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Add the parameters for fish calculations
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pcinereus committed Jan 26, 2025
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1 change: 1 addition & 0 deletions .gitignore
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*.bak
data
!data/spatial
!data/parameters
output
54 changes: 54 additions & 0 deletions data/parameters/L-W co-effs.csv
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FISH_CODE,A,B
CRO.ALTI,0.0962,2.489
ANY.LEUC,0.0014,3.543
CEP.ARGU,0.0093,3.181
CEP.BOEN,0.0146,3.019
CEP.CYAN,0.0115,3.109
CEP.MICR,0.0115,3.109
CEP.MINI,0.0107,3.114
CEP.UROD,0.0282,2.818
EPI.COIO,0.0099,3.102
EPI.CYAN,0.0111,3.114
EPI.FASC,0.0138,3.041
EPI.FUSG,0.0134,3.057
EPI.MACR,0.0132,3.031
EPI.MERR,0.0158,2.966
EPI.ONGU,0.019,2.928
EPI.QUOY,0.0122,3.053
EPI.SPIL,0.0122,3.053
EPI.TAUV,0.0122,3.053
EPI.UNDU,0.0122,3.053
GNA.AURO,0.018,3.063
LET.ATKI,0.0178,3.057
LET.ERUS,0.0165,3.043
LET.ERYT,0.0165,3.043
LET.HARA,0.017,3.042
LET.MINI,0.0066,3.277
LET.NEBU,0.0187,2.996
LET.OBSO,0.0173,3.026
LET.OLIV,0.0294,2.851
LET.ORNA,0.0165,3.043
LET.RUBR,0.0128,3.108
LET.XANT,0.0201,2.964
MON.GRAN,0.023,3.022
LUT.ADET,0.0071,3.057
LUT.ARGE,0.028,2.844
LUT.BOHA,0.0156,3.059
LUT.CARP,0.0211,2.974
LUT.FLMA,0.0205,2.96
LUT.FULV,0.0211,2.974
LUT.GIBB,0.0131,3.138
LUT.KASM,0.0084,3.247
LUT.LEMN,0.0131,3.138
LUT.LUTJ,0.0146,3.1
LUT.MONO,0.0222,2.913
LUT.QUIN,0.0146,3.1
LUT.RIVU,0.0084,3.26
LUT.RUSS,0.0166,2.978
LUT.SEBA,0.0116,3.152
LUT.VITT,0.0125,3.075
MCR.GROP,0.0147,3.046
PMS.LAEV,0.0059,3.238
PMS.LEOP,0.0118,3.06
PMS.MACU,0.0107,3.086
VAR.LOUT,0.0122,3.079
229 changes: 229 additions & 0 deletions data/parameters/MPA paper trophic groups.csv
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FISH_CODE,Trophic
ACA.ALBI,Planktivores
ACA.AURA,Croppers
ACA.BLOC,Detritivores
ACA.DUSS,Detritivores
ACA.GRAM,Detritivores
ACA.LINE,Farmers
ACA.MATA,Planktivores
ACA.NANS,Croppers
ACA.NCUS,Croppers
ACA.NUDA,Croppers
ACA.OLIV,Detritivores
ACA.PYRO,Croppers
ACA.THOM,Planktivores
ACA.TRIO,Croppers
ACA.XANT,Detritivores
CTE.BINO,Detritivores
CTE.STRI,Detritivores
CTE.GROP,Detritivores
NAS.LITU,Croppers
NAS.TUBE,Croppers
NAS.TONG,Croppers
NAS.UNIC,Croppers
PCT.HEPA,Planktivores
ZAN.CORN,Benthic foragers
ZEB.SCOP,Croppers
ZEB.VELI,Croppers
ACN.POLY,Omnivorous Pomacentridae
AMB.AURE,Planktivores
AMB.CURA,Omnivorous Pomacentridae
AMB.LEUC,Omnivorous Pomacentridae
AMP.AKIN,Omnivorous Pomacentridae
AMP.CHRY,Omnivorous Pomacentridae
AMP.CLAR,Omnivorous Pomacentridae
AMP.MELA,Omnivorous Pomacentridae
AMP.PERC,Omnivorous Pomacentridae
AMP.PERI,Omnivorous Pomacentridae
CHR.ALIS,Planktivores
CHR.ACAR,Planktivores
CHR.AGIL,Planktivores
