[Adding Datalad to BIDS dir] Shell commands to add Datalad subdatasets #cohenlab #shell #datalad #BIDS

BIDS_to_datalad.sh

#!/bin/bash
# in study dir:

# Create superdataset
datalad create -c text2git --force

for i in `ls -d sub-*`; do 
    if [ ! -d "${i}/.git" ]; then
       	# Create and register the subdataset
        datalad create -c text2git --force -d . $i
    fi
    pushd $i
		if [[ `git log --oneline | grep "Instruct annex to add text files to Git"` ]]; then 
        	echo "procedure cfg_text2git already run"
        else
           	datalad run-procedure cfg_text2git
        fi

		if [ ! -z "$(git status --porcelain)" ]; then 
            # Uncommitted changes
            datalad save
        else 
            # Working directory clean
            echo "$i is all set"
        fi
    popd
done
datalad save