chore: Split hp into core rlib + optional python layer

.github/workflows/test_rust.yml

@@ -22,3 +22,7 @@ jobs:
               run: cargo build --verbose
             - name: cargo test
               run: cargo test --verbose
+            - name: cargo build (core only)
+              run: cargo build --verbose --no-default-features
+            - name: cargo test (core only)
+              run: cargo test --verbose --no-default-features

Cargo.toml

@@ -1,17 +1,21 @@
 [package]
-name = "hp"
-version = "0.1.0"
+name = "deeptools-core"
+version = "4.0.0"
 edition = "2024"
 rust-version = "1.87"
 
 # See more keys and their definitions at https://doc.rust-lang.org/cargo/reference/manifest.html
 [lib]
-name = "hp"
-crate-type = ["cdylib"]
+name = "deeptools_core"
+crate-type = ["rlib", "cdylib"]
+
+[features]
+python = ["dep:pyo3", "pyo3/extension-module"]
+default = ["python"]
 
 [dependencies]
 openssl-sys = { version = "0.9.117", features = ["vendored"] }
-pyo3 = { version = ">= 0.28.2", features = ["extension-module"] }
+pyo3 = { version = ">= 0.28.2", optional = true }
 bigtools = { version = "0.5.8", default-features = false, features = ["read", "write"] }
 rust-htslib = "1.0.1"
 rayon = "1.12.0"

release-please-config.json

@@ -11,6 +11,16 @@
         {
           "type": "generic",
           "path": "galaxy/wrapper/deepTools_macros.xml"
+        },
+        {
+          "type": "toml",
+          "path": "Cargo.toml",
+          "jsonpath": "$.package.version"
+        },
+        {
+          "type": "toml",
+          "path": "Cargo.lock",
+          "jsonpath": "$.package[?(@.name.value=='deeptools-core')].version"
         }
       ]
     }

scripts/check_version_sync.py

@@ -99,6 +99,20 @@ def galaxy_tool_version() -> str:
     return match.group(1)
 
 
+def cargo_crate_version() -> str:
+    data = tomllib.loads((REPO_ROOT / "Cargo.toml").read_text())
+    return data["package"]["version"]
+
+
+def cargo_lock_crate_version() -> str:
+    name = tomllib.loads((REPO_ROOT / "Cargo.toml").read_text())["package"]["name"]
+    lock = tomllib.loads((REPO_ROOT / "Cargo.lock").read_text())
+    for package in lock["package"]:
+        if package["name"] == name:
+            return package["version"]
+    sys.exit(f"could not find crate {name!r} in Cargo.lock")
+
+
 def main() -> None:
     cargo_version = cargo_rust_version()
     mismatches: dict[str, tuple[str, str]] = {}
@@ -125,6 +139,13 @@ def main() -> None:
             galaxy_version,
         )
 
+    for label, version in (
+        ("deeptools: Cargo.toml [package] version", cargo_crate_version()),
+        ("deeptools: Cargo.lock crate version", cargo_lock_crate_version()),
+    ):
+        if version != pkg_version:
+            mismatches[label] = (pkg_version, version)
+
     if mismatches:
         print("Version mismatch detected:", file=sys.stderr)
         for name, (expected, actual) in mismatches.items():