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Documentation inconsistency with <code>referencing</code> package concerning validation via schemas

Status: Open.

#3963 In snakemake/snakemake;

· sof202 opened on Feb 5, 2026

Switch dependency <code>reretry</code>

bugSomething isn't workingSomething isn't working

Status: Open.

#3959 In snakemake/snakemake;

· fgvieira opened on Feb 4, 2026

Rules fail when both using singularity/apptainer and storage plugins

bugSomething isn't workingSomething isn't working

Status: Open.

#3958 In snakemake/snakemake;

· BEFH opened on Feb 4, 2026

The dry run should handle the environments also based on actual execution flow like it handles the rules

bugSomething isn't workingSomething isn't working

Status: Open.

#3954 In snakemake/snakemake;

· rohan-ibn-tariq opened on Jan 31, 2026

InputFunctionException silently ignored

bugSomething isn't workingSomething isn't working

Status: Open.

#3953 In snakemake/snakemake;

· victorlin opened on Jan 30, 2026

Local imports incompatible with submodules

bugSomething isn't workingSomething isn't working

Status: Open.

#3951 In snakemake/snakemake;

· coroa opened on Jan 30, 2026

--cleanup-metadadta does not work outside of pre-determined snakefile paths

bugSomething isn't workingSomething isn't working

Status: Open.

#3943 In snakemake/snakemake;

· taehyounpark opened on Jan 28, 2026

test_1331 is hanging on Darwin (MacOS)

bugSomething isn't workingSomething isn't working

Status: Open.

#3939 In snakemake/snakemake;

· sarahec opened on Jan 26, 2026

Allow <code>envvars</code> on rule specification level

enhancementNew feature or requestNew feature or request

Status: Open.

#3938 In snakemake/snakemake;

· euronion opened on Jan 26, 2026

Error when refering to a meta-wrapper on a custom gitlab instance

bugSomething isn't workingSomething isn't working

Status: Open.

#3937 In snakemake/snakemake;

· julienpontabry opened on Jan 22, 2026

Option --profile incompatible with [targets ...]

bugSomething isn't workingSomething isn't working

Status: Open.

#3934 In snakemake/snakemake;

· dariober opened on Jan 20, 2026

add some tips and tricks for profile usage to the docs

documentationImprovements or additions to documentationImprovements or additions to documentation

Status: Open.

Task

#3932 In snakemake/snakemake;

· dlaehnemann opened on Jan 20, 2026