# Error while trying to run ampliseq in Azure Batch

**URL:** https://community.seqera.io/t/error-while-trying-to-run-ampliseq-in-azure-batch/2191
**Category:** Ask for help
**Tags:** azure, azure-batch
**Created:** [June 16, 2025, 8:23am UTC](https://community.seqera.io/t/error-while-trying-to-run-ampliseq-in-azure-batch/2191 "2025-06-16T08:23:40Z")
**Posts on this page:** 1
**Page:** 1

<div class="post-metadata">

### Author: ![cunhaandre](https://dub1.discourse-cdn.com/flex013/user_avatar/community.seqera.io/cunhaandre/32/1850_2.png) [@cunhaandre](https://community.seqera.io/u/cunhaandre)
#### Post date: [June 16, 2025, 8:23am UTC](https://community.seqera.io/t/error-while-trying-to-run-ampliseq-in-azure-batch/2191/1 "2025-06-16T08:23:40Z")

</div>

Hello,

I posted my issue in the ampliseq Slack channel, and they recommended I post it here instead, as it might be related to Azure Batch processing.

I’m getting this error when I try to run ampliseq in Azure Batch. It seems to happen when the DADA2 tasks start.

```auto
ERROR ~ For input string: "61INFO: Scanning...
INFO: Any empty folders will not be processed, because source and/or destination doesn't have full folder support

Job 0baa3b5a-2f3e-cb43-5d26-f2e67f78ac19 has started
Log file is located at: /mnt/batch/tasks/workitems/job-7f884577273ba6e84faa-NFCORE_AMPLISEQ_AMPLISEQ_DADA2_PREPRO/job-1/nf-a6c316e34da08d48108df4f623ad9556/wd/.azcopy_log/0baa3b5a-2f3e-cb43-5d26-f2e67f78ac19.log

0.0 %, 0 Done, 0 Failed, 1 Pending, 0 Skipped, 1 Total, INFO: azcopy: A newer version 10.29.1 is available to download

0.0 %, 0 Done, 0 Failed, 1 Pending, 0 Skipped, 1 Total, 

Job 0baa3b5a-2f3e-cb43-5d26-f2e67f78ac19 summary
Elapsed Time (Minutes): 0.0333
Number of File Transfers: 1
Number of Folder Property Transfers: 0
Total Number of Transfers: 1
Number of Transfers Completed: 1
Number of Transfers Failed: 0
Number of Transfers Skipped: 0
TotalBytesTransferred: 93
Final Job Status: Completed"

 -- Check script '/home/azureuser/.nextflow/assets/nf-core/ampliseq/subworkflows/local/dada2_preprocessing.nf' at line: 61 or see '.nextflow.log' file for more details
ERROR ~ Pipeline failed. Please refer to troubleshooting docs: https://nf-co.re/docs/usage/troubleshooting

 -- Check '.nextflow.log' file for details
-[nf-core/ampliseq] Pipeline completed with errors-

```

I’m also attaching here my .nextflow.log file.

Thank you!  
[nextflow.log](https://community.seqera.io/uploads/short-url/hgOdHWC8qfRuwfUQyWZ9v33TNC4.log) (138.0 KB)