Update

.env

@@ -0,0 +1,5 @@
+APP_IMAGE=gdcc/dataverse:unstable
+POSTGRES_VERSION=17
+DATAVERSE_DB_USER=dataverse
+SOLR_VERSION=9.8.0
+SKIP_DEPLOY=0

.gitattributes

@@ -0,0 +1,4 @@
+# https://www.git-scm.com/docs/gitattributes
+
+# This set mandatory LF line endings for .sh files preventing from windows users to having to change the value of their git config --global core.autocrlf to 'false' or 'input'
+*.sh text eol=lf

.github/CODEOWNERS

@@ -0,0 +1,8 @@
+
+# Any container related stuff should be assigned to / reviewed by Oliver and/or Phil
+modules/container-configbaker/** @poikilotherm @pdurbin
+modules/container-base/** @poikilotherm @pdurbin
+src/main/docker/** @poikilotherm @pdurbin
+docker-compose-dev.yml @poikilotherm @pdurbin
+.github/workflows/scripts/containers** @poikilotherm @pdurbin
+.github/workflows/container_* @poikilotherm @pdurbin

.github/ISSUE_TEMPLATE/bug_report.md

@@ -0,0 +1,58 @@
+---
+name: Bug report
+about: Did you encounter something unexpected or incorrect in the Dataverse software?
+  We'd like to hear about it!
+title: ''
+labels: 'Type: Bug'
+assignees: ''
+
+---
+
+<!--
+Thank you for contributing to the Dataverse Project through the creation of a bug report!
+
+WARNING: If this is a security issue it should be reported privately to security@dataverse.org
+
+More information on bug issues and contributions can be found in the "Contributing to Dataverse" page:
+https://guides.dataverse.org/en/latest/contributor/index.html
+
+Please fill out as much of the template as you can.
+Start below this comment section.
+-->
+**What steps does it take to reproduce the issue?**
+
+* When does this issue occur?
+
+
+* Which page(s) does it occurs on?
+
+
+* What happens?
+
+
+* To whom does it occur (all users, curators, superusers)?
+
+
+* What did you expect to happen?
+
+
+
+**Which version of Dataverse are you using?**
+
+
+
+**Any related open or closed issues to this bug report?**
+
+
+**Screenshots:**
+
+No matter the issue, screenshots are always welcome.
+
+To add a screenshot, please use one of the following formats and/or methods described here:
+
+* https://help.github.com/en/articles/file-attachments-on-issues-and-pull-requests
+*
+
+
+**Are you thinking about creating a pull request for this issue?**
+Help is always welcome, is this bug something you or your organization plan to fix?

.github/ISSUE_TEMPLATE/feature_request.md

@@ -0,0 +1,39 @@
+---
+name: Feature request
+about: Suggest an idea or new feature for the Dataverse software!
+title: 'Feature Request:'
+labels: 'Type: Feature'
+assignees: ''
+
+---
+
+<!--
+Thank you for contributing to the Dataverse Project through the creation of a feature request!
+
+More information on ideas/feature requests and contributions can be found in the "Contributing to Dataverse" page:
+https://guides.dataverse.org/en/latest/contributor/index.html
+
+Please fill out as much of the template as you can.
+Start below this comment section.
+-->
+
+**Overview of the Feature Request**
+
+
+**What kind of user is the feature intended for?**
+(Example users roles: API User, Curator, Depositor, Guest, Superuser, Sysadmin)
+
+
+**What inspired the request?**
+
+
+**What existing behavior do you want changed?**
+
+
+**Any brand new behavior do you want to add to Dataverse?**
+
+
+**Any open or closed issues related to this feature request?**
+
+**Are you thinking about creating a pull request for this feature?**  
+Help is always welcome, is this feature something you or your organization plan to implement?

.github/ISSUE_TEMPLATE/idea_proposal.md

@@ -0,0 +1,40 @@
+---
+name: Idea proposal
+about: Propose a new idea for discussion to improve the Dataverse software!
+title: 'Suggestion:'
+labels: 'Type: Suggestion'
+assignees: ''
+
+---
+
+<!--
+Thank you for contributing to the Dataverse Project through the creation of a feature request!
+
+More information on ideas/feature requests and contributions can be found in the "Contributing to Dataverse" page:
+https://guides.dataverse.org/en/latest/contributor/index.html
+
+Please fill out as much of the template as you can.
+Start below this comment section.
+-->
+
+**Overview of the Suggestion**
+
+
+**What kind of user is the suggestion intended for?**
+(Example users roles: API User, Curator, Depositor, Guest, Superuser, Sysadmin)
+
+
+**What inspired this idea?**
+
+
+**What existing behavior do you want changed?**
+
+
+**Any brand new behavior do you want to add to Dataverse?**
+
+
+**Any open or closed issues related to this suggestion?**
+
+
+**Are you thinking about creating a pull request for this issue?**
+Help is always welcome, is this idea something you or your organization plan to implement?

