{
  "command": "bin/day_run produce_sent_align produce_dmd_dedup_cram produce_sentd_snv_vcf produce_alignstats produce_snv_concordances produce_relatedness produce_gatk_contam_estimate produce_site_mix_contam_estimate produce_global_contam_check produce_vep produce_expansionhunter produce_htd_calls produce_metagenomics produce_multiqc_all --config 'aligners=[\"sent\"]' 'dedupers=[\"dmd\"]' 'snv_callers=[\"sentd\"]' 'htd_callers=[\"cyrius\"]' 'multiqc_qc={\"enable_tools\":[\"vep\",\"metagenomics\",\"contam_identity\"]}' -j 200 -p -k --rerun-triggers mtime",
  "completed_at": null,
  "exit_code": null,
  "repo_path": "/fsx/analysis_results/ubuntu/hybonly_ilmn_kitchensink_mounted_20260606T053415Z/daylily-omics-analysis",
  "session_name": "hybonly_ilmn_kitchensink_mounted_20260606T053415Z",
  "started_at": "2026-06-06T05:59:22Z"
}
{
  "command": "bin/day_run produce_sentmm2ont_align produce_alignstats produce_na_dedup_cram -p -j 5 -k --rerun-triggers mtime",
  "completed_at": null,
  "exit_code": null,
  "repo_path": "/fsx/analysis_results/ubuntu/hybonly_ont_alignsort_alignstats_dedupna_live_20260606T074825Z/daylily-omics-analysis",
  "session_name": "hybonly_ont_alignsort_alignstats_dedupna_live_20260606T074825Z",
  "started_at": "2026-06-06T07:48:50Z"
}
DAY-EC activated.
825  i192  192  R  i192-dy-all-10  192  RUNNING  200000M  0:02  1  sentmm2ont_align_sort-ONT-4Coriells-chip2-NA03986-DMPK-chip2-barcode20-chip2-0008-PF-ONT-PROMETHION
823  i192  192  R  i192-dy-all-15  192  RUNNING  200000M  0:03  1  sentmm2ont_align_sort-ONT-4Coriells-chip4-NA03986-DMPK-chip4-barcode20-chip4-0006-PF-ONT-PROMETHION
824  i192  192  R  i192-dy-all-9  192  RUNNING  200000M  0:03  1  sentmm2ont_align_sort-ONT-4Coriells-chip1-NA03986-DMPK-chip1-barcode20-chip1-0008-PF-ONT-PROMETHION
822  i192  192  R  i192-dy-all-4  192  RUNNING  200000M  1:53  1  sentmm2ont_align_sort-ONT-4Coriells-chip1-NA03986-DMPK-chip1-barcode20-chip1-0007-PF-ONT-PROMETHION
821  i192  192  R  i192-dy-all-2  192  RUNNING  200000M  2:13  1  sentmm2ont_align_sort-ONT-4Coriells-chip1-NA03986-DMPK-chip1-barcode20-chip1-0004-PF-ONT-PROMETHION
694  i192  8  R  i192-dy-all-3  8  RUNNING  16000M  49:07  1  haplocheck_vcf_contam_identity-20260526-LH01121-0004-B23WW2NLT4-NA00232-SMN-all-S46-PF-ILMN-NOVASEQ
620  i192  8  R  i192-dy-all-1  8  RUNNING  16000M  50:26  1  haplocheck_vcf_contam_identity-20260526-LH01121-0004-B23WW2NLT4-HG003-c-GIAB-all-S9-PF-ILMN-NOVASEQ
561  i192  8  R  i192-dy-all-5  8  RUNNING  16000M  51:26  1  haplocheck_vcf_contam_identity-20260526-LH01121-0004-B23WW2NLT4-HG003-a-GIAB-all-S7-PF-ILMN-NOVASEQ
487  i192  8  R  i192-dy-all-14  8  RUNNING  16000M  52:50  1  haplocheck_vcf_contam_identity-20260526-LH01121-0004-B23WW2NLT4-HG003-b-GIAB-all-S8-PF-ILMN-NOVASEQ
417  i192  8  R  i192-dy-all-1  8  RUNNING  16000M  55:00  1  haplocheck_vcf_contam_identity-20260526-LH01121-0004-B23WW2NLT4-NA09677-SMN-all-S47-PF-ILMN-NOVASEQ
351  i192  8  R  i192-dy-all-1  8  RUNNING  16000M  57:45  1  haplocheck_vcf_contam_identity-20260526-LH01121-0004-B23WW2NLT4-NA03986-DMPK-all-S48-PF-ILMN-NOVASEQ
256  i192  8  R  i192-dy-all-1  8  RUNNING  16000M  1:02:13  1  haplocheck_vcf_contam_identity-20260526-LH01121-0004-B23WW2NLT4-NA05164-DMPK-all-S49-PF-ILMN-NOVASEQ
