Usage

There have been cases where metaphlan tries to download the latest database before running. The latest database mpa_v30_CHOCOPhlAn_201901 is available at $METAPHLAN_BOWTIE2_DB, therefore, to skip the database update step, the following needs to be specified in the script:

--index mpa_v30_CHOCOPhlAn_201901 --bowtie2db $METAPHLAN_BOWTIE2_DB