The bioBakery help forum

LEfSe error making plot with data containing only 2 classes

Hi all,

I’m getting an error when using the last step of the LEfSe galaxy module ( Plot LEfSe results). Error text posted below

Traceback (most recent call last):
File “/shed_tools/”, line 151, in
else: plot_histo_hor(params[‘output_file’],params,data,len(data[‘cls’]) == 2)
File “/shed_tools/”, line 54, in plot_histo_hor
if bcl: data[‘rows’].sort(key=lambda ab: fabs(float(ab[3]))*(cls.index(ab[2])2-1))
File “/shed_tools/”, line 54, in
if bcl: data[‘rows’].sort(key=lambda ab: fabs(float(ab[3]))
ValueError: invalid literal for float(): 3wo

I’ve encountered the same error before, but that was due to having more than 2 classes in the data. This set only has 2, and otherwise worked for a different subset that I entered just a few minutes prior.

Any help would be great, thank you so much!


Apologies for the late reply. Would it be possible for you to provide us your input file?