feat: add CI/CD workflows, release automation, and CLI version flag

Adds Gitea Actions for continuous integration and tagged releases, including static musl binary compilation and artifact upload. Introduces a Makefile target to automate semantic version bumping and publishing. Bumps the package version to 0.1.1 and enables automatic `--version` output via Clap.

.gitea/workflows/ci.yml

@@ -0,0 +1,32 @@
+name: CI
+
+on:
+  push:
+    branches: ['**']
+  pull_request:
+
+jobs:
+  build:
+    runs-on: ubuntu-latest
+    container: rust:latest
+    defaults:
+      run:
+        working-directory: src
+    steps:
+      - uses: actions/checkout@v4
+
+      - name: Cache cargo registry
+        uses: actions/cache@v4
+        with:
+          path: |
+            ~/.cargo/registry
+            ~/.cargo/git
+            src/target
+          key: ${{ runner.os }}-cargo-${{ hashFiles('src/Cargo.lock') }}
+          restore-keys: ${{ runner.os }}-cargo-
+
+      - name: Build
+        run: cargo build --release
+
+      - name: Test
+        run: cargo test --release

.gitea/workflows/release.yml

@@ -0,0 +1,47 @@
+name: Release
+
+on:
+  push:
+    tags:
+      - 'v*'
+
+jobs:
+  build-linux-static:
+    runs-on: ubuntu-latest
+    container: rust:latest
+    defaults:
+      run:
+        working-directory: src
+    steps:
+      - uses: actions/checkout@v4
+
+      - name: Cache cargo registry
+        uses: actions/cache@v4
+        with:
+          path: |
+            ~/.cargo/registry
+            ~/.cargo/git
+            src/target
+          key: linux-musl-cargo-${{ hashFiles('src/Cargo.lock') }}
+          restore-keys: linux-musl-cargo-
+
+      - name: Install musl toolchain
+        run: |
+          apt-get update -qq && apt-get install -y -qq musl-tools
+          rustup target add x86_64-unknown-linux-musl
+
+      - name: Build static binary
+        run: cargo build --release --target x86_64-unknown-linux-musl
+
+      - name: Prepare artifact
+        run: |
+          mkdir -p /tmp/dist
+          cp target/x86_64-unknown-linux-musl/release/obikmer /tmp/dist/obikmer-linux-x86_64
+          strip /tmp/dist/obikmer-linux-x86_64
+
+      - name: Upload release asset
+        uses: actions/upload-artifact@v4
+        with:
+          name: obikmer-linux-x86_64
+          path: /tmp/dist/obikmer-linux-x86_64
+          if-no-files-found: error

Makefile

@@ -63,3 +63,28 @@ clean-doc:
 .PHONY: clean
 clean: clean-doc
 	rm -rf $(VENV)
+
+# ── release ───────────────────────────────────────────────────────────────────
+
+CARGO_TOML := $(CARGO_DIR)/obikmer/Cargo.toml
+
+.PHONY: bump-version
+bump-version:
+	@current=$$(grep '^version = ' $(CARGO_TOML) | head -n 1 | sed 's/version = "\(.*\)"/\1/'); \
+	if [ -n "$(RELEASE)" ]; then \
+		new_version="$(RELEASE)"; \
+	else \
+		major=$$(echo $$current | cut -d. -f1); \
+		minor=$$(echo $$current | cut -d. -f2); \
+		patch=$$(echo $$current | cut -d. -f3); \
+		new_patch=$$((patch + 1)); \
+		new_version="$$major.$$minor.$$new_patch"; \
+	fi; \
+	echo "Version: $$current -> $$new_version"; \
+	sed -i.bak "s/^version = \"$$current\"/version = \"$$new_version\"/" $(CARGO_TOML) && \
+	rm $(CARGO_TOML).bak
+
+.PHONY: release
+release: bump-version
+	@jj auto-describe
+	@jj git push --change @

src/Cargo.lock

@@ -1704,7 +1704,7 @@ dependencies = [
 
 [[package]]
 name = "obikmer"
-version = "0.1.0"
+version = "0.1.1"
 dependencies = [
  "clap",
  "csv",

src/obikmer/Cargo.toml

@@ -1,6 +1,6 @@
 [package]
 name = "obikmer"
-version = "0.1.0"
+version = "0.1.1"
 edition = "2024"
 
 [[bin]]

src/obikmer/src/main.rs

@@ -6,7 +6,7 @@ use clap::{Parser, Subcommand};
 use tracing_subscriber::{EnvFilter, fmt};
 
 #[derive(Parser)]
-#[command(name = "obikmer", about = "DNA k-mer tools")]
+#[command(name = "obikmer", about = "DNA k-mer tools", version)]
 struct Cli {
     #[command(subcommand)]
     command: Commands,