some fixes related to scaffold and ccs

[cokelaer]

No description provided.

[coveralls]

Pull Request Test Coverage Report for Build 17656670417

Details

• 1 of 3 (33.33%) changed or added relevant lines in 1 file are covered.
• No unchanged relevant lines lost coverage.
• Overall coverage increased (+37.0%) to 72.683%

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Changes Missing Coverage	Covered Lines	Changed/Added Lines	%
sequana_pipelines/lora/main.py	1	3	33.33%

Totals
Change from base Build 17400008781:	37.0%
Covered Lines:	298
Relevant Lines:	410

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💛 - Coveralls