[2026-05-27 17:42:55] [miniwdl-eks.task] Staging: downloading command and 0 inputs
cp s3://natera-rnd-pltf-dev-miniwdl-scratch-01/work/4e/4e336c9fd9afe1b07b4292753a6b3533/command /tmp/miniwdl_task/command
[2026-05-27 17:42:56] [miniwdl-eks.task] Staging completed (0 inputs, 1ms) s5cmd=workers:256,concurrency:10,cpus:72
+ aws s3 cp s3://natera-platform-sandbox/pipeline-outputs/flowcell-runs/20251022_LH00519_0039_A235GK3LT3/1009-update-cnv-caller-with-specificity-fix_5b02bb_251024165007/bams/3579449684_sv1.bam downloaded.bam
Completed 213.9 KiB/213.9 KiB (1.1 MiB/s) with 1 file(s) remaining
download: s3://natera-platform-sandbox/pipeline-outputs/flowcell-runs/20251022_LH00519_0039_A235GK3LT3/1009-update-cnv-caller-with-specificity-fix_5b02bb_251024165007/bams/3579449684_sv1.bam to ./downloaded.bam
+ aws s3 cp s3://natera-platform-sandbox/pipeline-outputs/flowcell-runs/20251022_LH00519_0039_A235GK3LT3/1009-update-cnv-caller-with-specificity-fix_5b02bb_251024165007/bams/3579449684_sv1.bam.bai downloaded.bam.bai
Completed 256.0 KiB/1.3 MiB (2.2 MiB/s) with 1 file(s) remaining
Completed 512.0 KiB/1.3 MiB (4.1 MiB/s) with 1 file(s) remaining
Completed 768.0 KiB/1.3 MiB (5.9 MiB/s) with 1 file(s) remaining
Completed 1.0 MiB/1.3 MiB (7.6 MiB/s) with 1 file(s) remaining  
Completed 1.2 MiB/1.3 MiB (9.3 MiB/s) with 1 file(s) remaining  
Completed 1.3 MiB/1.3 MiB (9.8 MiB/s) with 1 file(s) remaining  
download: s3://natera-platform-sandbox/pipeline-outputs/flowcell-runs/20251022_LH00519_0039_A235GK3LT3/1009-update-cnv-caller-with-specificity-fix_5b02bb_251024165007/bams/3579449684_sv1.bam.bai to ./downloaded.bam.bai
[2026-05-27 17:42:58] [miniwdl-eks.task] Task finished exit_code=0 (2ms)
cp /tmp/miniwdl_task/stdout.txt s3://natera-rnd-pltf-dev-miniwdl-scratch-01/work/4e/4e336c9fd9afe1b07b4292753a6b3533/stdout.txt
cp /tmp/miniwdl_task/stderr.txt s3://natera-rnd-pltf-dev-miniwdl-scratch-01/work/4e/4e336c9fd9afe1b07b4292753a6b3533/stderr.txt
cp work/downloaded.bam s3://natera-rnd-pltf-dev-miniwdl-scratch-01/work/4e/4e336c9fd9afe1b07b4292753a6b3533/work/downloaded.bam
cp work/downloaded.bam.bai s3://natera-rnd-pltf-dev-miniwdl-scratch-01/work/4e/4e336c9fd9afe1b07b4292753a6b3533/work/downloaded.bam.bai
cp /tmp/miniwdl_task/timing.json s3://natera-rnd-pltf-dev-miniwdl-scratch-01/work/4e/4e336c9fd9afe1b07b4292753a6b3533/timing.json
cp /tmp/miniwdl_task/metrics.json s3://natera-rnd-pltf-dev-miniwdl-scratch-01/work/4e/4e336c9fd9afe1b07b4292753a6b3533/metrics.json
cp /tmp/miniwdl_task/exit_code s3://natera-rnd-pltf-dev-miniwdl-scratch-01/work/4e/4e336c9fd9afe1b07b4292753a6b3533/exit_code
[2026-05-27 17:42:58] [miniwdl-eks.task] Done exit_code=0 (0ms unstage, 3ms total)