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Build and Test GATK 4

Update dependencies to address security vulnerabilities, and add a security scanner to build.gradle #3493

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Update dependencies to address security vulnerabilities, and add a security scanner to build.gradle

Update dependencies to address security vulnerabilities, and add a security scanner to build.gradle #3493

Run time

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Job Run time
check if the environment has privileges
1s
Validate script WDLs using womtools
2m 3s
build and push gatk docker to artifacts
23m 2s
Validate generated WDLs using womtools
14m 2s
WDL test RUN_CNV_GERMLINE_COHORT_WDL on cromwell
27m 18s
WDL test RUN_CNV_GERMLINE_CASE_WDL on cromwell
27m 47s
WDL test RUN_CNV_SOMATIC_WDL on cromwell
27m 16s
WDL test RUN_M2_WDL on cromwell
20m 14s
WDL test RUN_CNN_WDL on cromwell
19m 33s
WDL test RUN_VCF_SITE_LEVEL_FILTERING_WDL on cromwell
16m 41s
Java 17.0.6+10 build and test cloud
15m 28s
Java 17.0.6+10 build and test integration
31m 40s
Java 17.0.6+10 build and test unit
20m 36s
Java 17.0.6+10 test on docker integration
36m 36s
Java 17.0.6+10 test on docker unit
27m 37s
Java 17.0.6+10 test on docker variantcalling
33m 0s
Java 17.0.6+10 test on docker conda
30m 43s
6h 13m 37s