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MetaPhlAn: Difference between revisions
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|parallel wget ::: http://cmprod1.cibio.unitn.it/biobakery4/metaphlan_databases/mpa_vJan21_CHOCOPhlAnSGB_202103.tar http://cmprod1.cibio.unitn.it/biobakery4/metaphlan_databases/mpa_vJan21_CHOCOPhlAnSGB_202103_marker_info.txt.bz2 http://cmprod1.cibio.unitn.it/biobakery4/metaphlan_databases/mpa_vJan21_CHOCOPhlAnSGB_202103_species.txt.bz2 | |parallel wget ::: http://cmprod1.cibio.unitn.it/biobakery4/metaphlan_databases/mpa_vJan21_CHOCOPhlAnSGB_202103.tar http://cmprod1.cibio.unitn.it/biobakery4/metaphlan_databases/mpa_vJan21_CHOCOPhlAnSGB_202103_marker_info.txt.bz2 http://cmprod1.cibio.unitn.it/biobakery4/metaphlan_databases/mpa_vJan21_CHOCOPhlAnSGB_202103_species.txt.bz2 | ||
}} | }} | ||
Note that this step '''cannot''' be done from compute nodes on most clusters but must be done from a login node. | Note that this step '''cannot''' be done from compute nodes on most clusters but must be done from a login node. | ||
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= Running MetaPhlAn = | = Running MetaPhlAn = | ||
Once the databases | Once the databases have been downloaded and extracted, you can submit a job to compute the database indices. You may edit | ||
according to your needs the following job submission script, | |||
{{File | {{File | ||
|name=metaphlan-job.sh | |name=metaphlan-job.sh | ||