From 1f1d2832649717d59c6448156ce4e9b3200deea1 Mon Sep 17 00:00:00 2001
From: Allen Goodman <allen.goodman@icloud.com>
Date: Mon, 13 May 2024 11:29:54 -0400
Subject: [PATCH] cleanup

---
 pyproject.toml                                          | 2 +-
 src/beignet/__init__.py                                 | 6 +++++-
 src/beignet/{operators => }/_needleman_wunsch.py        | 0
 src/beignet/{operators => }/_smith_waterman.py          | 0
 src/beignet/operators/__init__.py                       | 7 -------
 tests/beignet/{operators => }/test__needleman_wunsch.py | 0
 tests/beignet/{operators => }/test__smith_waterman.py   | 0
 7 files changed, 6 insertions(+), 9 deletions(-)
 rename src/beignet/{operators => }/_needleman_wunsch.py (100%)
 rename src/beignet/{operators => }/_smith_waterman.py (100%)
 delete mode 100644 src/beignet/operators/__init__.py
 rename tests/beignet/{operators => }/test__needleman_wunsch.py (100%)
 rename tests/beignet/{operators => }/test__smith_waterman.py (100%)

diff --git a/pyproject.toml b/pyproject.toml
index b14277f13d..65bcc2339d 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -31,7 +31,7 @@ exclude = [
     "./src/beignet/constants/_substitution_matrices.py",
 ]
 
-[tool.ruff]
+[tool.ruff.lint]
 select = [
     "B",  # FLAKE8-BUGBEAR
     "E",  # PYCODESTYLE ERRORS
diff --git a/src/beignet/__init__.py b/src/beignet/__init__.py
index f91d4adc64..76a8dfc20f 100644
--- a/src/beignet/__init__.py
+++ b/src/beignet/__init__.py
@@ -28,6 +28,7 @@
 from ._invert_quaternion import invert_quaternion
 from ._invert_rotation_matrix import invert_rotation_matrix
 from ._invert_rotation_vector import invert_rotation_vector
+from ._needleman_wunsch import needleman_wunsch
 from ._quaternion_identity import quaternion_identity
 from ._quaternion_magnitude import quaternion_magnitude
 from ._quaternion_mean import quaternion_mean
@@ -65,6 +66,7 @@
 from ._rotation_vector_to_rotation_matrix import (
     rotation_vector_to_rotation_matrix,
 )
+from ._smith_waterman import smith_waterman
 from ._translation_identity import translation_identity
 
 __all__ = [
@@ -86,9 +88,11 @@
     "invert_quaternion",
     "invert_rotation_matrix",
     "invert_rotation_vector",
+    "needleman_wunsch",
     "quaternion_identity",
     "quaternion_magnitude",
     "quaternion_mean",
+    "quaternion_slerp",
     "quaternion_to_euler_angle",
     "quaternion_to_rotation_matrix",
     "quaternion_to_rotation_vector",
@@ -108,6 +112,6 @@
     "rotation_vector_to_euler_angle",
     "rotation_vector_to_quaternion",
     "rotation_vector_to_rotation_matrix",
-    "quaternion_slerp",
+    "smith_waterman",
     "translation_identity",
 ]
diff --git a/src/beignet/operators/_needleman_wunsch.py b/src/beignet/_needleman_wunsch.py
similarity index 100%
rename from src/beignet/operators/_needleman_wunsch.py
rename to src/beignet/_needleman_wunsch.py
diff --git a/src/beignet/operators/_smith_waterman.py b/src/beignet/_smith_waterman.py
similarity index 100%
rename from src/beignet/operators/_smith_waterman.py
rename to src/beignet/_smith_waterman.py
diff --git a/src/beignet/operators/__init__.py b/src/beignet/operators/__init__.py
deleted file mode 100644
index e281919d3c..0000000000
--- a/src/beignet/operators/__init__.py
+++ /dev/null
@@ -1,7 +0,0 @@
-from ._needleman_wunsch import needleman_wunsch
-from ._smith_waterman import smith_waterman
-
-__all__ = [
-    "needleman_wunsch",
-    "smith_waterman",
-]
diff --git a/tests/beignet/operators/test__needleman_wunsch.py b/tests/beignet/test__needleman_wunsch.py
similarity index 100%
rename from tests/beignet/operators/test__needleman_wunsch.py
rename to tests/beignet/test__needleman_wunsch.py
diff --git a/tests/beignet/operators/test__smith_waterman.py b/tests/beignet/test__smith_waterman.py
similarity index 100%
rename from tests/beignet/operators/test__smith_waterman.py
rename to tests/beignet/test__smith_waterman.py