Refactored CLI naming

pyproject.toml

@@ -13,8 +13,7 @@ requires-python = ">=3.11"
 description = "A tool to rapidly fetch fetch MLST profiles given sequences for various diseases."
 
 [project.scripts]
-automlst = "automlst.cli.root:cli"
-nsbdiagtk = "automlst.cli.root:cli"
+automlst = "automlst.cli.root:run"
 
 [tool.pyright]
 extraPaths = ["src"]

src/automlst/cli/root.py

@@ -71,7 +71,7 @@ parser.add_argument(
 )
 
 
-def cli():
+def run():
     args = parser.parse_args()
     gen_strings = aggregated.aggregate_sequences(args.fastas, args.abifs)
     os.makedirs(args.out, exist_ok=True)
@@ -83,4 +83,4 @@ def cli():
 
 
 if __name__ == "__main__":
-    cli()
+    run()