DLMtool (version 5.2)

OMdoc: Generate OM Documentation Report

Description

Generate OM Documentation Report

Usage

OMdoc(OM = NULL, rmd.source = NULL, overwrite = FALSE, out.file = NULL,
  inc.plot = TRUE, render = TRUE, output = "html_document",
  openFile = TRUE, quiet = FALSE, dir = NULL, ...)

Arguments

OM

An object of class 'OM' or the name of an OM xlsx file

rmd.source

Optional. Name of the source.rmd file corresponding to the 'OM'. Default assumption is that the file is '[e-mail]'

overwrite

Logical. Should existing files be overwritten?

out.file

Optional. Character. Name of the output file. Default is the same as the text file.

inc.plot

Logical. Should the plots be included?

render

Logical. Should the document be compiled? May be useful to turn off if there are problems with compililing the Rmd file.

output

Character. Output file type. Default is 'html_document'. 'pdf_document' is available but may require additional software and have some formatting issues.

openFile

Logical. Should the compiled file be opened in web browser?

quiet

TRUE to supress printing of the pandoc command line.

dir

Optional file path to read the xlsx and rmd files. Default is getwd()

...

Optional additional named arguments provided to runMSE

Value

Creates a Rmarkdown file and compiles a HTML report file in the working directory.

Examples

# NOT RUN {
OMinit('myOM', templates=list(Stock='Herring', Fleet='Generic_Fleet', Obs='Generic_Obs',
Imp='Perfect_Imp'), overwrite=TRUE)
myOM <- XL2OM('myOM.xlsx')
OMdoc(myOM)
# }