address #52 to remove stderr print bug

gbouras13 · Nov 7, 2023 · 0c1ca2d · 0c1ca2d
1 parent 63f6a1b
commit 0c1ca2d
Showing 1 changed file with 1 addition and 2 deletions.
diff --git a/src/dnaapler/utils/external_tools.py b/src/dnaapler/utils/external_tools.py
@@ -46,14 +46,13 @@ def _build_command(tool: str, input: str, output: str, params: str) -> List[str]
 
     def run(self) -> None:
         with open(self.out_log, "w") as stdout_fh, open(self.err_log, "w") as stderr_fh:
-            print(f"Command line: {self.command_as_str}", file=stderr_fh)
             logger.info(f"Started running {self.command_as_str} ...")
             self._run_core(self.command, stdout_fh=stdout_fh, stderr_fh=stderr_fh)
             logger.info(f"Done running {self.command_as_str}")
 
     @staticmethod
     def _run_core(command: List[str], stdout_fh, stderr_fh) -> None:
-        subprocess.check_call(command, stdout=stdout_fh, stderr=stderr_fh)
+        subprocess.call(command, stdout=stdout_fh, stderr=stderr_fh)
 
     @staticmethod
     def run_tools(