## ----setup, include = FALSE---------------------------------------------------
knitr::opts_chunk$set(
  eval = freesurfer::have_fs(),
  prompt = FALSE,
  message = FALSE,
  warning = FALSE
)
options(freesurfer.verbose = FALSE)


## ----fs_sitrep----------------------------------------------------------------
library(freesurfer)

fs_sitrep()

## ----have_fs_example----------------------------------------------------------
have_fs()

if (have_fs()) {
  print("Freesurfer is installed! Huzzah!")
}

## ----fs_output_example--------------------------------------------------------
get_fs_output()
fs_imgext()

## -----------------------------------------------------------------------------
# Generate a shell command to set up FreeSurfer with the default `bin` directory
get_fs(bin_app = "bin")

# Generate a shell command to include MNI environment setup
# This is important if you plan to use FreeSurfer's MNI tools.
get_fs(bin_app = "mni/bin")

## ----fs_subj_dir_example------------------------------------------------------
fs_subj_dir()