feat: add aria2c wrapper

[fgvieira]

Add wrapper for aria2c, since it allows (among others):

• download of several protocols (e.g. HTTP/HTTPS, FTP, SFTP, BitTorrent and Metalink)
• parallel downloads
• automated checksum check
• pre-allocate disk space

QC

• I confirm that:

For all wrappers added by this PR,

• 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),
• all environment.yaml specifications follow the respective best practices,
• the environment.yaml pinning has been updated by running snakedeploy pin-conda-envs environment.yaml on a linux machine,
• 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,
• Snakefiles pass the linting (snakemake --lint),
• Snakefiles are formatted with snakefmt,
• Python wrapper scripts are formatted with black.
• 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).

[fgvieira]

I've included the functionparse_input for testing (used panda since polars creates a conflict with aria2c dependencies), but the idea is to move it to snakemake as a helper function, no? If so, will you do it or should I open a PR?

On another issue, one test is currently disabled since snakemake-storage-plugin-http is not available in the test environment. Should we leave it as-is (to keep the two repos tests separate), or will you enable it?

[johanneskoester]

I've included the functionparse_input for testing (used panda since polars creates a conflict with aria2c dependencies), but the idea is to move it to snakemake as a helper function, no? If so, will you do it or should I open a PR?

On another issue, one test is currently disabled since snakemake-storage-plugin-http is not available in the test environment. Should we leave it as-is (to keep the two repos tests separate), or will you enable it?

Feel free to add snakemake-storage-plugin-http to the test env.
Would be great if you could make a PR that adds both helper functions as a PR to ioutils.py in Snakemake.