fix: change exit code for unexpected errors

htsinfer/cli.py

@@ -4,6 +4,7 @@
 import argparse
 import logging
 from pathlib import Path
+from traceback import format_exc
 from typing import Dict
 import signal
 import sys
@@ -331,6 +332,11 @@ def main() -> None:
         LOGGER.error('Execution interrupted.')
         sys.exit(128 + signal.SIGINT)
 
+    except Exception as exc:  # pylint: disable=W0703
+        LOGGER.error(f"{exc}")
+        LOGGER.debug(format_exc())
+        sys.exit(2)
+
     # conclude execution
     LOGGER.info("Done")
     sys.exit(hts_infer.state.value)

tests/test_cli.py

@@ -190,6 +190,17 @@ def test_keyboard_interrupt(self, monkeypatch):
             main()
         assert exc.value.code >= 128
 
+    def test_generic_exception(self, monkeypatch):
+        """Test keyboard interrupt."""
+
+        monkeypatch.setattr(
+            'htsinfer.cli.parse_args',
+            RaiseError(exc=Exception),
+        )
+        with pytest.raises(SystemExit) as exc:
+            main()
+        assert exc.value.code == 2
+
 
 def test_main_as_script():
     """Run as script."""