oxo-flow graph

Output the workflow DAG in DOT format for visualization.

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Usage

oxo-flow graph <WORKFLOW>

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Arguments

Argument	Description
<WORKFLOW>	Path to the .oxoflow workflow file

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Options

Option	Short	Description
--verbose	-v	Enable debug-level logging

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Examples

Print DOT to stdout

oxo-flow graph pipeline.oxoflow

Render to PNG with Graphviz

oxo-flow graph pipeline.oxoflow | dot -Tpng -o dag.png

Render to SVG

oxo-flow graph pipeline.oxoflow | dot -Tsvg -o dag.svg

Render to PDF

oxo-flow graph pipeline.oxoflow | dot -Tpdf -o dag.pdf

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Output

digraph workflow {
    rankdir = TB;
    node [shape=box, style="rounded,filled", fillcolor="#e8f4f8"];
    "trim_reads" -> "align";
    "align" -> "sort_bam";
    "sort_bam" -> "mark_duplicates";
    "mark_duplicates" -> "call_variants";
}

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Notes

• Output is in Graphviz DOT format
• Requires Graphviz (dot command) to render images — install with your package manager: apt install graphviz, brew install graphviz, or conda install graphviz
• Nodes represent rules, edges represent dependencies
• The graph direction is top-to-bottom (rankdir = TB)