:orphan: .. _ahelp_tedana_wrapper.py: ***************** tedana_wrapper.py ***************** .. contents:: :local: | usage: /home/afniHQ/afni.build/pub.dist/bin/linux_ubuntu_16_64/tedana_wrapper.py [-h] -input DSETS [DSETS ...] -TE ms [ms ...] -mask MASK [-help] [-results_dir DIR] [-prefix PREFIX] [-save_all] [-prep_only] [-tedana_prog TEDANA_PROG] [-tedana_is_exec] [-ted_label LABEL] [-tedana_opts 'OPTS'] Overview ======== .. code-block:: none Internal wrapper to run tedana.py. Usually only run from within afni_proc.py. Caveats ======= .. code-block:: none Nearly all of the tedana.py options will be the defaults unless the user specifies them with the -tedana_prog argument. See the help from tedana.py for valid options. Example ======= .. code-block:: none tedana_wrapper.py -TE 11 22.72 34.44 \ -mask masked_bandit+tlrc \ -input echo_01+tlrc echo_02+tlrc echo_03+tlrc \ -tedana_opts "--initcost=tanh --conv=2.5e-5 --kdaw=10" Options ======= .. code-block:: none Required arguments: -input DSETS [DSETS ...] 4D dataset for each echo. -TE ms [ms ...] Echo time (ms) for each echo. -mask MASK Mask in same space/grid as the input datasets. tedana arguments: -prep_only Do not run tedana.py, stop at 3dZcat. -tedana_prog TEDANA_PROG Path and name of the version of tedana.py that will be run.Default is meica.libs/tedana.py in the afni binaries directory. -tedana_is_exec Run 'tedana.py' rather than 'python tedana.py'. -ted_label LABEL Suffix for output folder. Adds suffix like TED.LABEL (NOT A PATH) -tedana_opts 'OPTS' Additional options to pass to tedana.py. (In quotes) Example: '--initcost=tanh --conv=2.5e-5' Optional arguments: -h, --help show this help message and exit -help Show this help. -results_dir DIR Folder to be created for all outputs. Default [./Bunnymen]. -prefix PREFIX Prefix for dataset names. Default [Bunnymen]. -save_all Save intermediate datasets. Default is to save only the 3dZcat stacked dataset (and tedana stuff) Justin Rajendra circa 02/2018 I hope this will be useful for someone... Keep on keeping on!