Output

Final merged outputs are written to:

• ${params.outdir}/codonanalyzer_results/metrics.txt
• ${params.outdir}/codonanalyzer_results/orf
• ${params.outdir}/codonanalyzer_results/orf.fasta
• ${params.outdir}/codonanalyzer_results/translated.fasta
• ${params.outdir}/codonanalyzer_results/hplot.txt
• ${params.outdir}/codonanalyzer_results/hsummary.txt
• ${params.outdir}/codonanalyzer_results/*.hplot.png
• ${params.outdir}/codonanalyzer_results/per_record/*

Warning

Combined files are concatenated from per-record outputs; if downstream tools require sorting, sort post-pipeline using a stable record identifier.

flowchart LR
    A[Per-record outputs] --> B[GATHER_RESULTS]
    B --> C[Combined outputs]