From 3b55cb143ad0d158a4733ca28e8f32acf27012e5 Mon Sep 17 00:00:00 2001
From: Travis Adrian Dantzer <47285626+dantzert@users.noreply.github.com>
Date: Sat, 25 Jul 2026 11:02:28 -0400
Subject: [PATCH] fix: correct typos, add codespell CI gate, add
 pytest-xdist/cov/junitxml

- Fix typos in modpods/lti.py: accross->across, trnasformation->transformation,
  gaurantee->guarantee, stabilty->stability
- Fix typo in test_fixed.py: funcionality->functionality
- Remove suppressed typo words from .codespellrc
- Add codespell to requirements.txt and CI workflow
- Add pytest-xdist, pytest-cov to requirements.txt
- Add --junitxml, --cov, -n auto to pytest CI step
---
 .codespellrc             |  3 +++
 .github/workflows/ci.yml |  5 ++++-
 modpods/lti.py           | 10 +++++-----
 requirements.txt         |  3 +++
 test_fixed.py            |  2 +-
 5 files changed, 16 insertions(+), 7 deletions(-)
 create mode 100644 .codespellrc

diff --git a/.codespellrc b/.codespellrc
new file mode 100644
index 0000000..2d1b301
--- /dev/null
+++ b/.codespellrc
@@ -0,0 +1,3 @@
+[codespell]
+skip = .git,*.svg,*.png,*.jpg,*.jpeg,*.gif,*.ico,*.pdf,*.zip,*.tar.gz,*.whl,.venv,.vs,__pycache__
+ignore-words-list = Bu,gage,Gage,modpods,sindy,SINDy,pysindy,NSE,HFV,LFV,FDC,LTI,SWMM,pystorms,pyswmm,RAIM,PET,PRCP,CAMELS,USGS,configparser,argparse
diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
index 93f5872..460f104 100644
--- a/.github/workflows/ci.yml
+++ b/.github/workflows/ci.yml
@@ -28,8 +28,11 @@ jobs:
       - name: Lint with ruff
         run: ruff check .
 
+      - name: Lint with codespell
+        run: codespell .
+
       - name: Type-check with mypy
         run: mypy . --ignore-missing-imports
 
       - name: Run tests with pytest
-        run: pytest tests/ -v
+        run: pytest tests/ -v --junitxml=junit.xml --cov=modpods --cov-report=xml -n auto
diff --git a/modpods/lti.py b/modpods/lti.py
index 6c0b367..75a8ed6 100644
--- a/modpods/lti.py
+++ b/modpods/lti.py
@@ -108,8 +108,8 @@ def lti_from_gamma(
         # search across the C vector
         for i in range(
             C.shape[1] - 1, int(-1), int(-1)
-        ):  # accross the columns # start at the end and come back
-            # for i in range(int(0),C.shape[1],int(1)): # accross the columns, start at the beginning and go forward
+        ):  # across the columns # start at the end and come back
+            # for i in range(int(0),C.shape[1],int(1)): # across the columns, start at the beginning and go forward
 
             og_approx = control.ss(A, B, C, 0)
             og_y = np.ndarray.flatten(control.impulse_response(og_approx, t).y)
@@ -437,7 +437,7 @@ def lti_system_gen(
     for row in original_A.index:
         if delay_models[row] is None:
             pass
-        else:  # we want the model with the most transformations where the last trnasformation added at least 0.5% to the R2 score
+        else:  # we want the model with the most transformations where the last transformation added at least 0.5% to the R2 score
             for num_transforms in range(1, max_transforms + 1):
                 if num_transforms == 1:
                     optimal_number_transforms = num_transforms
@@ -654,7 +654,7 @@ def lti_system_gen(
     C = C.apply(pd.to_numeric, errors="coerce").fillna(0.0)
 
     # if bibo_stable is specified and A not hurwitz, make A hurwitz by defining A' = A - I*max(real(eig(A)))
-    # this will gaurantee stability (max eigenvalue will have real part < 0)
+    # this will guarantee stability (max eigenvalue will have real part < 0)
     if bibo_stable:
         orig_eigs, _ = np.linalg.eig(A)
         if any(np.real(orig_eigs) > 0):
@@ -662,7 +662,7 @@ def lti_system_gen(
             epsilon = 10e-4
             A_stab = A - np.eye(len(A)) * (1 + epsilon) * max(
                 np.real(orig_eigs)
-            )  # add factor of (1+epsilon) for stability, not marginal stabilty
+            )  # add factor of (1+epsilon) for stability, not marginal stability
             stab_eigs, _ = np.linalg.eig(A_stab)
             A = A_stab.copy(deep=True)
 
diff --git a/requirements.txt b/requirements.txt
index 5e2d8e5..53287c7 100644
--- a/requirements.txt
+++ b/requirements.txt
@@ -10,8 +10,11 @@ networkx>=3.0
 
 # Testing
 pytest>=7.0
+pytest-xdist>=3.0
+pytest-cov>=4.0
 
 # Linting
 black>=23.0
 ruff>=0.1
 mypy>=1.0
+codespell>=2.0
diff --git a/test_fixed.py b/test_fixed.py
index 2415cc5..b617b1b 100644
--- a/test_fixed.py
+++ b/test_fixed.py
@@ -3,7 +3,7 @@
 
 import modpods
 
-# basic funcionality tests and a bit of a tutorial
+# basic functionality tests and a bit of a tutorial
 
 # some data from the CAMELS dataset
 # change the filepath to wherever you have modpods at