpry)*error) |
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call invnormal(b,p,b_prdpry,be_prdpry*error) |
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pp_opt(jp) = 10. _d 0**a * biovol(jp) ** b |
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c MAXIMUM GRAZING RATE + WIDTH OF GRAZING KERNEL |
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jahn |
1.1 |
p = darwin_random(myThid) |
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call invnormal(a,p, |
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& log10(a_graz),log10(ae_graz)*error) |
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call invnormal(b,p,b_graz,be_graz*error) |
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benw |
1.4 |
!#ifdef ONEGRAZER |
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!! if only one grazer, set max grazing by 1 * prey size |
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!! only P are grazed |
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! graz(jp) = 10. _d 0**a * (biovol(jp)*pp_opt(jp)) ** b |
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! & * autotrophy(jp) ** tau2 |
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!! temp fix to remove size dep. |
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! graz(jp) = 10. _d 0**a * (biovol(npmax)) ** b |
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! & * autotrophy(jp) ** tau2 |
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!! temp fix to remove size dep. |
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! pp_sig(jp) = 1. _d 10 |
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!#else |
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! set grazing rate by grazer size, non-grazers to zero |
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graz(jp) = 10. _d 0**a * biovol(jp) ** b |
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& * heterotrophy(jp) ** tau2 |
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pp_sig(jp) = 2. _d 0 |
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!#endif |
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c FRACTION GRAZED TAND MORTALITY TO DOM |
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jahn |
1.1 |
do io=1,iomax-iChl |
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benw |
1.4 |
#ifdef ALLOWPFT |
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if (pft(jp).lt.3) beta_graz(io,jp)=0.8 |
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if (pft(jp).gt.2) beta_graz(io,jp)=0.5 |
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#else |
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beta_graz(io,jp) = 0.9 _d 0 - 0.7 _d 0 |
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& / (1.0 _d 0 + exp(-logvol(jp)+2.0 _d 0)) |
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#endif |
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beta_mort(io,jp) = beta_graz(io,jp) |
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jahn |
1.1 |
enddo |
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c GRAZING HALF-SATURATION |
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p = darwin_random(myThid) |
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call invnormal(a,p, |
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& log10(a_kg),log10(ae_kg)*error) |
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call invnormal(b,p,b_kg,be_kg*error) |
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kg(jp) = 10. _d 0**a * biovol(jp) ** b |
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benw |
1.4 |
#ifdef DIFFLIMIT |
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& * heterotrophy(jp) ** tau1 |
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#endif |
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jahn |
1.1 |
c PHYTOPLANKTON SINKING |
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p = darwin_random(myThid) |
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call invnormal(a,p, |
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& log10(a_biosink),log10(ae_biosink)*error) |
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call invnormal(b,p,b_biosink,be_biosink*error) |
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benw |
1.4 |
biosink(jp) = (10.0 _d 0**a) * biovol(jp) ** b |
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#ifdef ALLOWPFT |
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if (pft(jp).eq.6) biosink(jp) = 0. _d 0 |
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#endif |
