added patch command for subworkflows

[ctuni]

Related to issue: #1891

Is there a straightforward way to test this?

[github-actions]

This PR is against the master branch ❌

• Do not close this PR
• Click Edit and change the base to dev
• This CI test will remain failed until you push a new commit

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Hi @ctuni,

It looks like this pull-request is has been made against the ctuni/tools master branch.
The master branch on nf-core repositories should always contain code from the latest release.
Because of this, PRs to master are only allowed if they come from the ctuni/tools dev branch.

You do not need to close this PR, you can change the target branch to dev by clicking the "Edit" button at the top of this page.
Note that even after this, the test will continue to show as failing until you push a new commit.

Thanks again for your contribution!

[codecov]

Codecov Report

Attention: Patch coverage is 40.00000% with 9 lines in your changes are missing coverage. Please review.

Project coverage is 74.85%. Comparing base (03646eb) to head (31505ab).

❗ Current head 31505ab differs from pull request most recent head cdd9cfb. Consider uploading reports for the commit cdd9cfb to get more accurate results

Files	Patch %	Lines
nf_core/__main__.py	40.00%	9 Missing ⚠️

Additional details and impacted files

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[mashehu]

for testing you can do similar things to https://github.com/nf-core/tools/blob/master/tests/modules/patch.py