# NOT getting to run MetaPhlAn

**URL:** <https://forum.biobakery.org/t/not-getting-to-run-metaphlan/5883>\
**Category:** MetaPhlAn\
**Created:** [September 5, 2023, 8:54pm UTC](https://forum.biobakery.org/t/not-getting-to-run-metaphlan/5883 "2023-09-05T20:54:51Z")\
**Posts on this page:** 2\
**Page:** 1

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**Author:** ![sekhwal](https://avatars.discourse-cdn.com/v4/letter/s/b38774/32.png) [@sekhwal](https://forum.biobakery.org/u/sekhwal)\
**Post date:** [September 5, 2023, 8:54pm UTC](https://forum.biobakery.org/t/not-getting-to-run-metaphlan/5883/1 "2023-09-05T20:54:51Z")

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Hi,  
I am trying to run MetaPhlAn 3.0, but I am not getting to run it. It is showing the following error. I created conda environment and installed MetaPhlAn using pip, downloaded the database (metaphlan --install --bowtie2db bowtie2db/) and add in my environment PATH.  
run command:

metaphlan assembly.fasta --input\_type fasta \> M25.txt

Thanks!

–error  
No MetaPhlAn BowTie2 database found (–index option)!  
Expecting location bowtie2db

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<div class="post-metadata">

**Author:** ![aitor.blancomiguez](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/aitor.blancomiguez/32/86_2.png) [@aitor.blancomiguez](https://forum.biobakery.org/u/aitor.blancomiguez)\
**Post date:** [September 22, 2023, 2:34pm UTC](https://forum.biobakery.org/t/not-getting-to-run-metaphlan/5883/2 "2023-09-22T14:34:49Z")

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Hi @sekhwal you should specify the parameter --bowtie2db bowtie2db/ as you installed the database in a custom directory