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biocore / oecophylla

shotgun pipeline
MIT License
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Metaphlan map #118

Closed sjanssen2 closed 6 years ago

sjanssen2 commented 6 years ago

generate a file 'map_metaphlanclade_ncbitaxids.tsv' that maps each of the ~8000 metaphlan2 clades to (sometimes multiple) NCBI taxonomy IDs: python oecophylla/taxonomy/metaphlan2.py

tanaes commented 6 years ago

@sjanssen2 Do you also have the complete file produced by this function that we can add to the metaphlan2 db folder on Barnacle?

sjanssen2 commented 6 years ago

sure I do, since it is the result of the code and I did run some tests :-)

Please double check if you can obtain the same result if you execute my code.

map_metaphlanclade_ncbitaxids.txt

tanaes commented 6 years ago

ok will give a shot!

On Thu, Oct 19, 2017 at 7:51 PM Stefan Janssen notifications@github.com wrote:

sure I do, since it is the result of the code and I did run some tests :-)

Please double check if you can obtain the same result if you execute my code.

map_metaphlanclade_ncbitaxids.txt https://github.com/biocore/oecophylla/files/1400344/map_metaphlanclade_ncbitaxids.txt

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qiyunzhu commented 6 years ago

Looks good to me!

sjanssen2 commented 6 years ago

@tanaes @qiyunzhu is this ready to get merged?

sjanssen2 commented 6 years ago

@tanaes files are renamed now

tanaes commented 6 years ago

Thanks!