How to Resolve "Dataset Error" in Galaxy Workflows?

[joseeedanieel]

Hi everyone,

I am relatively new to using Galaxy and I ave been setting up workflows to analyze some genomic data. However;, I keep encountering an error when running a specific workflow step it says something like “Dataset Error: Input format not recognized.”

Here is what I have tried so far :-

Double-checked the input files to ensure they match the required format.
Used the “View Data” option to verify file integrity.
Re-uploaded the dataset to rule out any upload issues.

Despite these steps, the error persists. Could this be due to an issue with the tool parameters or a compatibility problem between workflow steps: ?? Also, is there a way to troubleshoot tool specific errors more effectively within Galaxy: ??

I have searched on the forum for the solution to my query and found this thread https://help.galaxyproject.org/t/troubleshooting-resources-for-errors-or-unexpected-result-flutter-course but still need some more tips and help. I would appreciate any insights or advice from experienced users here. If you need additional details about the workflow or error logs;, let me know !!

Thanks in advance !!

Daniel Jose

[jennaj]

Hi @joseeedanieel

@joseeedanieel

I keep encountering an error when running a specific workflow step it says something like “Dataset Error: Input format not recognized.”

This could be because the input dataset is the wrong format, or it could be empty.

This data was processed by an upstream tool in your workflow? You should be able to use the rerun button for that step directly in the history to see the input and the parameters used. If you try to go ahead and submit that job – what happens? Are you able to submit it? Or is it blocked for some reason?

If you are able to solve this, let us know! And if you need more help you can share that history and we can try to help solve the data issue. Maybe the upstream tool didn’t produce the expected content.

How to share your work is in the banner of this forum. For this question, it would be helpful to share both the history and the workflow that produced the content in that history. You can post both links back as a reply here for feedback.

Thanks!