When snakemake is manually cancelled the workflow remains as running

[fgypas]

Describe the bug
When a user manually kills (CTRL+C) a pipeline the process in panoptes stays forever as running

Expected behavior
There are two solutions

• The server periodically checks for workflows that are not updated (e.g. more than two days) and marks them as Cancellation or Error
• The ideal solution would be that snakemake sends a signal before the CTRL+C takes place with the message Cancellation. I am not sure if this is possible though.

[dafentoulis]

How can we reproduce this? @fgypas
For the moment, I'm running the workflow and I kill it with CTRL+C as suggested but the UI turns the workflow's status into "error".

[fgypas]

I think that @drekoumis added a fix for this at some point. @drekoumis Do you remember the commit/pull request?
This is not completely fixed though, because when you kill the snakemake process with kill (e.g. kill -9 <process-id>) then it gets stack as running on the panoptes side. @dafentoulis Can you try this?

[dafentoulis]

I think that @drekoumis added a fix for this at some point. @drekoumis Do you remember the commit/pull request?
This is not completely fixed though, because when you kill the snakemake process with kill (e.g. kill -9 <process-id>) then it gets stack as running on the panoptes side. @dafentoulis Can you try this?

I managed to reproduce it this way. Thank you. Indeed, manually cancelling with CTRL+C is not a problem anymore.