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moritzbuck / mOTUlizer

Utility to analyse a group of closely related MAgs/Genomes/bins/SUBs of more or less dubious origin
GNU General Public License v3.0
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mOTUlize "loses" bins #4

Open emnilsson opened 1 year ago

emnilsson commented 1 year ago

Hi! I'm running mOTUlize 0.3.2 with mOTUlize.py --threads 6 --fnas allbins/*fa -o motu_allbins --checkm allbins_checkm_out.tsv --keep-simi-file and seem to be "losing" bins. I start off with 962 bins, but somewhere between starting and getting the output I lose 208 of the bins. The remaining 754 bins are clustered into 310 mOTUs, and I have no clue what happened. I've also run the same command on a previous set of bins, and then 3 bins were lost (but easy to just "add back"). What could be happening? I have been unable to check the fastani-output because --keep-simi-file doesn't seem to work (do I need to specify an output name?). Thanks for this software!

thr44pw00d commented 1 year ago

Hi, regarding the --keep-simi-file I think yes, you need to specify an output filename after the flag. That worked for me. Don't know though what might have been the reason for the other issue unfortunately...