CHR.AMBO,Planktivores
CHR.APES,Planktivores
CHR.CHRY,Planktivores
CHR.IOME,Planktivores
CHR.LEPI,Planktivores
CHR.LINE,Planktivores
CHR.MARG,Planktivores
CHR.NITI,Planktivores
CHR.RETR,Planktivores
CHR.TERN,Planktivores
CHR.VAND,Planktivores
CHR.WEBE,Planktivores
CHR.XANT,Planktivores
CHR.XANC,Planktivores
CHY.FLAV,Planktivores
CHY.REX,Omnivorous Pomacentridae
CHY.ROLL,Planktivores
CHY.TALB,Planktivores
DAS.ARUA,Planktivores
DAS.MELA,Planktivores
DAS.RETI,Planktivores
DAS.TRIM,Planktivores
DIS.MELA,Farmers
DIS.PERS,Farmers
DIS.PROS,Farmers
DIS.PSEU,Farmers
HGY.PLAG,Farmers
NEG.MELA,Omnivorous Pomacentridae
NEG.NIGR,Farmers
NEG.POLY,Planktivores
NEO.AZYS,Planktivores
NEO.BANK,Planktivores
NEO.CYAN,Planktivores
PCH.RICH,Planktivores
PGY.DICK,Farmers
PGY.JOHN,Farmers
PGY.LACR,Farmers
POM.ADEL,Farmers
POM.AMBO,Omnivorous Pomacentridae
POM.AUST,Omnivorous Pomacentridae
POM.BANK,Farmers
POM.BRAC,Omnivorous Pomacentridae
POM.CHRY,Farmers
POM.COEL,Planktivores
POM.GRAM,Farmers
POM.LEPI,Planktivores
POM.MOLU,Omnivorous Pomacentridae
POM.NAGA,Omnivorous Pomacentridae
POM.PHIL,Planktivores
POM.VAIU,Farmers
POM.WARD,Farmers
PRE.BIAC,Omnivorous Pomacentridae
STE.APIC,Farmers
STE.FASC,Farmers
STE.GASC,Farmers
STE.NIGR,Farmers
BOL.MURI,Excavators
CAL.CARO,Scrapers
CET.BICO,Excavators
CET.OCEL,Excavators
CHS.BLEE,Excavators
CHS.FRON,Excavators
CHS.JAPA,Excavators
CHS.MICR,Excavators
CHS.SORD,Excavators
HIP.LONG,Excavators
SCA.ALTI,Scrapers
SCA.CHAM,Scrapers
SCA.DIMI,Scrapers
SCA.FLAV,Scrapers
SCA.FORS,Scrapers
SCA.FREN,Scrapers
SCA.GHOB,Scrapers
SCA.GLOB,Scrapers
SCA.LONG,Scrapers
SCA.NIGR,Scrapers
SCA.OVIC,Scrapers
SCA.PSIT,Scrapers
SCA.RIVU,Scrapers
SCA.RUBR,Scrapers
SCA.SCHL,Scrapers
SCA.SPIN,Scrapers
CHA.AFAS,Obligate corallivores
CHA.AURI,Benthic foragers
CHA.BARO,Obligate corallivores
CHA.BENN,Obligate corallivores
CHA.CITR,Benthic foragers
CHA.EPHI,Benthic foragers
CHA.FLAV,Benthic foragers
CHA.KLEI,Benthic foragers
CHA.LINE,Benthic foragers
CHA.LUNU,Benthic foragers
CHA.MELO,Benthic foragers
CHA.MERT,Benthic foragers
CHA.MEYE,Obligate corallivores
CHA.ORNA,Obligate corallivores
CHA.PELW,Obligate corallivores
CHA.PLEB,Obligate corallivores
CHA.PUNC,Obligate corallivores
CHA.RAFF,Benthic foragers
CHA.RAIN,Obligate corallivores
CHA.RETI,Obligate corallivores
CHA.SPEC,Benthic foragers
CHA.TLIS,Obligate corallivores
CHA.TTUS,Obligate corallivores
CHA.LUNS,Obligate corallivores
CHA.ULIE,Benthic foragers
CHA.UNIM,Benthic foragers
CHA.VAGA,Benthic foragers
CHM.ROST,Benthic foragers
FOR.FLAV,Benthic foragers
FOR.LONG,Benthic foragers
HYS.POLY,Planktivores
CHE.FASC,Secondary targets
CHE.UNDU,Benthic foragers
CHO.FASC,Secondary targets
COR.GAIM,Benthic foragers
EPB.INSI,Benthic foragers
GOM.VARI,Benthic foragers
