Fix mypy issues

.flake8

@@ -0,0 +1,13 @@
+[flake8]
+ignore =
+    # https://github.com/psf/black#slices
+    E203,
+    # https://github.com/psf/black#line-length
+    E501,
+    # https://github.com/psf/black#line-breaks--binary-operators
+    W503,
+    # we don't require docstrings by default
+    D100, D101, D102, D103, D104, D105, D106, D107,
+    # this check is overly picky about RNG usage when it might not matter
+    # https://github.snooguts.net/reddit/docker-reddit-lint.py/pull/2
+    DUO102,

Makefile

@@ -34,7 +34,7 @@ test: deps
 lint: deps
 	@echo "Linting..."
 	python -m flake8 --max-line-length=120 --ignore=E203,W503,E501,E722,E731,W605 --exclude=venv,build,dist,docs,*.egg-info,*.egg,*.pyc,*.pyo,*.git,__pycache__,.pytest_cache,.benchmarks
-	mypy searcharray tests
+	mypy searcharray test
 
 
 benchmark_dry_run: deps

mypy.ini

@@ -0,0 +1,7 @@
+[mypy]
+
+[mypy-sortednp]
+ignore_missing_imports = True
+
+[mypy-pandas.tests.*]
+ignore_missing_imports = True

requirements.txt

@@ -3,35 +3,49 @@ asttokens==2.4.1
 build==1.0.3
 certifi==2023.7.22
 charset-normalizer==3.3.2
+contourpy==1.2.0
 coverage==7.3.2
+cycler==0.12.1
 decorator==5.1.1
 docutils==0.20.1
 executing==2.0.1
+flake8==6.1.0
+fonttools==4.46.0
 idna==3.4
 importlib-metadata==6.8.0
 iniconfig==2.0.0
 ipython==8.17.2
 jaraco.classes==3.3.0
 jedi==0.19.1
 keyring==24.3.0
+kiwisolver==1.4.5
 markdown-it-py==3.0.0
+matplotlib==3.8.2
 matplotlib-inline==0.1.6
+mccabe==0.7.0
 mdurl==0.1.2
 more-itertools==10.1.0
+mypy==1.8.0
+mypy-extensions==1.0.0
 nh3==0.2.14
 numpy==1.26.1
 packaging==23.2
 pandas==2.1.2
+pandas-stubs==2.1.4.231218
 parso==0.8.3
 pexpect==4.8.0
+Pillow==10.1.0
 pkginfo==1.9.6
 pluggy==1.3.0
 prompt-toolkit==3.0.39
 ptyprocess==0.7.0
 pure-eval==0.2.2
 py-cpuinfo==9.0.0
+pycodestyle==2.11.1
+pyflakes==3.1.0
 pygal==3.0.4
 Pygments==2.16.1
+pyparsing==3.1.1
 pyproject_hooks==1.0.0
 pyroaring==0.4.4
 pytest==7.4.3
@@ -44,16 +58,18 @@ requests==2.31.0
 requests-toolbelt==1.0.0
 rfc3986==2.0.0
 rich==13.6.0
-scipy==1.11.3
+scipy==1.11.4
 searcharray==0.0.1
 six==1.16.0
+snakeviz==2.2.0
 sortednp==0.4.1
 stack-data==0.6.3
+tornado==6.4
 traitlets==5.13.0
 twine==4.0.2
+types-pytz==2023.3.1.1
+typing_extensions==4.9.0
 tzdata==2023.3
 urllib3==2.1.0
 wcwidth==0.2.9
 zipp==3.17.0
-flake8==6.1.0
-mypy==1.8.0

searcharray/phrase/middle_out.py

@@ -8,7 +8,7 @@
 import numpy as np
 import sortednp as snp
 from copy import deepcopy
-from typing import List, Tuple, Dict, Union
+from typing import List, Tuple, Dict, Union, cast
 from searcharray.utils.roaringish import RoaringishEncoder, convert_keys
 import numbers
 import logging
@@ -293,6 +293,7 @@ def positions(self, term_id: int, key) -> Union[List[np.ndarray], np.ndarray]:
             return [np.array([], dtype=np.uint32)]
         if len(decoded) != len(doc_ids):
             # Fill non matches
+            decoded = cast(List[Tuple[np.uint64, np.ndarray]], decoded)
             as_dict: Dict[np.uint64, np.ndarray] = dict(decoded)
             decs = []
             for doc_id in doc_ids:

searcharray/postings.py

@@ -603,7 +603,8 @@ def doc_freq(self, token: str) -> int:
             raise TypeError("Expected a string")
         # Count number of rows where the term appears
         term_freq = self.term_freq(token)
-        return np.sum(term_freq > 0)
+        gt_0 = term_freq > 0
+        return np.sum(gt_0).astype(int)
 
     def doc_lengths(self) -> np.ndarray:
         return self.doc_lens

test/test_utils.py

@@ -1,13 +1,13 @@
 import pytest
-from typing import Dict, Any
+from typing import Dict, Any, cast, Sequence, Type, Union
 import cProfile
 import sys
 
 
 def w_scenarios(scenarios: Dict[str, Dict[str, Any]]):
     """Decorate for parametrizing tests that names the scenarios and params."""
     return pytest.mark.parametrize(
-        [key for key in scenarios.values()][0].keys(),
+        cast(Sequence[str], [key for key in scenarios.values()][0].keys()),
         [tuple(scenario.values()) for scenario in scenarios.values()],
         ids=list(scenarios.keys())
     )
@@ -42,6 +42,8 @@ def run(self, func, *args, **kwargs):
         return rval
 
 
+Profiler: Union[Type[JustBenchmarkProfiler], Type[CProfileProfiler]]
+
 if '--benchmark-disable' in sys.argv:
     Profiler = CProfileProfiler
 else: