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hildebra / lotus2

Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.
http://lotus2.earlham.ac.uk/
GNU General Public License v3.0
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RDP mv file #55

Closed johnrandallia closed 5 months ago

johnrandallia commented 6 months ago

I'm running lotus2 mostly with the default settings, but for the RDPclassifier I get an error in the following line

systemL "mv $outdir/hierachy_cnt.tax $outdir/cnadjusted_hierachy_cnt.tax $extendedLogD/;";

Lotus2 stops because cnadjusted_hierachy_cnt.tax does not exist.

When looking through the output folder the hierachy_cnt.tax file is located in a subfolder (ExtraFiles).

If I paste cnadjusted_hierachy_cnt.tax in the output folder (before lotus2 executes RDP) it works.

hildebra commented 5 months ago

Hey John, I changed the latest lotus2 version that should no longer try to copy files that are no longer there. Can you check if this version still crashes for you? best, Falk

johnrandallia commented 5 months ago

Its working now, Thank you!