From f69e54db58ad207784496dc81a2a2c5bb2634cae Mon Sep 17 00:00:00 2001 From: Martin Reuter Date: Wed, 20 Mar 2024 22:01:00 +0100 Subject: [PATCH] Update FLAGS.md --- doc/overview/FLAGS.md | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/doc/overview/FLAGS.md b/doc/overview/FLAGS.md index 86c59673..17747191 100644 --- a/doc/overview/FLAGS.md +++ b/doc/overview/FLAGS.md @@ -1,4 +1,4 @@ -# FastSurfer_Flags +# FastSurfer Flags Next, you will need to select the `*fastsurfer-flags*` and replace `*fastsurfer-flags*` with your options. Please see the Examples below for some example flags. The `*fastsurfer-flags*` will usually include the subject directory (`--sd`; Note, this will be the mounted path - `/output` - for containers), the subject name/id (`--sid`) and the path to the input image (`--t1`). For example: @@ -54,4 +54,4 @@ In the following, we give an overview of the most important options, but you can * `--py`: Command for python, used in both pipelines. Default: python3.10 * `--conformed_name`: Name of the file in which the conformed input image will be saved. Default location: \$SUBJECTS_DIR/\$sid/mri/orig.mgz * `--ignore_fs_version`: Switch on to avoid check for FreeSurfer version. Program will terminate if the supported version (see recon-surf.sh) is not sourced. Can be used for testing dev versions. -* `-h`, `--help`: Prints help text \ No newline at end of file +* `-h`, `--help`: Prints help text