Fasta output for those classified as euks

[susheelbhanu]

Hi,

I tested this out on a full metagenome (not MAGs) and everything seemed to go well. However, from the documentation I gathered that one could potentially get a fasta output of those classified as euks. Sorry if I misinterpreted that.

Or is this possible?

This is how I ran it

rule eukulele:
    input:
        os.path.join(DATA_DIR, "GL_R3_GL5_UP_3.faa")
    output:
        directory(os.path.join(RESULTS_DIR, "eukulele_output"))
    threads:
        config['threads']
    conda:
        "envs/eukulele.yaml"
    log:
        os.path.join(DATA_DIR, "logs/eukulele.log")
    message:
        "Running Eukaryotic annotation with Eukulele"
    shell:
        "(date && EUKulele --sample_dir $(dirname {input}) -o {output} -m mets && date) &> >(tee {log})"

Thank you!