Fix pileup sum type and make python bindings optional

Author: logannye

Cargo.toml

@@ -32,7 +32,7 @@ clap = { version = "4.5", features = ["derive"] }
 # Serialization (optional, for debugging/visualization)
 serde = { version = "1.0", features = ["derive"], optional = true }
 # Python bindings
-pyo3 = { version = "0.23.2", features = ["extension-module", "abi3-py39"] }
+pyo3 = { version = "0.23.2", features = ["extension-module", "abi3-py39"], optional = true }
 # BAM/VCF output
 rust-htslib = { version = "0.44", default-features = false, features = ["bzip2", "lzma"] }
 
@@ -45,6 +45,7 @@ test-case = "3.3"
 default = []
 visualize = ["serde"]
 profiling = []
+python-bindings = ["dep:pyo3"]
 
 [[bench]]
 name = "simulation_bench"

src/genomics/pileup.rs

@@ -295,7 +295,8 @@ mod tests {
         assert!(!summary.nodes.is_empty());
         let first = &summary.nodes[0];
         assert_eq!(first.position, 100);
-        assert_eq!(first.depth, first.base_counts.iter().sum());
+        let depth_sum: u32 = first.base_counts.iter().copied().sum();
+        assert_eq!(first.depth, depth_sum);
     }
 
     fn read_strategy(window_len: u32) -> impl Strategy<Value = AlignedRead> {

src/lib.rs

@@ -37,6 +37,7 @@ pub mod ledger; // Streaming progress tracking
 pub mod machine; // Turing machine representation
 pub mod plugin; // Plugin system
 /// Python bindings for exposing Rosalind components to external runtimes.
+#[cfg(feature = "python-bindings")]
 pub mod python_bindings;
 pub mod space; // Space accounting utilities
 pub mod tree; // Height-compressed evaluation tree