Release v1.4.5

Author: katosh

README.md

@@ -73,8 +73,9 @@ ____
 Release Notes
 -------------
 
- ### Version 1.4.5 (future)
+ ### Version 1.4.5
  * Fix: pandas 3 compatibility. Under pandas 3 (mandatory Copy-on-Write) `DataFrame.values` returns a read-only view, so several in-place mutations raised `ValueError: assignment destination is read-only`. `run_palantir` failed in `_differentiation_entropy` (terminal-state identity block, now built with `np.eye(...)`), and `select_branch_cells` failed on its NaN fill of the fate-probability array (now copied before mutation). Compatible with both pandas 2 and 3 ([#180](https://github.com/dpeerlab/Palantir/issues/180)).
+ * Fix: drop the removed `AnnData(dtype=)` keyword in `cluster_gene_trends`. anndata >=0.11 (which resolves on Python 3.12/3.13) removed the `dtype` argument to `AnnData.__init__`, raising `TypeError: got an unexpected keyword argument 'dtype'`. The array is now cast with `.astype(np.float32)` before construction — behaviour is identical and compatible with all anndata versions ([#180](https://github.com/dpeerlab/Palantir/issues/180)).
  * Use `numpy.random.Generator` in place of the legacy global `numpy.random.RandomState` and require
 `numpy>=1.17`. Note that since the default PRNG is now [PCG64](https://numpy.org/devdocs/reference/random/bit_generators/pcg64.html) instead of the Mersenne Twister, numerical outputs are expected to differ from
 those in previous versions. If exact reproducibility is required, users should pin the relevant prior version.

pyproject.toml

@@ -4,7 +4,7 @@ build-backend = "setuptools.build_meta"
 
 [project]
 name = "palantir"
-version = "1.4.4"
+version = "1.4.5"
 description = "Palantir for modeling continuous cell state and cell fate choices in single cell data"
 authors = [
     {name = "Palantir development team", email = "manu.talanki@gmail.com"}

src/palantir/version.py

@@ -6,7 +6,7 @@
     __version__ = importlib.metadata.version("palantir")
 except importlib.metadata.PackageNotFoundError:
     # Package is not installed, fall back to hardcoded version
-    __version__ = "1.4.4"  # Should match pyproject.toml
+    __version__ = "1.4.5"  # Should match pyproject.toml
 
 __author__ = "Palantir development team"
 __author_email__ = "manu.talanki@gmail.com"