// TODO nf-core: Once you have added the required tests, please run the following command to build this file:
// nf-core modules test vjdb/hashddeduplicate
nextflow_process {

    name "Test Process VIRJENDB_PREPAREUPDATE"
    script "../main.nf"
    process "VIRJENDB_PREPAREUPDATE"

    tag "vjdb"
    tag "vjdb/prepareupdate"
    tag "virjendb"
    tag "virjendb/prepareupdate"

    test("vjndb update test - fna") {
        when {
            process {
                // TODO - need to upload the testing files, and figure out how to set it in nf-test config file
                """
                input[0] = file('/home/uridavid/Code/vjdb-clustering/' + 'vjdb1_test_new_sequences.fna.gz', checkIfExists: true)
                input[1] = file('/home/uridavid/Code/vjdb-clustering/' + 'vjdb1_merged_reps.fna.gz', checkIfExists: true)
                """
            }
        }

        then {
            assertAll(
                { assert process.success },
               // { assert snapshot(sanitizeOutput(process.out)).match() },
                { assert snapshot(process.out).match() },
                { assert snapshot(process.out.findAll { key, val -> key.startsWith('versions') }).match() }
            )
        }

    }

    test("vjndb update test - fna - stub") {

        options "-stub"

        when {
            process {
                """
                input[0] = file('/home/uridavid/Code/vjdb-clustering/' + 'vjdb1_test_new_sequences.fna.gz', checkIfExists: true)
                input[1] = file('/home/uridavid/Code/vjdb-clustering/' + 'vjdb1_merged_reps.fna.gz', checkIfExists: true)
                """
            }
        }

        then {
            assertAll(
                { assert process.success },
               // { assert snapshot(sanitizeOutput(process.out)).match() }
                { assert snapshot(process.out).match() }
            )
        }

    }

}