LEfSe error "No module named lefse"

I am getting an error for lefse (1/23/2024) that says: Traceback (most recent call last):
File “/galaxy_venv/bin/lefse_format_input.py”, line 5, in
from lefse.lefse_format_input import format_input
ModuleNotFoundError: No module named ‘lefse’

I read in other strings this means LEfSe is under maintenance. When do you think it will be available again?


Hi @Sarah_Robbins

The other questions were mostly for the Biobakery server (previously the Huttenhower lab). The people who run that server host there own forum for question since the tools are slightly different than those hosted at UseGalaxy.org (how this question was tagged).

The Biobakery forum is linked from that servers homepage. If you can’t find it, or are working somewhere else, which public Galaxy server are you working at? Find the URL at the very top of your browser tab.

Xref: Data import LEfSe error: Cannot count lines in file - #9 by jennaj