Contaminant screening input -Add trim_only and raw options to --contaminant_screening_input #972

Job	Run time
Get Shards	23s
GPU Test \| singularity \| 1 \| 25.10.4 \| pipeline	20m 54s
GPU Test \| docker \| 1 \| 25.10.4 \| pipeline	20m 58s
GPU Test \| docker \| 2 \| 25.10.4 \| pipeline	16m 3s
GPU Test \| singularity \| 2 \| 25.10.4 \| pipeline	16m 8s
confirm-pass-gpu	5s
Get Shards	23s
confirm-pass-gpu	6s
GPU Test \| singularity \| 1 \| 25.10.4 \| pipeline	20m 54s
GPU Test \| singularity \| 2 \| 25.10.4 \| pipeline	16m 8s
GPU Test \| docker \| 1 \| 25.10.4 \| pipeline	20m 58s
GPU Test \| docker \| 2 \| 25.10.4 \| pipeline	16m 3s
	2h 29m 3s

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