Changed flow allele filtering in Mutect2 to work separately on the tumor and the normal samples #5990

Job	Run time
WDL test RUN_VCF_SITE_LEVEL_FILTERING_WDL on cromwell	10m 54s
WDL test RUN_CNV_SOMATIC_WDL on cromwell	24m 29s
check if the environment has privileges	2s
WDL test RUN_M2_WDL on cromwell	18m 55s
WDL test RUN_CNV_GERMLINE_COHORT_WDL on cromwell	10m 45s
Validate script WDLs using womtools	1m 20s
build and push gatk docker to artifacts	13m 7s
Validate generated WDLs using womtools	14m 59s
WDL test RUN_CNV_GERMLINE_CASE_WDL on cromwell	10m 18s
integration build and test Java 17.0.6+10	30m 32s
unit build and test Java 17.0.6+10	17m 36s
cloud build and test Java 17.0.6+10	4m 25s
conda test on docker Java 17.0.6+10	22m 8s
unit test on docker Java 17.0.6+10	20m 10s
variantcalling test on docker Java 17.0.6+10	26m 43s
integration test on docker Java 17.0.6+10	31m 36s
	4h 17m 59s

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