ci(pre-commit.ci): autoupdate (#85)

* ci(pre-commit.ci): autoupdate

updates:
- [github.com/abravalheri/validate-pyproject: v0.19 → v0.22](abravalheri/validate-pyproject@v0.19...v0.22)
- [github.com/crate-ci/typos: v1.24.5 → v1.27.0](crate-ci/typos@v1.24.5...v1.27.0)
- [github.com/astral-sh/ruff-pre-commit: v0.6.4 → v0.7.2](astral-sh/ruff-pre-commit@v0.6.4...v0.7.2)
- [github.com/pre-commit/mirrors-mypy: v1.11.2 → v1.13.0](pre-commit/mirrors-mypy@v1.11.2...v1.13.0)

* fix lint

---------

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Co-authored-by: Talley Lambert <talley.lambert@gmail.com>

Author: pre-commit-ci[bot]

.github/workflows/test_cuda.yml

@@ -8,6 +8,9 @@ on:
 
 jobs:
   test:
+    # this test fails too often, so let it run, but don't fail the build
+    continue-on-error: true
+
     # Only run on Pull Requests within the same repository, and not from forks.
     if: ( github.event_name == 'pull_request' && github.event.pull_request.head.repo.full_name == github.repository ) || ( github.event_name == 'push' && github.ref == 'refs/heads/main' )
     runs-on: self-hosted

.pre-commit-config.yaml

@@ -5,25 +5,25 @@ ci:
 
 repos:
   - repo: https://github.com/abravalheri/validate-pyproject
-    rev: v0.19
+    rev: v0.22
     hooks:
       - id: validate-pyproject
 
   - repo: https://github.com/crate-ci/typos
-    rev: v1.24.5
+    rev: typos-dict-v0.11.35
     hooks:
       - id: typos
         args: [--force-exclude]  # omitting --write-changes
 
   - repo: https://github.com/astral-sh/ruff-pre-commit
-    rev: v0.6.4
+    rev: v0.7.3
     hooks:
       - id: ruff
         args: [--fix, --unsafe-fixes]
       - id: ruff-format
 
   - repo: https://github.com/pre-commit/mirrors-mypy
-    rev: v1.11.2
+    rev: v1.13.0
     hooks:
       - id: mypy
         files: "^src/"

src/microsim/cosem/models.py

@@ -154,12 +154,18 @@ def read(
         """
         from microsim.cosem._tstore import read_tensorstore
 
+        _bin_mode: BinMode
         if bin_mode == "auto":
             # we convert segmentation images to sum mode, because they are encoded
             # for instance segmentation, which is not what we want.
-            bin_mode = "sum" if self.content_type == "segmentation" else "standard"
+            _bin_mode = "sum" if self.content_type == "segmentation" else "standard"
+        else:
+            _bin_mode = bin_mode
         return read_tensorstore(
-            self, level=level, transpose=transpose, bin_mode=bin_mode
+            self,
+            level=level,
+            transpose=transpose,
+            bin_mode=_bin_mode,
         )
 
     def read_xarray(self) -> "xr.DataArray | DataTree":

src/microsim/psf.py

@@ -170,7 +170,7 @@ def rz_to_xyz(
             for z in range(nz)
         ]
     )
-    return out.get() if hasattr(out, "get") else out  # type: ignore
+    return out.get() if hasattr(out, "get") else out
 
 
 # def rz_to_xyz(rz, xyshape, sf=3, off=None):