# Exome sequencing tutorial issue with GEMINI

**URL:** <https://help.galaxyproject.org/t/exome-sequencing-tutorial-issue-with-gemini/6040>\
**Category:** usegalaxy.org.au support\
**Tags:** variant-analysis, snpeff\
**Created:** [May 27, 2021, 5:29am UTC](https://help.galaxyproject.org/t/exome-sequencing-tutorial-issue-with-gemini/6040 "2021-05-27T05:29:09Z")\
**Posts on this page:** 4\
**Page:** 1

<div class="post-metadata">

**Author:** ![Sarah\_Harvey](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/sarah_harvey/32/2283_2.png) [@Sarah\_Harvey](https://help.galaxyproject.org/u/Sarah_Harvey)\
**Post date:** [May 27, 2021, 5:29am UTC](https://help.galaxyproject.org/t/exome-sequencing-tutorial-issue-with-gemini/6040/1 "2021-05-27T05:29:09Z")

</div>

Once I get to the step using the GEMINI load tool I am unable to continue as the output of the SNPEff eff step is unavailable. Help please!

Thanks,  
Sarah

---

<div class="post-metadata">

**Author:** ![Flow](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/flow/32/211_2.png) [@Flow](https://help.galaxyproject.org/u/Flow)\
**Post date:** [May 28, 2021, 10:20am UTC](https://help.galaxyproject.org/t/exome-sequencing-tutorial-issue-with-gemini/6040/2 "2021-05-28T10:20:06Z")

</div>

Dear @Sarah_Harvey,  
We cannot clearly say what went wrong with your data analysis. Can you please either make an error report, or post the error message here, or share your history. Than we can help you better.

Have a nice day and best wishes,  
Florian

---

<div class="post-metadata">

**Author:** ![Marta\_Vila](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/marta_vila/32/2498_2.png) [@Marta\_Vila](https://help.galaxyproject.org/u/Marta_Vila)\
**Post date:** [June 3, 2021, 9:25am UTC](https://help.galaxyproject.org/t/exome-sequencing-tutorial-issue-with-gemini/6040/3 "2021-06-03T09:25:29Z")

</div>

Hello!  
One of my students has experienced something similar. We are following the Exome-seq tutorial ([Hands-on: Exome sequencing data analysis for diagnosing a genetic disease / Exome sequencing data analysis for diagnosing a genetic disease / Variant Analysis](https://galaxyproject.github.io/training-material/topics/variant-analysis/tutorials/exome-seq/tutorial.html)) and this student could not proceed with the GEMINI LOAD step:

### Creating a GEMINI database from a variants dataset

1. **GEMINI load** tool with

- param-file _“VCF dataset to be loaded in the GEMINI database”_ : the output of **SnpEff eff** etc.

As “his” GEMINI LOAD could not load the vcf\_bgzip file (see picture attached)

 ![Galaxy](https://us1.discourse-cdn.com/flex020/uploads/galaxy/original/2X/8/8004fdc8b9f8948ed1f9595da3cc6d4ad26e5945.png)

Any hint on what could be happening?  
Thanks a lot.  
Best,  
Marta

---

<div class="post-metadata">

**Author:** ![David](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/david/32/7031_2.png) [@David](https://help.galaxyproject.org/u/David)\
**Post date:** [June 3, 2021, 8:57pm UTC](https://help.galaxyproject.org/t/exome-sequencing-tutorial-issue-with-gemini/6040/4 "2021-06-03T20:57:14Z")

</div>

Welcome, @Marta_Vila!  
Can you check the datatype of dataset 40? Also, can you show us the `Output format` parameter used to generate it?