apply command can't apply changes because shell script can't be found where expected

[gabridele]

Summary

Following the Example Walkthrough, within the apply command, which creates a shell script that applies the changes indicated by the user, I noticed that this shell script wasn't successfully executed because it wasn't being found. The machine expects the shell script to be located within the BIDS directory; instead, it gets saved into the current working directory, namely one folder up than expected.

Additional details

• CuBIDS version: 1.1.1 (git cloned latest version as of November 25th)
• Datalad version: 1.1.4

What were you trying to do?

I was trying to run the apply function that is supposed to execute a shell script that creates based on the user input

What did you expect to happen?

I was expecting the command to run the shell script it created to remove certain scans.

What actually happened?

The machine raises an error claiming it didn't find any shell script. This might be because the file got saved one folder up than expected

Reproducing the bug

[tientong98]

Hi @gabridele, thank you very much for reporting the bug! Do you by chance have time to work on a pull request for this? If not, no worries, I can work on it. Thanks again!

[gabridele]

Hi @tientong98, yes! I actually came up with solutions for all the issues I raised recently. I'm planning to test them out before submitting a PR

[tientong98]

That's perfect! Thank you, @gabridele!! I really appreciate that. You probably know this already, but I recently merged 2 PRs, so please pull the latest changes.