Merge pull request #553 from RADAR-base/v2.3.3

Release 2.3.3

.github/workflows/codeql.yml

@@ -0,0 +1,89 @@
+# For most projects, this workflow file will not need changing; you simply need
+# to commit it to your repository.
+#
+# You may wish to alter this file to override the set of languages analyzed,
+# or to provide custom queries or build logic.
+#
+# ******** NOTE ********
+# We have attempted to detect the languages in your repository. Please check
+# the `language` matrix defined below to confirm you have the correct set of
+# supported CodeQL languages.
+#
+name: "CodeQL"
+
+on:
+  push:
+    branches: [ "main", "dev", "v2" ]
+  pull_request:
+    branches: [ "main", "dev", "v2" ]
+  schedule:
+    - cron: '24 21 * * 0'
+
+jobs:
+  analyze:
+    name: Analyze
+    # Runner size impacts CodeQL analysis time. To learn more, please see:
+    #   - https://gh.io/recommended-hardware-resources-for-running-codeql
+    #   - https://gh.io/supported-runners-and-hardware-resources
+    #   - https://gh.io/using-larger-runners
+    # Consider using larger runners for possible analysis time improvements.
+    runs-on: ${{ (matrix.language == 'swift' && 'macos-latest') || 'ubuntu-latest' }}
+    timeout-minutes: ${{ (matrix.language == 'swift' && 120) || 360 }}
+    permissions:
+      # required for all workflows
+      security-events: write
+
+      # only required for workflows in private repositories
+      actions: read
+      contents: read
+
+    strategy:
+      fail-fast: false
+      matrix:
+        language: [ 'java-kotlin' ]
+        # CodeQL supports [ 'c-cpp', 'csharp', 'go', 'java-kotlin', 'javascript-typescript', 'python', 'ruby', 'swift' ]
+        # Use only 'java-kotlin' to analyze code written in Java, Kotlin or both
+        # Use only 'javascript-typescript' to analyze code written in JavaScript, TypeScript or both
+        # Learn more about CodeQL language support at https://aka.ms/codeql-docs/language-support
+
+    steps:
+      - name: Checkout repository
+        uses: actions/checkout@v4
+
+      - uses: actions/setup-java@v4
+        with:
+          distribution: 'temurin' # See 'Supported distributions' for available options
+          java-version: '17'
+
+      # Initializes the CodeQL tools for scanning.
+      - name: Initialize CodeQL
+        uses: github/codeql-action/init@v3
+        with:
+          languages: ${{ matrix.language }}
+          # If you wish to specify custom queries, you can do so here or in a config file.
+          # By default, queries listed here will override any specified in a config file.
+          # Prefix the list here with "+" to use these queries and those in the config file.
+
+          # For more details on CodeQL's query packs, refer to: https://docs.github.com/en/code-security/code-scanning/automatically-scanning-your-code-for-vulnerabilities-and-errors/configuring-code-scanning#using-queries-in-ql-packs
+          # queries: security-extended,security-and-quality
+
+
+      # Autobuild attempts to build any compiled languages (C/C++, C#, Go, Java, or Swift).
+      # If this step fails, then you should remove it and run the build manually (see below)
+      - name: Autobuild
+        uses: github/codeql-action/autobuild@v3
+
+      # ℹ️ Command-line programs to run using the OS shell.
+      # 📚 See https://docs.github.com/en/actions/using-workflows/workflow-syntax-for-github-actions#jobsjob_idstepsrun
+
+      #   If the Autobuild fails above, remove it and uncomment the following three lines.
+      #   modify them (or add more) to build your code if your project, please refer to the EXAMPLE below for guidance.
+
+      # - run: |
+      #     echo "Run, Build Application using script"
+      #     ./location_of_script_within_repo/buildscript.sh
+
+      - name: Perform CodeQL Analysis
+        uses: github/codeql-action/analyze@v3
+        with:
+          category: "/language:${{matrix.language}}"

