add pipeline_dir to search directories for include statements

[mashehu]

No description provided.

[codecov]

Codecov Report

❌ Patch coverage is 83.33333% with 3 lines in your changes missing coverage. Please review.
✅ Project coverage is 77.83%. Comparing base (c7f861f) to head (c0999d1).
⚠️ Report is 8 commits behind head on dev.

Files with missing lines	Patch %	Lines
nf_core/pipelines/containers_utils.py	83.33%	3 Missing ⚠️

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