rvk2icesxml: rvk2icesxml

In einarhjorleifsson/fishvise: Miscalaneous set of functions related fish stock assessment work

Description

Converts data.frame to ices xml format for standard graphs. The function is a brute force coding and does not have any error checking on the input data.

Usage

rvk2icesxml(rby, FishStock, AssessmentYear, RecruitmentAge, FAge, rba,
  UnitsWeigths = "tonnes", UnitsRecruits = "millions",
  TypeLandings = "official", Flim, Fpa, Blim, Bpa, FMSY, MSYBtrigger,
  Fmanagement, Bmanagement, RecruitmentLength, Custom1, Custom2, Custom3,
  Custom4, Custom5, VersionStock, NameSystemProducedFile)

Arguments

rby	A data frame containing stock summary data. Column names besides the Year column which is required can be any of the following: Year - Year Low_Recruitment - XX Recruitment - XXX High_Recruitment - XXX Low_TBiomass - XXX TBiomass - XXX High_TBiomass - XXX Low_SSB - XXX SSB - XXX High_SSB - XXX Catches - XXX Landings - XXX Discards - XXX IBC - XXX Unallocated_Removals - XXX YieldSSB - XXX Low_F - XXX F - XXX High_F - XXX F_Landings - XXX F_Discards - XXX F_IBC - XXX F_Unallocated - XXX SoP - XXX Custom1 - XXX Custom2 - XXX Custom3 - XXX Custom4 - XXX Custom5 - XXX
FishStock	A character vector containing stock "name". e.g. "cod-farp", "cod-iceg".
AssessmentYear	An integer representing assessment year
RecruitmentAge	An integer representing recruitment age
FAge	A character vector containg reference fishing moralites, e.g. "F5-10"
rba	\codedata.frame containing yield per recruit input. If missing it is ignored. If supplied required column names are: Age - age M - natural mortality Mat - maturity PF - partial fishing mortality before spawning PM - partial natural mortality before spawning WeSt - spawning stock weights F - selection pattern WeCa - catch weights Fd - selection pattern of discards WeCad - discard catch weights Fi - selection pattern of industrial waste WeCai - industrial catch weights
Flim	A numeric value
Fpa	A numeric value
Blim	A numeric value
Bpa	A numeric value
FMSY	A numeric value
MSYBtrigger	A numeric value
Fmanagement	A numeric value
Bmanagement	A numeric value
RecruitmentLength	A numeric value
UnitsWeigths	A character, expect any one of "Kilograms", "Tonnes", "Thousand tonnes", "Million tonnes"
UnitsRecruits	A character, expect any one of "Thousands", "Millions", "Billions"
TypeLandings	A character, e.g. "official", "ices estimates".
Custom1	XXX
Custom2	XXX
Custom3	XXX
Custom4	XXX
Custom5	XXX
VersionStock	XXX
NameSystemProducedFile	XXX

einarhjorleifsson/fishvise documentation built on May 16, 2019, 1:26 a.m.