Merge pull request #8 from VariantEffect/dict-dev

add target validation and variant creation from dicts
VariantEffect · Jan 6, 2021 · 9b2929b · 9b2929b
2 parents e296fc4 + 7edd9ff
commit 9b2929b
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Showing 5 changed files with 484 additions and 188 deletions.
diff --git a/docs/conf.py b/docs/conf.py
@@ -28,7 +28,12 @@
 # Add any Sphinx extension module names here, as strings. They can be
 # extensions coming with Sphinx (named 'sphinx.ext.*') or your custom
 # ones.
-extensions = ["sphinx.ext.autodoc", "sphinx.ext.napoleon", "sphinx.ext.intersphinx", "sphinx.ext.autosectionlabel",]
+extensions = [
+    "sphinx.ext.autodoc",
+    "sphinx.ext.napoleon",
+    "sphinx.ext.intersphinx",
+    "sphinx.ext.autosectionlabel",
+]
 
 # Add any paths that contain templates here, relative to this directory.
 templates_path = ["_templates"]

diff --git a/mavehgvs/position.py b/mavehgvs/position.py
@@ -37,7 +37,7 @@ class VariantPosition:
 
     """
 
-    __fullmatch = re.compile(pos_with_groups, flags=re.ASCII).fullmatch
+    fullmatch = re.compile(pos_with_groups, flags=re.ASCII).fullmatch
     """Callable[[str, int, int], Optional[Match[str]]]: fullmatch callable for parsing positions
     
     Returns an :py:obj:`re.Match` object if the full string matches one of the position groups in :py:data:`pos_extended`.
@@ -53,7 +53,7 @@ def __init__(self, pos_str: str) -> None:
 
         """
         try:
-            gdict = VariantPosition.__fullmatch(pos_str).groupdict()
+            gdict = VariantPosition.fullmatch(pos_str).groupdict()
         except AttributeError:
             raise MaveHgvsParseError(f"invalid variant position string '{pos_str}'")