about summary refs log tree commit diff
path: root/scripts/argparse_actions.py
diff options
context:
space:
mode:
authorFrederick Muriuki Muriithi2022-07-29 04:00:41 +0300
committerFrederick Muriuki Muriithi2022-07-29 04:00:41 +0300
commit6b11a267084c131ac7e1be76c4eb602996fd829e (patch)
treeb5003378c4507016a13b9ac38db0e6f53f4d1629 /scripts/argparse_actions.py
parente3622ac213ef6e1be8a38959f7c6ee082c112c95 (diff)
downloadgenenetwork3-6b11a267084c131ac7e1be76c4eb602996fd829e.tar.gz
New script to run sample correlations
* README.md: update mypy's invocation
* scripts/argparse_actions.py: new file - implement custom FileCheck action
  for argparse
* scripts/sample_correlations.py: new file - implement new script to run
  sample correlations in an external process
Diffstat (limited to 'scripts/argparse_actions.py')
-rw-r--r--scripts/argparse_actions.py26
1 files changed, 26 insertions, 0 deletions
diff --git a/scripts/argparse_actions.py b/scripts/argparse_actions.py
new file mode 100644
index 0000000..d1d1bfd
--- /dev/null
+++ b/scripts/argparse_actions.py
@@ -0,0 +1,26 @@
+"Custom actions for argparse"
+from pathlib import Path
+from typing import Any, Union, Sequence, Optional
+from argparse import Action, Namespace, ArgumentError, ArgumentParser
+
+class FileCheck(Action):
+    "Action class to check existence of a given file path."
+
+    def __init__(self, option_strings, dest, **kwargs):
+        "Initialise the FileCheck action class"
+        super().__init__(option_strings, dest, **kwargs)
+
+    def __call__(# pylint: disable=[signature-differs]
+            self, parser: ArgumentParser, namespace: Namespace,
+            values: Union[str, Sequence[Any], None],
+            option_string: Optional[str] = "") -> None:
+        """Check existence of a given file path and set it, or raise an
+        exception."""
+        the_path = str(values or "")
+        the_file = Path(the_path)
+        if not the_file.is_file():
+            raise ArgumentError(
+                self,
+                f"The file '{values}' does not exist or is a folder/directory.")
+
+        setattr(namespace, self.dest, values)