Shaojun Xie issues

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                                            Shaojun Xie

rule all or default_target directive not working for included rule files

**Snakemake version**: 8.10.0 **Describe the bug** If `rule all` or `default_target` is `include`d in the Snakefile, snakemake doesn't take `rull all` or the rule with `default_target` **Logs** ``` Building DAG...

bug

stale

Support for DNA methylation signal

Thank you for developing this amazing tool. I am wondering if there is a way to simulate reads with DNA methylation signals. If not, do you have any plan to...