fix: prevent name collisions on input parameters

latch_cli/snakemake/workflow.py

@@ -5,6 +5,7 @@
 import typing
 from dataclasses import dataclass
 from pathlib import Path
+from textwrap import dedent
 from typing import (
     Any,
     Dict,
@@ -183,6 +184,17 @@ def snakemake_dag_to_interface(
                         RemoteFile(local_path=x, remote_path=remote_url)
                     )
 
+                # it is possible for two different input files to have the same parameter name
+                # as long as they are defined in different rules. This can lead to name collisions
+                # because we use a global mapping (across all rules) of param_name -> input_file.
+                if param in literals and literals[param].scalar.blob.uri != remote_url:
+                    raise ValueError(dedent(f"""
+                        Name collision detected for {job.name}. The following two input
+                        parameters have the same name but different remote paths:
+                        {param} -> {remote_url}
+                        {param} -> {literals[param].scalar.blob.uri}
+                        """))
+
                 literals[param] = Literal(
                     scalar=Scalar(
                         blob=Blob(