Integrate subworkflows into pipeline #1280

Job	Run time
24.04.2 \| test \| docker	9m 11s
24.04.2 \| nogtf \| docker	7m 28s
24.04.2 \| affy \| docker	8m 46s
24.04.2 \| maxquant \| docker	6m 27s
24.04.2 \| soft \| docker	6m 52s
24.04.2 \| rnaseq_limma \| docker	6m 30s
latest-stable \| test \| docker	11m 22s
latest-stable \| nogtf \| docker	8m 24s
latest-stable \| affy \| docker	8m 59s
latest-stable \| maxquant \| docker	8m 19s
latest-stable \| soft \| docker	6m 2s
latest-stable \| rnaseq_limma \| docker	7m 12s
	1h 35m 32s

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