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Welcome to the ofp-sam-flr4mfcl wiki! In these pages we will try to lay out the design and structure of the package. We do not intend to provide a comprehensive description of the code here, but rather to give an overview of the package design along with a number of example scripts to demonstrate functionality.

NOTE: These pages are under development and not all links are currently working.

FLR4MFCL design

Getting Started

Reading and writing objects

Basic read functions are provided for all of the standard MFCL input files (.ini, .frq, .tag files) as well as many, though not all, of the MFCL output files (.par, .rep, ...). A wide range of model configurations and data types can be accommodated by MFCL making the input files highly complex and variable between different assessments. In addition, MFCL is constantly being updated with ever more features such that the format and structure of the input and output files continues to evolve over time. The read and write functions within MFCL are continuously updated to work for the most recent assessments for the key tuna species. Back compatability with earlier input file formats is not guaranteed. Similarly compatability with other assessed species (eg. oceanic whitetip shark) cannot be guaranteed.

library(FLR4MFCL)
ini <- read.MFCLIni("path_to_file/bet.ini")
frq <- read.MFCLFrq("path_to_file/bet.frq")
tag <- read.MFCLTag("path_to_file/bet.tag")