First commit

.github/workflows/build.yml

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+name: nf-hello CI
+on:
+  push:
+    branches:
+      - '*'
+    tags-ignore:
+      - '*'
+  pull_request:
+    branches:
+      - '*'
+jobs:
+  build:
+    name: Build nf-hello
+    if: "!contains(github.event.head_commit.message, '[ci skip]')"
+    runs-on: ubuntu-latest
+    timeout-minutes: 10
+    strategy:
+      fail-fast: false
+      matrix:
+        java_version: [8, 11]
+
+    steps:
+      - name: Environment
+        run: env | sort
+
+      - name: Checkout
+        uses: actions/checkout@v1
+        with:
+          fetch-depth: 1
+          submodules: true
+
+      - name: Setup Java ${{ matrix.java_version }}
+        uses: actions/setup-java@v1
+        with:
+          java-version: ${{matrix.java_version}}
+          architecture: x64
+
+      - name: Compile
+        run: ./gradlew assemble
+
+      - name: Tests
+        run: ./gradlew check
+        env:
+          GRADLE_OPTS: '-Dorg.gradle.daemon=false'
+

.gitignore

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+# Ignore Gradle project-specific cache directory
+.gradle
+.idea
+.nextflow
+
+# Ignore Gradle build output directory
+build
+work
+out

COPYING

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+
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+
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+      agreed to in writing, Licensor provides the Work (and each
+      Contributor provides its Contributions) on an "AS IS" BASIS,
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+      whether in tort (including negligence), contract, or otherwise,
+      unless required by applicable law (such as deliberate and grossly
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+

Makefile

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+
+config ?= compileClasspath
+
+ifdef module 
+mm = :${module}:
+else 
+mm = 
+endif 
+
+clean:
+	./gradlew clean
+
+compile:
+	./gradlew compileGroovy
+	@echo "DONE `date`"
+
+
+check:
+	./gradlew check
+
+
+#
+# Show dependencies try `make deps config=runtime`, `make deps config=google`
+#
+deps:
+	./gradlew -q ${mm}dependencies --configuration ${config}
+
+deps-all:
+	./gradlew -q dependencyInsight --configuration ${config} --dependency ${module}
+
+#
+# Refresh SNAPSHOTs dependencies
+#
+refresh:
+	./gradlew --refresh-dependencies 
+
+#
+# Run all tests or selected ones
+#
+test:
+ifndef class
+	./gradlew ${mm}test
+else
+	./gradlew ${mm}test --tests ${class}
+endif
+
+
+
+#
+# Upload JAR artifacts to Maven Central
+#
+upload:
+	./gradlew upload
+
+
+upload-plugins:
+	./gradlew plugins:upload
+
+publish-index:
+	./gradlew plugins:publishIndex

README.md

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+# nf-hello plugin 
+
+This project shows how to implement a simple Nextflow plugin named `nf-hello` that intercepts 
+workflow execution events to print a message when the execution starts and on workflow completion.
+
+## Plugin assets 
+                    
+- `settings.gradle`
+
+    Gradle project settings. 
+
+- `plugins/nf-hello`
+
+    The plugin implementation base directory.
+
+- `plugins/nf-hello/build.gradle` 
+
+    Plugin Gradle build file. Project dependencies should be added here.
+
+- `plugins/nf-hello/src/resources/META-INF/MANIFEST.MF` 
+
+    Manifest file defining the plugin attributes e.g. name, version, etc.
+    The attribute `Plugin-Class` declares the plugin main class. This class 
+    should extend the base class `nextflow.plugin.BasePlugin` e.g. 
+    `nextflow.hello.HelloPlugin`.
+
+- `plugins/nf-hello/src/resources/META-INF/extensions.idx`
+
+    This file declares one or more extension classes provided by the plugin. 
+    Each line should contain a Java class fully qualified name implementing 
+    the interface `org.pf4j.ExtensionPoint` (or a sub-interface).
+
+- `plugins/nf-hello/src/main` 
+
+    The plugin implementation sources.
+
+- `plugins/nf-hello/src/test` 
+
+    The plugin unit tests. 
+
+## Compile & run unit tests 
+
+Run the following command in the project root directory (ie. where the file `settings.gradle` is located):
+
+    ./gradlew check
+
+## Run and debug plugin in the development environment
+
+To run and test the plugin in the development environment, configure a local Nextflow build 
+using the following steps:
+
+1. Clone the Nextflow repository in your computer into a sibling directory:
+
+    ```
+    git clone --depth 1 https://github.com/nextflow-io/nextflow ../nextflow
+    ```
+
+2. Instruct the plugin build setting to use the local Nextflow code, adding the following 
+  line in the file `settings.gradle`: 
+
+    ```
+    echo "includeBuild('../nextflow')" >> settings.gradle
+    ```
+
+  (make sure to not add it more than once..)
+
+3. Compile the plugin along the Nextflow code, with this command:
+
+    ```
+    ./gradlew compileGroovy
+    ```
+
+4. Run Nextflow with plugins using the `./launch.sh` script as a drop-in replacement for the `nextflow` command and 
+  adding the option `-plugins nf-hello` to load the built plugin:
+
+    ```
+    ./launch.sh run nextflow-io/hello -plugins nf-hello
+    ```
+
+## Package, upload and publish
+
+The project should hosted in a GitHub repository whose name should match the name of the plugin,
+that is the name of the directory in the `plugins` folder e.g. `nf-hello` in this project.
+
+Following these step to package, upload and publish the plugin:
+
+1. Create a file named `gradle.properties` in the project root containing the following attributes
+   (this file should not be committed in the project repository):
+
+  * `github_organization`: the GitHub organisation the plugin project is hosted
+  * `github_username` The GitHub username granting access to the plugin project.
+  * `github_access_token`:  The GitHub access token required to upload and commit changes in the plugin repository.
+  * `github_commit_email`:  The email address associated with your GitHub account.
+
+2. The following command, package and upload the plugin in the GitHub project releases page:
+
+    ```
+    ./gradlew :plugins:nf-hello:upload
+    ```
+
+3. Create a pull request against the [nextflow-io/plugins](https://github.com/nextflow-io/plugins/blob/main/plugins.json) 
+  project to make the plugin public accessible to Nextflow app. 
+