broadinstitute/viral-pipelines: v2.5.21.0

What's Changed

• Add optional run_fastqc parameter to skip FastQC/MultiQC steps by @dpark01 in https://github.com/broadinstitute/viral-pipelines/pull/618
• Add optional resource overrides to multiqc_from_bams and allowNestedInputs to bams_multiqc by @dpark01 in https://github.com/broadinstitute/viral-pipelines/pull/619
• assemble_denovo_metagenomic optimization by @dpark01 in https://github.com/broadinstitute/viral-pipelines/pull/620
• Add run_rmdup option and optimize single-bam handling in classification workflows by @dpark01 in https://github.com/broadinstitute/viral-pipelines/pull/621
• Fix resource allocation issues in downsample and multiqc tasks by @dpark01 in https://github.com/broadinstitute/viral-pipelines/pull/622
• bump viral-core 2.5.17 to 2.5.18 by @dpark01 in https://github.com/broadinstitute/viral-pipelines/pull/623
• viral-assemble 2.5.16.0 to 2.5.18.0 by @dpark01 in https://github.com/broadinstitute/viral-pipelines/pull/624
• fix SIGPIPE exit code 141 in scaffold task by @dpark01 in https://github.com/broadinstitute/viral-pipelines/pull/625
• Improve rmdup_ubam memory handling for large samples by @dpark01 in https://github.com/broadinstitute/viral-pipelines/pull/626
• Upgrade to viral-core 2.5.20 with optimized BAM filtering by @dpark01 in https://github.com/broadinstitute/viral-pipelines/pull/627
• Integrate bbnorm normalization and optimize resource allocation by @dpark01 in https://github.com/broadinstitute/viral-pipelines/pull/628
• Skip indel realignment for large BAMs in align_reads task by @dpark01 in https://github.com/broadinstitute/viral-pipelines/pull/629

Full Changelog: https://github.com/broadinstitute/viral-pipelines/compare/v2.5.16.0...v2.5.21.0