Error with Humann2_barplot

Microbial community profiling HUMAnN
1

Hi there, I was following the tutorial using the HMP data. For step [ 5.2 Visualizing stratified HUMAnN2 output ], I try to generate a graph using the HumanN2_barplot script, but it keep getting error. Can you let me how to solve the problem? I am running HumanN2 with Galaxy. Error message is attached below. Thank you.

Job Execution and Failure Information

Command Line

humann2_barplot --input ‘/data/dnb02/galaxy_db/files/013/442/dataset_13442964.dat’ --focal-feature ‘METSYN-PWY’ --sort none --last-metadatum ‘STSite’ --focal-metadatum ‘STSite’ --scaling ‘none’ --width ‘4’ --dimensions ‘8’ ‘4’ --output ‘output.png’

stderr

/data/dnb02/galaxy_db/job_working_directory/006/963/6963979/tool_script.sh: line 73: humann2_barplot: command not found

2

Hi there,
I am new to Humann2 and would really appreciate if someone could help me understand the problem of humann2_barplot. I think I did set all the parameters correctly, but it still not work. Just wondering if this is a problem related to the https://usegalaxy.eu/ or the script itself? Is there any other Galaxy server has Humann2 I can try or it would be better to run it locally. Thanks ahead!!!

https://usegalaxy.eu/datasets/11ac94870d0bb33ae0675a9bbc129923/show_params

3

We don’t administer https://usegalaxy.eu/, so I’m afraid I can’t help with debugging problems you’re having there. It looks like they might not have the various helper scripts hooked up properly?

4

Thank you for the reply!
Just wondering if there is any other galaxy server runs Humann2?

5

They just fixed the bug!