# BamLeftAlign error unable to find fasta index -- use "fasta" version of genome or natively indexed genome

**URL:** <https://help.galaxyproject.org/t/bamleftalign-error-unable-to-find-fasta-index-use-fasta-version-of-genome-or-natively-indexed-genome/1595>\
**Category:** Uncategorized\
**Tags:** custom-genome, galaxy-local, data-manager, picard\_markduplicates\
**Created:** [June 21, 2019, 5:02pm UTC](https://help.galaxyproject.org/t/bamleftalign-error-unable-to-find-fasta-index-use-fasta-version-of-genome-or-natively-indexed-genome/1595 "2019-06-21T17:02:47Z")\
**Posts on this page:** 3\
**Page:** 2

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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:** [July 17, 2019, 4:30pm UTC](https://help.galaxyproject.org/t/bamleftalign-error-unable-to-find-fasta-index-use-fasta-version-of-genome-or-natively-indexed-genome/1595/21 "2019-07-17T16:30:16Z")

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> [@AlexaDean](#):
>
> Database/Build

This is an optional input. You can try either way – I haven’t seen any reported problems about it and it is used all the time by others. Or leave it blank and keep it simple. This is your own server so you can set it up any way you want.

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**Author:** ![AlexaDean](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/alexadean/32/2054_2.png) [@AlexaDean](https://help.galaxyproject.org/u/AlexaDean)\
**Post date:** [July 18, 2019, 7:13pm UTC](https://help.galaxyproject.org/t/bamleftalign-error-unable-to-find-fasta-index-use-fasta-version-of-genome-or-natively-indexed-genome/1595/22 "2019-07-18T19:13:54Z")

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Hey,

Just to finish this thread, the duplicate file was causing the issue with BamLeftAlign. Re-installing galaxy and being more careful with creating DBKey and indexes, and confirming there was no duplicates in Data Tables worked, and I was able to run BamLeftAlign successfully

Thanks again for your help!

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<div class="post-metadata">

**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:** [July 18, 2019, 7:21pm UTC](https://help.galaxyproject.org/t/bamleftalign-error-unable-to-find-fasta-index-use-fasta-version-of-genome-or-natively-indexed-genome/1595/23 "2019-07-18T19:21:54Z")

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Super, glad that worked out and thanks for posting back! 🙂

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