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csmiller / EMIRGE

EMIRGE reconstructs full length ribosomal genes from short read sequencing data.
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emirge_makedb.py add regex to allow for Silva `SSURef_N[Rr]99_tax...` #41

Open mlhoggard opened 4 years ago

mlhoggard commented 4 years ago

Hi there,

I'm new to using EMIRGE, and not sure if this is still supported, but running emirge_makedb.py I ran into the issue that it was by default expecting the SILVA file to be ...SSURef_Nr99_tax..., whereas in the current version it is ...SSURef_NR99_tax....

I modified the code to simply search for NR, and it appears to have run as expected, but perhaps it could be good to add a regex in there to search for either NR or Nr.

Cheers, Mike.