Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/37/4617b71e7c7e35cad920ecb822a1f0/HCC1395_BL_altera_v3_targets_coding_postQC_hg38.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7e/da8e74d348e8002d5d90f2ffbf36a4/Sig_18_Blood_altera_v3_targets_noncoding_postQC_hg38.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/54/16ddc860cbed370139bdd8093a36cf/Sig_18_Blood.sentieon.insert_size_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/92/e732a6f8461882b4730d59d1a00399/HCC1395_tumor.sentieon.insert_size_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fd/7af1dfbb5973e8f092239bc1ad7909/HCC1395_BL.mosdepth.summary.txt Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c5/e3af6b8bbc95b27b734709ee59b8b8/HCC1395_BL_foresight_clarity_targets_hg38.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0e/ffab1baba27e71fce3b164fa9eda00/HCC1395_BL_altera_v3_targets_postQC_hg38.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e8/d0fa25a6d251e91562b9707ef42b1b/Sig_18_Blood.stats Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/34/68a85b2e63687a7d6a36eaf73fd9bb/HCC1395_tumor_xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_postQC_hg38.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7a/fc6558f6d768e01b64addff37d0c59/HCC1395_BL_FINAL_hotspot_list_07302025_hg38_sorted.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/66/c361039ee2f04042698c6543ccc802/Sig_18_tissue_foresight_clarity_targets_hg38.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/dd/f83f891db185b591c72cf41328c74c/HCC1395_tumor_foresight_clarity_targets_hg38.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1f/2f78a044c678faece5e39b7ada0aa0/HCC1395_tumor.stats Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9b/b32794800c83998886fa8ae215f465/Sig_18_tissue_xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cd/26e3c6a991a7ffc93b8d0760c4198b/Sig_18_tissue.mosdepth.summary.txt Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/39/314a552248727292ecac18ce652c97/Sig_18_tissue.sentieon.insert_size_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/52/62746305740533502014ce918bc3b9/Sig_18_tissue_altera_v3_targets_coding_postQC_hg38.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2e/e1ade7637c93fed371f1e514afe049/Sig_18_tissue_xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_postQC_hg38.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/37/3bc573755e9d122748690811d115b9/Sig_18_tissue_FINAL_hotspot_list_07302025_hg38_sorted.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3d/03269c8f99478e53dfa36452b30a39/HCC1395_tumor.mosdepth.summary.txt Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e9/2a66cdc907326a4cbec07e4e156438/Sig_18_Blood_altera_v3_targets_coding_postQC_hg38.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/26/c47343c9760ed3ce2971ca19110e03/Sig_18_Blood.mosdepth.summary.txt Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f0/e7531e9527984100605a3397ae47aa/HCC1395_tumor_altera_v3_targets_noncoding_postQC_hg38.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/02/6957ae754a18307547109443561fe5/.command.run Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/62/df1b816b9ec8f2c37bd632b6db3a6f/Sig_18_Blood_xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ac/45a44a1c896592e4890c9f165c768a/HCC1395_BL_xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f0/0807b1e43c42fa8d4c0a9f9e9d9f22/Sig_18_tissue_altera_v3_targets_noncoding_postQC_hg38.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/62/c5a67ab25fd36fd65773bfc852a5cd/Sig_18_Blood_foresight_clarity_targets_hg38.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cd/2bf51efbfaee37145b3fc4b3d640dc/Sig_18_tissue_xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f7/cb436f72c44614cadcea4e3cc861f7/Sig_18_Blood_FINAL_hotspot_list_07302025_hg38_sorted.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/02/6957ae754a18307547109443561fe5/.command.sh Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c1/c66e4b243f1379c35e81372eef306c/HCC1395_tumor_xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6e/7f5b7c0860d7dbfeed4b941a2dfb71/HCC1395_BL.stats Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/02/c7c7d7af5300961658db694596c2bc/HCC1395_BL.sentieon.insert_size_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f1/ed28004ff39e316c3677ea5c2c305f/Sig_18_tissue.stats Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/75/5f2b92a25e828b4dc20e9dfb4515c9/HCC1395_tumor_FINAL_hotspot_list_07302025_hg38_sorted.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1e/c5d392329850109d3ac7b4d817b8d8/Sig_18_Blood_xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_postQC_hg38.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/41/5e8ee24541afbf03a0c5fa72612d39/Sig_18_Blood_xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity_footprint.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/23/9086eea2c33de0c3e3bfa007188378/HCC1395_tumor_altera_v3_targets_postQC_hg38.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6f/857c22a7bac423ecf75b919a462a5a/Sig_18_Blood_altera_v3_targets_postQC_hg38.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1a/6ca4c642eb0e77eae7b2fa1fdda643/Sig_18_tissue/Sig_18_tissue_full_basic_stats.tsv Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d8/e1a313ad91df38122a0b9678ef9dcf/HCC1395_tumor_altera_v3_targets_coding_postQC_hg38.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0b/760a5c356c12099afcb7925e9da2a9/HCC1395_BL_xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v3_targets_postQC_hg38.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c1/554e67959d733708c6a1dabf3acdfa/HCC1395_BL/HCC1395_BL_full_basic_stats.tsv Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/4b8b0e52b95350ea3d6ca0c968bed2/HCC1395_tumor_xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f9/dba5e1d44f20a092e37000691fb9ca/HCC1395_BL_altera_v3_targets_noncoding_postQC_hg38.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ac/9bf284bc338b61f669c07639cffa97/HCC1395_BL_xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_AND_foresight_clarity.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/ed20f5c1e245e3789b20afe8fdc457/HCC1395_tumor/HCC1395_tumor_full_basic_stats.tsv Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/30/c6d3312c395f37b25928740ccd6681/Sig_18_tissue_altera_v3_targets_postQC_hg38.sentieon.hs_metrics Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/77/c1e7ba5ac114a2c01d8cf66821c578/Sig_18_Blood/Sig_18_Blood_full_basic_stats.tsv ==> STAGING COMPLETE (50 inputs) Post-dedup QC aggregation complete: 4 samples Tools: samtools, mosdepth, sentieon, seqtool Output: postdedup_qc.json