## ONT
Executing: snakemake --profile=/fsx/analysis_results/ubuntu/hybonly_ont_kitchensink_mounted_20260606T053415Z/daylily-omics-analysis/config/day_profiles/slurm produce_alignstats produce_sentdont_snv_vcf produce_snv_concordances produce_relatedness produce_vep produce_multiqc_all --config multiqc_qc={"enable_tools":["vep"]} -p -j 5 -k
Building DAG of jobs...
## ILMN
Executing: snakemake --profile=/fsx/analysis_results/ubuntu/hybonly_ilmn_kitchensink_mounted_20260606T053415Z/daylily-omics-analysis/config/day_profiles/slurm 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
Building DAG of jobs...
Creating conda environment workflow/envs/somalier.yaml...
Creating conda environment workflow/envs/alignstats_v0.2.yaml...
Creating conda environment workflow/envs/peddy_v0.1.yaml...
Creating conda environment workflow/envs/site_mix_contam_v0.1.yaml...
Creating conda environment workflow/envs/haplocheck_v0.1.yaml...
Creating conda environment workflow/envs/fastqc_v0.1.yaml...
Creating conda environment workflow/envs/gatkcontam_v0.1.yaml...
