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Add multi-sample lineage calling support to tasks
pangolin_many_samples
andnextclade_many_samples
in tasks_sarscov2.wdl. Updatesarscov2_batch_relineage
workflow to call multi-sample tasks instead of scattering across every genome. Updatesarscov2_illumina_full
to usesarscov2_batch_relineage
instead of scatteringsarscov2_lineages
across every genome.Do not merge yet: sarscov2_batch_relineage seems to be working okay so far, but sarscov2_illumina_full changes have not yet been vetted, esp with column order changes. Test run here. Check outputs with both GP teams before merge.