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c MORTALITY |
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! constant background mortality |
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jahn |
1.1 |
p = darwin_random(myThid) |
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call invnormal(a,p, |
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benw |
1.4 |
& log10(a_mort),log10(ae_mort)*error) |
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call invnormal(b,p,b_mort,be_mort*error) |
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kmort(jp) = (10.0 _d 0**a) * biovol(jp) ** b |
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jahn |
1.1 |
! parameters relating to inorganic nutrients |
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do ii=1,iimax |
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c MAXIMUM NUTRIENT UPTAKE RATE |
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p = darwin_random(myThid) |
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call invnormal(a,p, |
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& log10(a_vmaxi(ii)),log10(ae_vmaxi(ii))*error) |
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call invnormal(b,p,b_vmaxi(ii),be_vmaxi(ii)*error) |
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if (ii.eq.iDIC) then |
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benw |
1.4 |
#ifdef ALLOWPFT |
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jahn |
1.1 |
vmaxi(ii,jp)= 10. _d 0**a * biovol(jp) ** b |
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& * taxon_mu(jp) |
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benw |
1.4 |
#else |
| 274 |
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vmaxi(ii,jp)= (3.1 _d 0+logvol(jp)) |
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& / (5.0 _d 0 - 3.8 _d 0*logvol(jp) + logvol(jp)**2) |
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& / 86400. _d 0 |
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& * autotrophy(jp) ** tau1 |
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#endif |
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jahn |
1.1 |
else |
| 280 |
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vmaxi(ii,jp)= 10. _d 0**a * biovol(jp) ** b |
| 281 |
benw |
1.4 |
& * autotrophy(jp) ** tau1 |
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c NUTRIENT HALF-SATURATION CONSTANT |
| 283 |
jahn |
1.1 |
p = darwin_random(myThid) |
| 284 |
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call invnormal(a,p, |
| 285 |
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& log10(a_kn(ii)),log10(ae_kn(ii))*error) |
| 286 |
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call invnormal(b,p,b_kn(ii),be_kn(ii)*error) |
| 287 |
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kn(ii,jp) = 10. _d 0**a * biovol(jp) ** b |
| 288 |
benw |
1.4 |
#ifdef DIFFLIMIT |
| 289 |
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& * autotrophy(jp) ** tau1 |
| 290 |
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#endif |
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jahn |
1.1 |
endif |
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enddo |
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#ifdef SQUOTA |
| 294 |
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! Silicate parameters to zero for non-diatoms |
| 295 |
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vmaxi(iSi,jp) = vmaxi(iSi,jp) * float(use_Si(jp)) |
| 296 |
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#endif |
| 297 |
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c |
| 298 |
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if (use_NO3(jp).eq.0) then |
| 299 |
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! prochlorocococcus can't use NO3 |
| 300 |
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vmaxi(iNO3,jp) = 0.0 _d 0 |
| 301 |
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! but have higher NH4 affinity |
| 302 |
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vmaxi(iNH4,jp) = vmaxi(iNH4,jp) * 2.0 _d 0 |
| 303 |
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endif |
| 304 |
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! parameters relating to quota nutrients |
| 305 |
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do io=1,iomax-iChl |
| 306 |
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c EXCRETION |
| 307 |
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if ((io.eq.iCarb.or.io.eq.iNitr.or.io.eq.iPhos) |
