chore: update pre-commit hooks (#85)

* chore: update pre-commit hooks

updates:
- [github.com/astral-sh/ruff-pre-commit: v0.9.7 → v0.11.4](astral-sh/ruff-pre-commit@v0.9.7...v0.11.4)
- [github.com/crate-ci/typos: v1.29.10 → v1](crate-ci/typos@v1.29.10...v1)
- [github.com/abravalheri/validate-pyproject: v0.23 → v0.24.1](abravalheri/validate-pyproject@v0.23...v0.24.1)
- [github.com/python-jsonschema/check-jsonschema: 0.31.2 → 0.32.1](python-jsonschema/check-jsonschema@0.31.2...0.32.1)

* style: pre-commit fixes

* Drop typos

---------

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Co-authored-by: Alec Thomson (S&A, Kensington WA) <[email protected]>

Author: pre-commit-ci[bot]

.pre-commit-config.yaml

@@ -33,17 +33,12 @@ repos:
       - id: rst-inline-touching-normal
 
   - repo: https://github.com/astral-sh/ruff-pre-commit
-    rev: "v0.9.7"
+    rev: "v0.11.4"
     hooks:
       - id: ruff
         args: ["--fix", "--show-fixes"]
       - id: ruff-format
 
-  - repo: https://github.com/crate-ci/typos
-    rev: v1.29.10
-    hooks:
-      - id: typos
-
   - repo: local
     hooks:
       - id: disallow-caps
@@ -53,13 +48,13 @@ repos:
         exclude: .pre-commit-config.yaml
 
   - repo: https://github.com/abravalheri/validate-pyproject
-    rev: "v0.23"
+    rev: "v0.24.1"
     hooks:
       - id: validate-pyproject
         additional_dependencies: ["validate-pyproject-schema-store[all]"]
 
   - repo: https://github.com/python-jsonschema/check-jsonschema
-    rev: "0.31.2"
+    rev: "0.32.1"
     hooks:
       - id: check-dependabot
       - id: check-github-workflows

CHANGELOG.md

@@ -384,7 +384,7 @@ Corresponds with DR1 paper.
 
 - `submit/casda_pre_prep.sh`
 - `submit/casda_prep_test.sh`
-- ASKAP RACS database as a submodule (changes how `init_databse.py` ingests
+- ASKAP RACS database as a submodule (changes how `init_database.py` ingests
   data)
 
 ## [0.2.0] - 2019-12-01

arrakis/makecat.py

@@ -58,7 +58,7 @@ class SpectralIndices(NamedTuple):
     betas_err: np.ndarray
 
 
-def combinate(  # codespell:ignore[combinate]
+def combine(  # codespell:ignore[combine]
     data: ArrayLike,
 ) -> tuple[ArrayLike, ArrayLike]:
     """Return all combinations of data with itself
@@ -69,8 +69,8 @@ def combinate(  # codespell:ignore[combinate]
     Returns:
         Tuple[ArrayLike, ArrayLike]: Data_1 matched with Data_2
     """
-    ix, iy = np.triu_indices(data.shape[0], k=1)
-    idx = np.vstack((ix, iy)).T
+    ix, it = np.triu_indices(data.shape[0], k=1)
+    idx = np.vstack((ix, it)).T
     dx, dy = data[idx].swapaxes(0, 1)
     return dx, dy
 
@@ -684,7 +684,7 @@ def get_integration_time(cat: RMTable, field_col: Collection, sbid: int | None =
         ] * len(field_names)
         unique_field_names = list(set(field_names))
 
-    reutrn_vals = {"_id": 0, "SCAN_TINT": 1, "FIELD_NAME": 1, "SBID": 1}
+    return_vals = {"_id": 0, "SCAN_TINT": 1, "FIELD_NAME": 1, "SBID": 1}
 
     doc_count = field_col.count_documents(query)
 
@@ -699,7 +699,7 @@ def get_integration_time(cat: RMTable, field_col: Collection, sbid: int | None =
         else:
             logger.warning("Using SELECT=0 instead.")
 
-    field_data = list(field_col.find(query, reutrn_vals))
+    field_data = list(field_col.find(query, return_vals))
     tint_df = pd.DataFrame(field_data)
     tint_df.set_index("FIELD_NAME", inplace=True, drop=False)
 

arrakis/merge_fields.py

@@ -317,7 +317,7 @@ def main(
         merge_name=merge_name,
     )
 
-    mutilple_updates = merge_multiple_fields(
+    multiple_updates = merge_multiple_fields(
         field_dict=field_dict,
         data_dir=data_dir,
         beams_col=beams_col,
@@ -326,7 +326,7 @@ def main(
     )
 
     singleton_comp = [f.result() for f in singleton_updates]
-    multiple_comp = [f.result() for f in mutilple_updates]
+    multiple_comp = [f.result() for f in multiple_updates]
 
     for m in multiple_comp:
         m._doc["$set"].update({f"beams.{merge_name}.DR1": True})

arrakis/rmsynth_oncuts.py

@@ -190,7 +190,7 @@ def rmsynthoncut3d(
         fitRMSF=fitRMSF,
         prefixOut=prefix,
         outDir=os.path.dirname(ifile),
-        write_seperate_FDF=True,
+        write_separate_FDF=True,
         not_rmsf=not_RMSF,
         nBits=32,
         verbose=rm_verbose,

scripts/casda_prepare.py

@@ -514,7 +514,7 @@ def main(
     casda_dir = os.path.join(data_dir, f"casda_{prep_type}")
     try_mkdir(casda_dir)
 
-    # Link catalgoue to casda directory
+    # Link catalogue to casda directory
     cat_dir = os.path.join(casda_dir, "catalogues")
     try_mkdir(cat_dir)
     if prep_type != "full":