Support different gnomad files for mutect2 and pileup #14
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Contributor
LKress
commented
Jun 14, 2024
LKress
commented
- Separate gnomad files for germline filtering in MUTECT2 (gnomad_af_only_hg38) and contamination estimation in PILEUP_SUMMARIES (small_exac_common_3) to avoid Java heap out of memory error
priesgo
approved these changes
Jun 14, 2024
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I suspect for the tests to pass, you may need to merge the latest merged PR from master into this branch, as it updated to Java 11. |
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It would be a good moment to update all GATK dependencies. Also, if I remember right, there were two similar, but still different GATK versions. |
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