Minor updates (#25)

* Accept options as list

* Add snakemake report option

src/nbis/snakemake.py

@@ -184,6 +184,17 @@ def directory_option():
     )
 
 
+def report_option() -> Callable[[FC], FC]:
+    """Add snakemake report option"""
+    func = click.option(
+        "--report",
+        help=("generate snakemake report"),
+        is_flag=True,
+        default=False,
+    )
+    return func
+
+
 def format_snakemake_help(smkfile, *, default=None):
     """Return docstring from snakemake file.
 

src/nbis/wrappers.py

@@ -21,8 +21,10 @@ def run(self, *args, **kwargs):
         raise NotImplementedError
 
 
-def snakemake(targets=None, options=None, snakefile=None):
+def snakemake(*, targets=None, options=None, snakefile=None):
     """Run snakemake workflows."""
+    if isinstance(options, list):
+        options = " ".join(options)
     cmdlist = [
         "snakemake",
         f"{'-s ' + str(snakefile) if snakefile else ''}",