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there is a test case which covers any introduced changes,
input: and output: file paths in the resulting rule can be changed arbitrarily,
either the wrapper can only use a single core, or the example rule contains a threads: x statement with x being a reasonable default,
rule names in the test case are in snake_case and somehow tell what the rule is about or match the tools purpose or name (e.g., map_reads for a step that maps reads),
wherever possible, command line arguments are inferred and set automatically (e.g. based on file extensions in input: or output:),
all fields of the example rules in the Snakefiles and their entries are explained via comments (input:/output:/params: etc.),
stderr and/or stdout are logged correctly (log:), depending on the wrapped tool,
temporary files are either written to a unique hidden folder in the working directory, or (better) stored where the Python function tempfile.gettempdir() points to (see here; this also means that using any Python tempfile default behavior works),
the meta.yaml contains a link to the documentation of the respective tool or command,
Conda environments use a minimal amount of channels, in recommended ordering. E.g. for bioconda, use (conda-forge, bioconda, nodefaults, as conda-forge should have highest priority and defaults channels are usually not needed because most packages are in conda-forge nowadays).
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Description
QC
For all wrappers added by this PR,
input:andoutput:file paths in the resulting rule can be changed arbitrarily,threads: xstatement withxbeing a reasonable default,map_readsfor a step that maps reads),environment.yamlspecifications follow the respective best practices,input:oroutput:),Snakefiles and their entries are explained via comments (input:/output:/params:etc.),stderrand/orstdoutare logged correctly (log:), depending on the wrapped tool,tempfile.gettempdir()points to (see here; this also means that using any Pythontempfiledefault behavior works),meta.yamlcontains a link to the documentation of the respective tool or command,Snakefiles pass the linting (snakemake --lint),Snakefiles are formatted with snakefmt,