deps: upgrade PyO3 to 0.29 and align ecosystem crates

Bump PyO3 from 0.28 to 0.29.0 to pick up the security fix, moving the
whole binding family in lockstep (they must share one PyO3 minor):

  pyo3              0.28 -> 0.29.0
  numpy             0.28 -> 0.29.0
  pythonize         0.28 -> 0.29.0
  pyo3-arrow        0.17 -> 0.19.0
  pyo3-object_store 0.9  -> 0.11.0  (pulls pyo3-async-runtimes 0.29)

pyo3-arrow 0.19 and nuts-rs 0.18.3 both require arrow 59, so bump
arrow 58 -> 59 and nuts-rs 0.18.0 -> 0.18.3 to keep them aligned.
nuts-rs 0.18.3 removed ArrowConfig::new(); use ArrowConfig::default()
(store_warmup: true), which preserves the previous behavior.

Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>

Author: 2 people

Cargo.toml

@@ -21,8 +21,8 @@ name = "_lib"
 crate-type = ["cdylib"]
 
 [dependencies]
-nuts-rs = { version = "0.18.0", features = ["zarr", "arrow"] }
-numpy = "0.28.0"
+nuts-rs = { version = "0.18.3", features = ["zarr", "arrow"] }
+numpy = "0.29.0"
 rand = "0.10.0"
 thiserror = "2.0.3"
 rand_chacha = "0.10.0"
@@ -36,19 +36,19 @@ upon = { version = "0.10.0", default-features = false, features = [] }
 time-humanize = { version = "0.1.3", default-features = false }
 indicatif = "0.18.0"
 tch = { version = "0.24.0", optional = true }
-pyo3-object_store = "0.9.0"
+pyo3-object_store = "0.11.0"
 # Keep zarrs crates in sync with nuts-rs requirements
 zarrs = { version = "0.23.2", features = ["async"] }
 zarrs_object_store = "0.6.0"
-pyo3-arrow = "0.17.0"
-arrow = { version = "58.1.0", features = ["json"] }
+pyo3-arrow = "0.19.0"
+arrow = { version = "59.0.0", features = ["json"] }
 tokio = { version = "1.47.1", features = ["rt", "rt-multi-thread"] }
 serde = { version = "1.0", features = ["derive"] }
 serde_json = "1.0"
-pythonize = "0.28.0"
+pythonize = "0.29.0"
 
 [dependencies.pyo3]
-version = "0.28.0"
+version = "0.29.0"
 features = ["extension-module", "anyhow"]
 
 [dev-dependencies]

src/wrapper.rs

@@ -969,7 +969,7 @@ impl PySampler {
         let tokio_rt = Runtime::new().context("Failed to create Tokio runtime")?;
         match &mut store.0 {
             InnerPyStorage::Arrow => {
-                let storage_config = ArrowConfig::new();
+                let storage_config = ArrowConfig::default();
                 match settings {
                     PySamplerSettings::Nuts(settings) => match settings.inner {
                         NutsSettingsKind::LowRank(settings) => {