run_check_fs_cmd

Checks whether an output filename exists before a command
has run, prints and runs the command, and then checks the output from the
result.

Wrapper functions that interface with 'Freesurfer'
<https://surfer.nmr.mgh.harvard.edu/>, a powerful and
commonly-used 'neuroimaging'
software, using system commands. The goal is to be able to interface with
'Freesurfer' completely in R, where you pass R objects of class 'nifti',
implemented by package 'oro.nifti', and the function executes an 'Freesurfer'
command and returns an R object of class 'nifti' or necessary output.

John Muschelli

freesurfer

Wrapper Functions for 'Freesurfer'

Athanasia Mo Mowinckel

run_check_fs_cmd function

<dl><dt>cmd</dt>
<dd>Command to be run</dd>
<dt>outfile</dt>
<dd>Output file to be produced</dd>
<dt>verbose</dt>
<dd>print diagnostic messages</dd></dl>

Arguments

Run and Check a Freesurfer Command — run_check_fs_cmd

<dl>

<dt>cmd</dt>
<dd>Command to be run</dd>


<dt>outfile</dt>
<dd>Output file to be produced</dd>


<dt>verbose</dt>
<dd>print diagnostic messages</dd>

</dl>

run_check_fs_cmd: Run and Check a Freesurfer Command

Description

Usage

Value

Arguments

See Also