| 308 |
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& .and.a_kexc(io).NE.0. _d 0 |
| 309 |
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& .and.ae_kexc(io).NE.0. _d 0) then |
| 310 |
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p = darwin_random(myThid) |
| 311 |
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call invnormal(a,p, |
| 312 |
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& log10(a_kexc(io)),log10(ae_kexc(io))*error) |
| 313 |
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call invnormal(b,p,b_kexc(io),be_kexc(io)*error) |
| 314 |
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kexc(io,jp) = 10. _d 0**a * biovol(jp) ** b |
| 315 |
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else |
| 316 |
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kexc(io,jp) = 0. _d 0 |
| 317 |
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endif |
| 318 |
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if (io.ne.iCarb) then |
| 319 |
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c MINIMUM QUOTA |
| 320 |
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p = darwin_random(myThid) |
| 321 |
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call invnormal(a,p, |
| 322 |
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& log10(a_qmin(io)),log10(ae_qmin(io))*error) |
| 323 |
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call invnormal(b,p,b_qmin(io),be_qmin(io)*error) |
| 324 |
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qmin(io,jp) = 10. _d 0**a * biovol(jp) ** b |
| 325 |
benw |
1.4 |
! & * (autotrophy(jp) ** tau2 |
| 326 |
|
|
! & + heterotrophy(jp) ** tau2) |
| 327 |
jahn |
1.1 |
c MAXIMUM QUOTA |
| 328 |
|
|
p = darwin_random(myThid) |
| 329 |
|
|
call invnormal(a,p, |
| 330 |
|
|
& log10(a_qmax(io)),log10(ae_qmax(io))*error) |
| 331 |
|
|
call invnormal(b,p,b_qmax(io),be_qmax(io)*error) |
| 332 |
|
|
qmax(io,jp) = 10. _d 0**a * biovol(jp) ** b |
| 333 |
|
|
endif |
| 334 |
|
|
enddo |
| 335 |
|
|
#ifdef SQUOTA |
| 336 |
|
|
! Silicate parameters to zero for non-diatoms |
| 337 |
|
|
qmin(iSili,jp) = qmin(iSili,jp) * float(use_Si(jp)) |
| 338 |
|
|
qmax(iSili,jp) = qmax(iSili,jp) * float(use_Si(jp)) |
| 339 |
|
|
#endif |
| 340 |
benw |
1.4 |
#ifdef ALLOWPFT |
| 341 |
jahn |
1.1 |
c Zooplankton have approximately Redfieldian N:C ratio |
| 342 |
|
|
if (pft(jp).eq.6) then |
| 343 |
|
|
qmin(iNitr,jp) = 0.0755 _d 0 |
| 344 |
|
|
qmax(iNitr,jp) = 0.1510 _d 0 |
| 345 |
|
|
endif |
| 346 |
benw |
1.4 |
#endif |
| 347 |
jahn |
1.1 |
c PREFERENCE FUNCTION |
| 348 |
|
|
! assign grazing preference according to predator/prey radius ratio |
| 349 |
|
|
do jp2=1,npmax ! jp2 denotes prey |
| 350 |
benw |
1.4 |
#ifdef ALLOWPFT |
| 351 |
jahn |
1.1 |
if (heterotrophy(jp).gt.0. _d 0.and.pft(jp2).ne.6) then |
| 352 |
benw |
1.4 |
#else |
| 353 |
|
|
if (heterotrophy(jp).gt.0. _d 0) then |
| 354 |
|
|
#endif |
| 355 |
jahn |
1.1 |
prd_pry = biovol(jp) / biovol(jp2) |
| 356 |
|
|
graz_pref(jp,jp2) = |
| 357 |
benw |
1.4 |
#ifdef SWITCHING |
| 358 |
benw |
1.2 |
& 1.0 _d 0 |
| 359 |
jahn |
1.1 |
#else |
| 360 |
benw |
1.4 |
& exp(-log(prd_pry/pp_opt(jp))**2 / (2*pp_sig(jp)**2)) |
| 361 |
jahn |
1.1 |
#endif |
| 362 |
|
|
if (graz_pref(jp,jp2).lt.1. _d -4) then |
| 363 |
|
|
graz_pref(jp,jp2)=0. _d 0 |
| 364 |
|
|
endif |
| 365 |
|
|
assim_graz(jp,jp2) = ass_eff |
| 366 |
|
|
else |
| 367 |
|
|
graz_pref(jp,jp2) = 0. _d 0 |
| 368 |
|
|
endif |
| 369 |
|
|
enddo |
| 370 |
|
|
c |
| 371 |
|
|
c.......................................................... |
| 372 |
|
|
c generate phyto Temperature Function parameters |
| 373 |
|
|
c....................................................... |
| 374 |
|
|
phytoTempCoeff(jp) = tempcoeff1 |
| 375 |
|
|
phytoTempExp1(jp) = tempcoeff3 |
| 376 |
|
|
phytoTempExp2(jp) = tempcoeff2_small |
| 377 |
|
|
& + (tempcoeff2_big-tempcoeff2_small) |
| 378 |
|
|
& * float(jp-1)/npmaxm1 |
| 379 |
|
|
phytoTempOptimum(jp) = 2. _d 0 |
| 380 |
|
|
phytoDecayPower(jp) = tempdecay |
| 381 |
|
|
|
| 382 |
|
|
c.......................................................... |
| 383 |
|
|
enddo |
| 384 |
|
|
|
| 385 |
|
|
|
| 386 |
|
|
RETURN |
| 387 |
|
|
END |
| 388 |
|
|
#endif /*ALLOW_QUOTA*/ |
| 389 |
|
|
#endif /*ALLOW_DARWIN*/ |
| 390 |
|
|
#endif /*ALLOW_PTRACERS*/ |
| 391 |
|
|
|
| 392 |
|
|
c =========================================================== |
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