...
- Create an empty folder (e.g., LinuxShare\temp)
If you are running within Linux and don't need Windows, then create a folder (termed "directory" in Linux) wherever you want.
- Copy the file there FSL-compatible file to the new folder (optional, rename to something simple, if the original file name is cxumbersomcumbersome)
- Within Linux, open a terminal
- Move the current directory to the empty folder, e.g.: [user@localhost temp]$ cd /mnt/hgfs/LinuxShare/temp
The command "pwd" will tell you the current directory.
- Run FIRST on that file, e.g.:, [user@localhost temp]$ run$ run_first_all -i CON5015 -o CON5015
- Wait several minutes; if the process is successful, you will see multiple files (see below)
- Open the T1 (CON5015.nii.gz in the example below), open the segmentations (CON5015_all_fast_firstseg.nii.gz below), and check segmentations ("Yoke" mricron instances).
...