Cannot plot LefSe results

Hello ,
I am using LEfSe analysis for my sequencing data. The data is analyzed, but I cannot see the plot of the results.

I am getting this error message:

Traceback (most recent call last):
File “/usr/bin/”, line 11, in
load_entry_point(‘lefse==1.1.2’, ‘console_scripts’, ‘’)()
File “/usr/lib/python3.6/site-packages/lefse-1.1.2-py3.6.egg/lefse/”, line 177, in plot_res
File “/usr/lib/python3.6/site-packages/lefse-1.1.2-py3.6.egg/lefse/”, line 104, in plot_histo_hor
TypeError: slice indices must be integers or None or have an index method


Hi @esilvaherzog

This warning is about an input problem. Does your data meet this formatting criteria? Numbers are integers (whole numbers)?

If that is not enough help, where are your working? Actually The version number of the tool isn’t a match for that server. If working at the Biobakery site, they have a dedicated forum for help. Using that is important since they host unique versions of these tools. I added a tag that points to the instructions in other posts – or you can just find it on the server homepage.

Please share more details if I have any of this wrong.

I checked the data and all the reads are as numbers.
I am running in the Biobakery site, but cannot send messages for help for some reason I am not sure of.

I resolved it .