.github/workflows/main.yml

@@ -4,9 +4,9 @@ name: CI
 # Run in main and dev branches and in all pull requests to those branches
 on:
   push:
-    branches: [ main, dev ]
+    branches: [ "main", "dev", "v2" ]
   pull_request:
-    branches: [ main, dev ]
+    branches: [ "main", "dev", "v2" ]
 
 env:
   DOCKER_IMAGE: radarbase/radar-output-restructure

.github/workflows/snyk.yaml

@@ -1,8 +1,7 @@
 name: Snyk test
 on:
   pull_request:
-    branches:
-      - main
+    branches: [ "main", "dev", "v2" ]
 
 jobs:
   security:
@@ -29,3 +28,6 @@ jobs:
           --configuration-matching='^runtimeClasspath$'
           --org=radar-base
           --policy-path=$PWD/.snyk
+          --all-projects
+          --severity-threshold=high
+          --fail-on=upgradable

README.md

@@ -70,7 +70,7 @@ When upgrading to version 0.6.0 from version 0.5.x or earlier, please follow the
 This package is available as docker image [`radarbase/radar-output-restructure`](https://hub.docker.com/r/radarbase/radar-output-restructure). The entrypoint of the image is the current application. So in all the commands listed in usage, replace `radar-output-restructure` with for example:
 
 ```shell
-docker run --rm -t --network s3 -v "$PWD/output:/output" radarbase/radar-output-restructure:2.3.2 -o /output /myTopic
+docker run --rm -t --network s3 -v "$PWD/output:/output" radarbase/radar-output-restructure:2.3.3 -o /output /myTopic
 ```
 
 ## Command line usage
@@ -228,7 +228,7 @@ This package requires at least Java JDK 8. Build the distribution with
 and install the package into `/usr/local` with for example
 ```shell
 sudo mkdir -p /usr/local
-sudo tar -xzf build/distributions/radar-output-restructure-2.3.2.tar.gz -C /usr/local --strip-components=1
+sudo tar -xzf build/distributions/radar-output-restructure-2.3.3.tar.gz -C /usr/local --strip-components=1
 ```
 
 Now the `radar-output-restructure` command should be available.

build.gradle.kts

@@ -16,7 +16,7 @@ plugins {
 }
 
 group = "org.radarbase"
-version = "2.3.2"
+version = "2.3.3"
 
 repositories {
     mavenCentral()

gradle.properties

@@ -1,31 +1,31 @@
 kotlin.code.style=official
 
-kotlinVersion=1.7.22
-dokkaVersion=1.7.20
-dockerComposeVersion=0.16.11
+kotlinVersion=1.9.22
+dokkaVersion=1.9.20
+dockerComposeVersion=0.17.5
 dependencyUpdateVersion=0.44.0
 nexusPublishVersion=1.1.0
 jsoupVersion=1.15.3
 
-coroutinesVersion=1.6.4
-avroVersion=1.11.1
-snappyVersion=1.1.8.4
-jacksonVersion=2.14.1
+coroutinesVersion=1.7.3
+avroVersion=1.11.3
+snappyVersion=1.1.10.5
+jacksonVersion=2.15.3
 jCommanderVersion=1.82
 almworksVersion=1.1.2
-minioVersion=8.4.6
+minioVersion=8.5.9
 guavaVersion=31.1-jre
-opencsvVersion=5.7.1
-okhttpVersion=4.10.0
-jedisVersion=4.3.1
-slf4jVersion=2.0.5
-log4jVersion=2.19.0
-azureStorageVersion=12.20.1
-nettyVersion=4.1.85.Final
-snakeYamlVersion=1.33
+opencsvVersion=5.8
+okhttpVersion=4.12.0
+jedisVersion=jedis-3.6.2
+slf4jVersion=2.0.9
+log4jVersion=2.21.0
+azureStorageVersion=12.25.1
+nettyVersion=4.1.100.Final
+snakeYamlVersion=2.2
 apacheCommonsTextVersion=1.10.0
-projectReactorNettyVersion=1.0.24
+projectReactorNettyVersion=1.1.13
 
-junitVersion=5.9.1
-mockitoKotlinVersion=4.1.0
-radarSchemasVersion=0.8.2
+junitVersion=5.10.0
+mockitoKotlinVersion=5.1.0
+radarSchemasVersion=0.8.7

gradle/wrapper/gradle-wrapper.properties

@@ -1,6 +1,6 @@
 distributionBase=GRADLE_USER_HOME
 distributionPath=wrapper/dists
-distributionUrl=https\://services.gradle.org/distributions/gradle-7.6-bin.zip
+distributionUrl=https\://services.gradle.org/distributions/gradle-8.4-bin.zip
 networkTimeout=10000
 zipStoreBase=GRADLE_USER_HOME
 zipStorePath=wrapper/dists