# No species identified and empty pathway files created

**URL:** https://forum.biobakery.org/t/no-species-identified-and-empty-pathway-files-created/5136
**Category:** HUMAnN
**Created:** [April 13, 2023, 2:39pm UTC](https://forum.biobakery.org/t/no-species-identified-and-empty-pathway-files-created/5136 "2023-04-13T14:39:23Z")
**Posts on this page:** 1
**Showing post:** 6

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### Author: ![Carlos\_Henriquez](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/carlos_henriquez/32/2949_2.png) [@Carlos\_Henriquez](https://forum.biobakery.org/u/Carlos_Henriquez)
#### Post date: [July 24, 2024, 2:21pm UTC](https://forum.biobakery.org/t/no-species-identified-and-empty-pathway-files-created/5136/6 "2024-07-24T14:21:31Z")

</div>

Hello,

I received this message  
humann v3.7  
MetaPhlAn version 3.0.9 (17 May 2021)  
Bowtie2 version 2.2.3

home/kbrokordt/miniconda3/lib/python3.12/site-packages/humann/quantify/MinPath12hmp.py:804: SyntaxWarning: invalid escape sequence ‘\d’  
m = re.match(‘\[1\]+(?P\d+)’, aline)  
/home/kbrokordt/miniconda3/lib/python3.12/site-packages/humann/quantify/MinPath12hmp.py:804: SyntaxWarning: invalid escape sequence ‘\d’  
m = re.match(‘\[2\]+(?P\d+)’, aline)  
Output files will be written to: /home/kbrokordt/camaron/Pruebas/nonrRNA/OUTOUT

Running metaphlan …

Total species selected from prescreen: 0

Selected species explain 0.00% of predicted community composition

No species were selected from the prescreen.  
Because of this the custom ChocoPhlAn database is empty.  
This will result in zero species-specific gene families and pathways.

Aligning to reference database: uniref90\_201901b\_full.dmnd

Total bugs after translated alignment: 1  
unclassified: 5557552 hits

Total gene families after translated alignment: 14628

Unaligned reads after translated alignment: 97.5684571395 %

Any suggestion

* * *

1. ^\d 

2. ^\d

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