Troubleshooting an error with Lefse

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1

I keep getting the following error when trying to run LDA effect size (lefse):

“Traceback (most recent call last):
File “/shed_tools/testtoolshed.g2.bx.psu.edu/repos/george-weingart/lefse/a6284ef17bf3/lefse/format_input.py”, line 435, in
feats = numerical_values(feats,params[‘norm_v’])
File “/shed_tools/testtoolshed.g2.bx.psu.edu/repos/george-weingart/lefse/a6284ef17bf3/lefse/format_input.py”, line 174, in numerical_values
feats[k] = [float(val) for val in v]
ValueError: could not convert string to float: MN3207_VT1303”

Any help would be greatly apperciated!

Best regards,
Collin

2

hello @mgcollin19 ,
seems that you have installed the tool from the test-toolshed, try to install the same tool from the, more stable and controlled, toolshed.

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3

Thank you for your help! I was actually using the website based version. @pietro would you be able to provide me with a link for the more stable version you are referencing?

Best regards,
Collin

4

@pietro to follow up on my previous question is the more stable version you referenced website based or do I have to access it another way?

Thank you,
Collin

5

to install the same tool from the main toolshed, if you are the admin of the instance, you can follow the steps present in this tutorial https://galaxyproject.org/admin/tools/add-tool-from-toolshed-tutorial/#open-the-tool-shed.
link to lefte in toolshed link to lefte in toolshed.
Then, having never used it, I don’t know if it will work but it is always better to install the tools from the main toolshed.

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