Added separate param for setting qval threshold for pathway analysis #1126

Job	Run time
Test workflow parameters (test)	8m 27s
Run pipeline with test data (23.04.0)	3m 5s
Test workflow parameters (test_full)	4m 41s
Test workflow parameters (test_contrast_matrix)	2m 51s
Run pipeline with test data (latest-everything)	3m 3s
Test workflow parameters (test_contrast_list)	2m 40s
Test workflow parameters (test_no_multiqc)	2m 41s
Test workflow parameters (test_relevel)	2m 47s
Test workflow parameters (test_smrnaseq)	2m 43s
Test workflow parameters (test_star_rsem)	20m 4s
Test workflow parameters (test_star_salmon)	4m 35s
Test workflow parameters (test_use_vst)	2m 23s
Test workflow parameters (test_batcheffect)	2m 52s
Test workflow parameters (test_custom_gmt)	3m 42s
	1h 6m 34s

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