feat: add configure_step/workflow

[camilovelezr]

To. be merged after #192
This PR:

• Improves error messages when compiling workflows: now the errors that WIC outputs when trying to compile will be shown to users when running Workflow.compile()
• Adds new functions:
  • configure_step(clt_path, config_path):
    A JSON file with configuration values will be used to configure the CLT. For example, /home/omeconverter.cwl is the path to Ome Converter CLT. /home/omeconfig.json looks like:

    {
        "inpDir": "/home/camilovelezr/in",
        "outDir": "/home/camilovelezr/out",
        "filePattern": ".tif",
        "fileExtension": "ome.zarr"
    }

    Running

    from wic.api import configure_step
    ome_step = configure_step("/home/omeconverter.cwl", "/home/omeconfig.json")

    Will perform validation on each of the inputs and return a Step that points to the specified CLT and has the I/O values specified in the JSON file.
  • configure_workflow([clt_path1, clt_path2, ...], [config_path1, config_path2, ...], ...):
    Configure linear Workflow from list of CLT and configuration files.
    This function takes a list of CLT (Command Line Tool) files and a list of configuration files
    and creates a Workflow object. Each CLT file is paired with a corresponding configuration file
    based on their order in the lists. The Workflow object is then returned.

    configure_workflow(clt_list, config_list: list[StrPath],
            name: str,
            path: Union[str, Path] = Path.cwd(),
            compile_workflow: bool = True,
            run: bool = False,
            overwrite: bool = False) -> Workflow:
        Args:
            clt_list (list[StrPath]): A list of paths to CLT files.
            config_list (list[StrPath]): A list of paths to configuration files.
            name (str): The name of the Workflow.
            path (Optional[StrPath]): The path where the Workflow will be created. Defaults to `pathlib.Path.cwd()`.
            compile_workflow (bool): Flag indicating whether to compile the Workflow using WIC. Defaults to True.
            run (bool): Flag indicating whether to run the Workflow after configuration using WIC. Defaults to False.
            overwrite (bool): Flag indicating whether to overwrite existing CLT files in cwl_adapters. Defaults to False.