run_tests.sh

#!/usr/bin/env bash

failed=

which bids-validator

if bids-validator --help | grep -q Description; then
    VARIANT="schema"
else
    VARIANT="legacy"
fi

for i in $(ls -d */ | grep -v node_modules); do
    echo -n "Validating dataset $i: "

    if [ -f ${i%%/}/.SKIP_VALIDATION ]; then
        echo "skipping validation"
        continue
    fi

    # Set the VALIDATOR_ARGS environment variable to pass additional arguments to the 
    # validator.
    CMD="bids-validator ${i%%/} $VALIDATOR_ARGS"

    # Use default configuration unless overridden
    if [[ ! ( -f ${i%%/}/.bids-validator-config.json || $CMD =~ /--config/ ) ]]; then
        CMD="$CMD --config $PWD/${VARIANT}config.json"
    fi

    # Ignore NIfTI headers except for synthetic dataset
    if [ $i != "synthetic/" ]; then
        CMD="$CMD --ignoreNiftiHeaders"
    else
        echo "validating NIfTI headers. "
    fi

    echo "Running " $CMD

    $CMD || failed+=" $i"
done
if [ -n "$failed" ]; then
    echo "Datasets failed validation: $failed"
    exit 1
fi