Downloading: s3://natera-platform-sandbox/platform-users/sgreer/pipeline-output/sarek_tools_a77_snv_indel__380c4714--20260524-002943/variant_calling/snv_indel/1029_7Y1-T1-TDNA-1_23FC2GLT4_s16_vs_1029_7Y1-N1-BDNA-1_2375WFLT3_s16/1029_7Y1-T1-TDNA-1_23FC2GLT4_s16_vs_1029_7Y1-N1-BDNA-1_2375WFLT3_s16.snv_indel.phased.vep.final.vcf.gz Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4a/e2d4eda65b9bf699de126af87bf735/.command.sh Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4a/e2d4eda65b9bf699de126af87bf735/.command.run ==> STAGING COMPLETE (3 inputs) Lines total/split/joined/realigned/skipped: 48941/0/0/0/0