iagomosqueira/abc_tuna

Visual Basic 6.0

abc_tuna

FILES

data/: initial datasets
- sa/: input SS3 files 2022 WPTmT SA
- run.RData: output from base case runs
  - out: SS_output list
  - run: FLStock
  - retro: SS_retrosummaries
- data.RData: list containing

SS3 model structure

1954 - 2020
4 seasons
2 sexes
4 fishing areas
40 fleets, separated by gear, area and quarter
- 23 fishing fleets (code_gear+area_quarter)
  - 1 F1_LL1_Q1
  - 2 F2_LL1_Q2
  - 3 F3_LL1_Q3
  - 4 F4_LL1_Q4
  - 5 F5_LL2_Q1
  - 6 F6_LL2_Q2
  - 7 F7_LL2_Q3
  - 8 F8_LL2_Q4
  - 9 F9_LL3_Q1
  - 10 F10_LL3_Q2
  - 11 F11_LL3_Q3
  - 12 F12_LL3_Q4
  - 13 F13_LL4_Q1
  - 14 F14_LL4_Q2
  - 15 F15_LL4_Q3
  - 16 F16_LL4_Q4
  - 17 F17_DN3
  - 18 F18_DN4
  - 19 F19_PS1
  - 20 F20_Other1
  - 21 F21_Other2
  - 22 F22_Other3
  - 23 F23_Other4
- 17 survey fleets (gear+CPUE+area_quarter)
  - 24 LLCPUE1_Q1
  - 25 LLCPUE1_Q2
  - 26 LLCPUE1_Q3
  - 27 LLCPUE1_Q4
  - 28 LLCPUE2_Q1
  - 29 LLCPUE2_Q2
  - 30 LLCPUE2_Q3
  - 31 LLCPUE2_Q4
  - 32 LLCPUE3_Q1
  - 33 LLCPUE3_Q2
  - 34 LLCPUE3_Q3
  - 35 LLCPUE3_Q4
  - 36 LLCPUE4_Q1
  - 37 LLCPUE4_Q2
  - 38 LLCPUE4_Q3
  - 39 LLCPUE4_Q4
  - 40 DNCPUE4

src

init_pdyn.cpp: generate initial population-per-recruit for ABC simulator.
msy_pdyn.cpp: generate eqm popn for MSY estimation IOTC ABC simulator.
pdyn.cpp: dynamic non-eqm population dynamics for ABC simulator.
pdyn_lfcpue.cpp: generate predicted LF and CPUE

test

test_mdarr.cpp
test_mdclass.cpp

old

mdclass.cpp
abc_pdyn.cpp

include

mdarrays.h
mdarrclass.h

R

abc.R
init_pdyn.R
test.R
test_season.R