Changed flow allele filtering in Mutect2 to work separately on the tumor and the normal samples #5162

Job	Run time
build and push gatk docker to artifacts	14m 32s
check if the environment has privileges	1s
Validate generated WDLs using womtools	14m 0s
Validate script WDLs using womtools	44s
WDL test RUN_CNV_GERMLINE_COHORT_WDL on cromwell	25m 11s
WDL test RUN_CNV_GERMLINE_CASE_WDL on cromwell	26m 51s
WDL test RUN_CNV_SOMATIC_WDL on cromwell	24m 37s
WDL test RUN_M2_WDL on cromwell	16m 55s
WDL test RUN_VCF_SITE_LEVEL_FILTERING_WDL on cromwell	13m 7s
Java 17.0.6+10 build and test cloud	3m 21s
Java 17.0.6+10 build and test integration	27m 56s
Java 17.0.6+10 build and test unit	17m 16s
Java 17.0.6+10 test on docker integration	33m 47s
Java 17.0.6+10 test on docker unit	18m 43s
Java 17.0.6+10 test on docker variantcalling	27m 47s
Java 17.0.6+10 test on docker conda	24m 5s
	4h 48m 53s

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