HAL.HORT,Benthic foragers
HEM.FASC,Benthic foragers
HEM.MELT,Benthic foragers
CRO.ALTI,Secondary targets
ANY.LEUC,Secondary targets
CEP.ARGU,Secondary targets
CEP.BOEN,Secondary targets
CEP.CYAN,Secondary targets
CEP.MICR,Secondary targets
CEP.MINI,Secondary targets
CEP.UROD,Secondary targets
EPI.CAER,Secondary targets
EPI.COIO,Secondary targets
EPI.CYAN,Secondary targets
EPI.FASC,Secondary targets
EPI.FUSG,Secondary targets
EPI.LANC,Secondary targets
EPI.MACR,Secondary targets
EPI.MERR,Secondary targets
EPI.ONGU,Secondary targets
EPI.QUOY,Secondary targets
EPI.SPIL,Secondary targets
EPI.TAUV,Secondary targets
EPI.UNDU,Secondary targets
GNA.AURO,Secondary targets
LET.ATKI,Secondary targets
LET.ERUS,Secondary targets
LET.ERYT,Secondary targets
LET.HARA,Secondary targets
LET.MINI,Secondary targets
LET.NEBU,Secondary targets
LET.OBSO,Secondary targets
LET.OLIV,Secondary targets
LET.ORNA,Secondary targets
LET.RUBR,Secondary targets
LET.XANT,Secondary targets
MON.GRAN,Secondary targets
LUT.ADET,Secondary targets
LUT.ARGE,Secondary targets
LUT.BOHA,Secondary targets
LUT.CARP,Secondary targets
LUT.FLMA,Secondary targets
LUT.FULV,Secondary targets
LUT.GIBB,Secondary targets
LUT.KASM,Secondary targets
LUT.LEMN,Secondary targets
LUT.LUTJ,Secondary targets
LUT.MONO,Secondary targets
LUT.QUIN,Secondary targets
LUT.RIVU,Secondary targets
LUT.RUSS,Secondary targets
LUT.SEBA,Secondary targets
LUT.VITT,Secondary targets
MCR.GROP,Secondary targets
PMS.AREO,Coral Trout
PMS.LAEV,Coral Trout
PMS.LEOP,Coral Trout
PMS.MACU,Coral Trout
VAR.LOUT,Coral Trout
SIG.ARGE,Croppers
SIG.CANA,Croppers
SIG.CORA,Croppers
SIG.DOLI,Croppers
SIG.FUSC,Croppers
SIG.JAVU,Croppers
SIG.LINE,Croppers
SIG.PMUS,Croppers
SIG.PTUS,Croppers
SIG.PUEL,Croppers
SIG.VULP,Croppers
67 changes: 67 additions & 0 deletions data/parameters/density_table.csv
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FISH_CODE,AREA
ACN.POLY,20
AMB.AURE,20
AMB.CURA,20
AMB.LEUC,20
AMP.AKIN,20
AMP.CHRY,20
AMP.CLAR,20
AMP.MELA,20
AMP.PERC,20
AMP.PERI,20
CHR.ALIS,20
CHR.AMBO,20
CHR.APES,20
CHR.CHRY,20
CHR.IOME,20
CHR.LEPI,20
CHR.LINE,20
CHR.MARG,20
CHR.NITI,20
CHR.RETR,20
CHR.TERN,20
CHR.VAND,20
CHR.WEBE,20
CHR.XANT,20
CHY.FLAV,20
CHY.REX,20
CHY.ROLL,20
CHY.TALB,20
DAS.ARUA,20
DAS.MELA,20
DAS.RETI,20
DAS.TRIM,20
DIS.MELA,20
DIS.PERS,20
DIS.PROS,20
DIS.PSEU,20
HGY.PLAG,20
NEG.MELA,20
NEG.NIGR,20
NEG.POLY,20
NEO.AZYS,20
NEO.BANK,20
NEO.CYAN,20
PCH.RICH,20
PGY.DICK,20
PGY.JOHN,20
PGY.LACR,20
POM.ADEL,20
POM.AMBO,20
POM.AUST,20
POM.BANK,20
POM.BRAC,20
POM.CHRY,20
POM.COEL,20
POM.GRAM,20
POM.LEPI,20
POM.MOLU,20
POM.NAGA,20
POM.PHIL,20
POM.VAIU,20
POM.WARD,20
PRE.BIAC,20
STE.APIC,20
STE.FASC,20
STE.GASC,20
STE.NIGR,20

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