# HUMAnN Workflow Error

**URL:** <https://help.galaxyproject.org/t/humann-workflow-error/17281>\
**Category:** usegalaxy.eu support\
**Tags:** tool-help, microgalaxy, humann\
**Created:** [January 12, 2026, 1:41pm UTC](https://help.galaxyproject.org/t/humann-workflow-error/17281 "2026-01-12T13:41:35Z")\
**Posts on this page:** 4\
**Page:** 1

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**Author:** ![zpho3nix](https://avatars.discourse-cdn.com/v4/letter/z/91b2a8/32.png) [@zpho3nix](https://help.galaxyproject.org/u/zpho3nix)\
**Post date:** [January 12, 2026, 1:41pm UTC](https://help.galaxyproject.org/t/humann-workflow-error/17281/1 "2026-01-12T13:41:35Z")

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Hi,

Please provide support troubleshooting this error. Here is a link to my

 ![1000048527](https://us1.discourse-cdn.com/flex020/uploads/galaxy/original/2X/1/1ee9b2942f5b4a419241e9aed386736e674586ef.jpeg)

workflow:[Galaxy](https://usegalaxy.eu/u/shelbyseq/w/fall-2025-pd-microbiome-abridged)

Thanks,

BB

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**Author:** ![zpho3nix](https://avatars.discourse-cdn.com/v4/letter/z/91b2a8/32.png) [@zpho3nix](https://help.galaxyproject.org/u/zpho3nix)\
**Post date:** [January 15, 2026, 3:07pm UTC](https://help.galaxyproject.org/t/humann-workflow-error/17281/2 "2026-01-15T15:07:44Z")

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Bump. Still need help resolving issues with HUMAn databases. Metaphlan also produced a critical error.

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**Author:** ![jennaj](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/jennaj/32/27_2.png) [@jennaj](https://help.galaxyproject.org/u/jennaj)\
**Post date:** [January 23, 2026, 11:21pm UTC](https://help.galaxyproject.org/t/humann-workflow-error/17281/3 "2026-01-23T23:21:49Z")

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Hi @zpho3nix

I think this prior Q&A answer will answer your protocol question as well. Please give it a review and let us know what you think! 🙂

> [@HUMAnN fails due to MetaPhlAn database mismatch on usegalaxy.eu](https://help.galaxyproject.org/t/humann-fails-due-to-metaphlan-database-mismatch-on-usegalaxy-eu/16501/2):
>
> Hello @sri_microbiome To incorporate HUMAnN with MetaPhlan, please try following the protocol outlined in this tutorial and associated workflows! graduation_cap [Hands-on: Metatranscriptomics analysis using microbiome RNA-seq data / Metatranscriptomics analysis using microbiome RNA-seq data / Microbiome](https://training.galaxyproject.org/training-material/topics/microbiome/tutorials/metatranscriptomics/tutorial.html) The reads are prepared, then sent through both tool pipelines independently, then the results from each are merged together after. This is what allows the reference data sources to work together. Hope this helps! slight_smile

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**Author:** ![paulzierep](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/paulzierep/32/3968_2.png) [@paulzierep](https://help.galaxyproject.org/u/paulzierep)\
**Post date:** [June 22, 2026, 2:49pm UTC](https://help.galaxyproject.org/t/humann-workflow-error/17281/4 "2026-06-22T14:49:56Z")

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Update:

Currently, the latest combo of Metaphlan and HUMAnN working on EU are:  
Metaphlan: toolshed.g2.bx.psu.edu/repos/iuc/metaphlan/metaphlan/4.1.1+galaxy4  
DB: MetaPhlAn clade-specific marker genes (mpa\_vJun23\_CHOCOPhlAnSGB\_202403)

together with

HUMAnN: toolshed.g2.bx.psu.edu/repos/iuc/humann/humann/3.9+galaxy0  
DB Nuc.: Full ChocoPhlAn for HUManN 2023  
DB Prot.: Full UniRef90 for HUManN 2023

According to the biobakery folks, this is also the latest supported combo: [Metaphlan 4 using with Humann3.9 - #6 by Singeun - HUMAnN - The bioBakery help forum](https://forum.biobakery.org/t/metaphlan-4-using-with-humann3-9/8428/6)