I am trying to merge my metaphlan3 output files using the command:
merge_metaphlan_tables.py *_profile.txt > merged_abundance_table.txt
This is the error I have:
merge_metaphlan_tables found tables without a header including the database version. Exiting.
Where do I go from here? Thank you!
Hi @jlhaller , I ran into a similar issue; turned out the
*_profile.txt was inadvertently including some non-metaphlan files. I made of fork of metaphlan with some slightly improved logging and error handling. If you clone that and install it (or just replace the merge_metaphlan_tables.py with the one in the repo), it should tell you which file is missing the header. Biobakery team, would this be a helpful PR?