Executes Robust Brain Extraction

robex(infile, outfile = tempfile(fileext = ".nii.gz"), verbose = TRUE,
  ...)

Arguments

infile

Input filename

outfile

Output skull-stripped file

verbose

print diagnostic messages

...

arguments to be passed to system

Value

List of result of system command, names of input and output file

Examples

result = robex(infile = "", outfile = "")
#> Warning: path[1]="": No such file or directory
#> Warning: path[1]="": No such file or directory
#> ./ROBEX '/' '/'
#> Warning: ROBEX result indicated an error! Please check resutls.
#> Warning: ROBEX result image not found! Please check resutls.
if (requireNamespace("kirby21.t1")) { infile = kirby21.t1::get_t1_filenames(id = "113", visit = 1) if (is.null(infile)) { infile = "" } if (!file.exists(infile)) { outdir = tempdir() try({kirby21.t1::download_t1_data(outdir = outdir)}) infile = kirby21.t1::get_t1_filenames( id = "113", visit = 1, outdir = outdir) } if (!is.null(infile)) { if (file.exists(infile)) { result = robex(infile = infile) stopifnot(file.exists(result$outfile)) } } }
#> Loading required namespace: kirby21.t1
#> Warning: path[1]="/var/folders/1s/wrtqcpxn685_zk570bnx9_rr0000gr/T//RtmpSgySj6/fileb67919c993c4.nii.gz": No such file or directory
#> ./ROBEX '/Library/Frameworks/R.framework/Versions/3.5/Resources/library/kirby21.t1/visit_1/113/113-01-T1.nii.gz' '/private/var/folders/1s/wrtqcpxn685_zk570bnx9_rr0000gr/T/RtmpSgySj6/fileb67919c993c4.nii.gz'