Merge branch 'master' into cli

.coveragerc

@@ -6,6 +6,5 @@ omit =
     doc/conf.py
     setup.py
     tests/*
-    third-party/smhasher/MurmurHash3.cc
     .tox/*
     benchmarks/*

.github/actions-rs/grcov.yml

@@ -0,0 +1,7 @@
+branch: true
+ignore-not-existing: true
+llvm: true
+filter: covered
+output-type: lcov
+output-file: ./lcov.info
+prefix-dir: /home/user/build/

.github/workflows/rust.yml

@@ -0,0 +1,257 @@
+name: Rust checks
+
+on:
+  push:
+    branches: [master]
+  pull_request:
+    branches: [master]
+
+jobs:
+  check:
+    name: Check
+    runs-on: ubuntu-latest
+    steps:
+      - name: Checkout sources
+        uses: actions/checkout@v1
+
+      - name: Install stable toolchain
+        uses: actions-rs/toolchain@v1
+        with:
+          profile: minimal
+          toolchain: stable
+          override: true
+
+      - name: Run cargo check
+        uses: actions-rs/cargo@v1
+        with:
+          command: check
+
+  test:
+    runs-on: ${{ matrix.os }}
+    strategy:
+      fail-fast: false
+      matrix:
+        build: [beta, stable, windows, macos]
+        include:
+          - build: macos
+            os: macos-latest
+            rust: stable
+          - build: windows
+            os: windows-latest
+            rust: stable
+          - build: beta
+            os: ubuntu-latest
+            rust: beta
+          - build: stable
+            os: ubuntu-latest
+            rust: stable
+    steps:
+      - uses: actions/checkout@v1
+
+      - uses: actions-rs/toolchain@v1
+        with:
+          toolchain: ${{ matrix.rust }}
+          override: true
+
+      - name: Set up Python 3.8
+        if: matrix.os != 'windows-latest'
+        uses: actions/setup-python@v1
+        with:
+          python-version: "3.8"
+
+      - name: Install dependencies
+        if: matrix.os != 'windows-latest'
+        run: |
+          python -m pip install --upgrade pip
+          python -m pip install -e .
+
+      - name: Run tests
+        uses: actions-rs/cargo@v1
+        with:
+          command: test
+          args: --no-fail-fast
+
+  test_all_features:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v1
+
+      - uses: actions-rs/toolchain@v1
+        with:
+          toolchain: stable
+          override: true
+
+      - name: Set up Python 3.8
+        uses: actions/setup-python@v1
+        with:
+          python-version: "3.8"
+
+      - name: Install dependencies
+        run: |
+          python -m pip install --upgrade pip
+          python -m pip install -e .
+
+      - name: Run tests
+        uses: actions-rs/cargo@v1
+        with:
+          command: test
+          args: --no-fail-fast --all --all-features
+
+  coverage:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v1
+
+      - uses: actions-rs/toolchain@v1
+        with:
+          toolchain: nightly
+          override: true
+
+      - name: Set up Python 3.8
+        uses: actions/setup-python@v1
+        with:
+          python-version: "3.8"
+
+      - name: Install dependencies
+        run: |
+          python -m pip install --upgrade pip
+          python -m pip install -e .
+
+      - name: Run tests
+        uses: actions-rs/cargo@v1
+        with:
+          command: test
+          args: --no-fail-fast --all --all-features
+        env:
+          'CARGO_INCREMENTAL': '0'
+          'RUSTFLAGS': '-Zprofile -Ccodegen-units=1 -Cinline-threshold=0 -Clink-dead-code -Coverflow-checks=off -Zno-landing-pads'
+
+      - name: Collect coverage and generate report with grcov
+        uses: actions-rs/grcov@v0.1.4
+        id: coverage
+
+      - name: Upload coverage to codecov
+        uses: codecov/codecov-action@v1.0.3
+        with:
+          token: ${{ secrets.CODECOV_TOKEN }}
+          file: ${{ steps.coverage.outputs.report }}
+
+  lints:
+    name: Lints
+    runs-on: ubuntu-latest
+    steps:
+      - name: Checkout sources
+        uses: actions/checkout@v1
+
+      - name: Install stable toolchain
+        uses: actions-rs/toolchain@v1
+        with:
+          profile: minimal
+          toolchain: stable
+          override: true
+          components: rustfmt, clippy
+
+      - name: Run cargo fmt
+        uses: actions-rs/cargo@v1
+        with:
+          command: fmt
+          args: --all -- --check
+
+      - name: Run cargo clippy
+        uses: actions-rs/cargo@v1
+        with:
+          command: clippy
+          args: -- -D warnings
+
+  wasm-pack:
+    name: Check if wasm-pack builds a valid package
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@master
+      - uses: actions-rs/toolchain@v1
+        with:
+          toolchain: stable
+          target: wasm32-unknown-unknown
+      - uses: actions-rs/cargo@v1
+        with:
+          command: install
+          args: --force wasm-pack
+      - name: run wasm-pack
+        run: wasm-pack build
+
+  wasm32-wasi:
+    name: Run tests under wasm32-wasi
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@master
+      - name: Install wasm32-wasi target
+        uses: actions-rs/toolchain@v1
+        with:
+          toolchain: stable
+          target: wasm32-wasi
+      - name: Install wasmtime
+        run: "curl https://wasmtime.dev/install.sh -sSf | bash"
+      - name: Add wasmtime to PATH
+        run: echo "::add-path::$HOME/.wasmtime/bin"
+      - name: Install cargo-wasi command
+        uses: actions-rs/cargo@v1
+        with:
+          command: install
+          args: --force cargo-wasi
+      - name: Build code with cargo-wasi
+        uses: actions-rs/cargo@v1
+        with:
+          command: wasi
+          args: build
+      - name: Run tests under wasm32-wasi
+        uses: actions-rs/cargo@v1
+        continue-on-error: true  ## TODO: remove this when tests work...
+        with:
+          command: wasi
+          args: test
+
+  publish:
+    name: Publish (dry-run)
+    runs-on: ubuntu-latest
+    steps:
+      - name: Checkout sources
+        uses: actions/checkout@v1
+
+      - name: Install stable toolchain
+        uses: actions-rs/toolchain@v1
+        with:
+          profile: minimal
+          toolchain: stable
+          override: true
+
+      - name: Make sure we can publish the crate
+        uses: actions-rs/cargo@v1
+        with:
+          command: publish
+          args: --dry-run
+
+  minimum_rust_version:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v1
+
+      - uses: actions-rs/toolchain@v1
+        with:
+          toolchain: 1.34.0
+          override: true
+
+      - name: Set up Python 3.8
+        uses: actions/setup-python@v1
+        with:
+          python-version: "3.8"
+
+      - name: Install dependencies
+        run: |
+          python -m pip install --upgrade pip
+          python -m pip install -e .
+
+      - name: Run tests
+        uses: actions-rs/cargo@v1
+        with:
+          command: test
+          args: --no-fail-fast

.gitignore

@@ -13,15 +13,21 @@ dist
 build
 sourmash.egg-info
 .ipynb_checkpoints
-_minhash.so
 .cache
 *.so
 .coverage
-sourmash_lib/_minhash.cpp
-sourmash/_minhash.cpp
-.asv/
-.eggs/
 .pytest_cache
 .python-version
 sourmash/version.py
-*.DS_Store
+*.DS_Store
+.tox
+sourmash/_lowlevel*.py
+.env
+Pipfile
+Pipfile.lock
+target/
+Cargo.lock
+.eggs
+.asv
+pkg/
+wasm-pack.log