.github/PULL_REQUEST_TEMPLATE.md

@@ -0,0 +1,15 @@
+**What this PR does / why we need it**:
+
+**Which issue(s) this PR closes**:
+
+- Closes #
+
+**Special notes for your reviewer**:
+
+**Suggestions on how to test this**:
+
+**Does this PR introduce a user interface change? If mockups are available, please link/include them here**:
+
+**Is there a release notes update needed for this change?**:
+
+**Additional documentation**:

.github/SECURITY.md

@@ -0,0 +1,7 @@
+# Security
+
+To report a security vulnerability please email security@dataverse.org as explained at https://guides.dataverse.org/en/latest/installation/config.html#reporting-security-issues
+
+Advice on securing your installation can be found at https://guides.dataverse.org/en/latest/installation/config.html#securing-your-installation
+
+Security practices and procedures used by the Dataverse team are described at https://guides.dataverse.org/en/latest/developers/security.html

.github/actions/setup-maven/action.yml

@@ -0,0 +1,37 @@
+---
+name: "Setup Maven and Caches"
+description: "Determine Java version and setup Maven, including necessary caches."
+inputs:
+  git-reference:
+    description: 'The git reference (branch/tag) to check out'
+    required: false
+    default: '${{ github.ref }}'
+  pom-paths:
+    description: "List of paths to Maven POM(s) for cache dependency setup"
+    required: false
+    default: 'pom.xml'
+runs:
+  using: composite
+  steps:
+    - name: Checkout repository
+      uses: actions/checkout@v5
+      with:
+        ref: ${{ inputs.git-reference }}
+    - name: Determine Java version by reading the Maven property
+      shell: bash
+      run: |
+        echo "JAVA_VERSION=$(grep '<target.java.version>' ${GITHUB_WORKSPACE}/modules/dataverse-parent/pom.xml | cut -f2 -d'>' | cut -f1 -d'<')" | tee -a ${GITHUB_ENV}
+    - name: Set up JDK ${{ env.JAVA_VERSION }}
+      id: setup-java
+      uses: actions/setup-java@v5
+      with:
+        java-version: ${{ env.JAVA_VERSION }}
+        distribution: 'temurin'
+        cache: 'maven'
+        cache-dependency-path: ${{ inputs.pom-paths }}
+    - name: Download common cache on branch cache miss
+      if: ${{ steps.setup-java.outputs.cache-hit != 'true' }}
+      uses: actions/cache/restore@v4
+      with:
+        key: dataverse-maven-cache
+        path: ~/.m2/repository

.github/dependabot.yml

@@ -0,0 +1,11 @@
+# Set update schedule for GitHub Actions
+# https://docs.github.com/en/code-security/supply-chain-security/keeping-your-dependencies-updated-automatically/keeping-your-actions-up-to-date-with-dependabot
+
+version: 2
+updates:
+
+  - package-ecosystem: "github-actions"
+    directory: "/"
+    schedule:
+      # Check for updates to GitHub Actions daily
+      interval: "daily"

.github/workflows/add_bugs_to_project.yml

@@ -0,0 +1,18 @@
+name: Add bugs to project board
+
+on:
+  issues:
+    types:
+      - opened
+      - labeled
+
+jobs:
+  add-to-project:
+    name: Add bug to project
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/add-to-project@v2.0.0
+        with:
+          project-url: https://github.com/orgs/IQSS/projects/34
+          github-token: ${{ secrets.ADD_TO_PROJECT_PAT }}
+          labeled: "Type: Bug"

.github/workflows/check_property_files.yml

@@ -0,0 +1,32 @@
+name: "Properties Check"
+on:
+    pull_request:
+        paths:
+            - "src/**/*.properties"
+            - "scripts/api/data/metadatablocks/*"
+jobs:
+    duplicate_keys:
+        name: Duplicate Keys
+        runs-on: ubuntu-latest
+        steps:
+            - uses: actions/checkout@v6
+            - name: Run duplicates detection script
+              shell: bash
+              run: tests/check_duplicate_properties.sh
+
+    metadata_blocks_properties:
+        name: Metadata Blocks Properties
+        runs-on: ubuntu-latest
+        steps:
+            - uses: actions/checkout@v6
+            - name: Setup GraalVM + Native Image
+              uses: graalvm/setup-graalvm@v1
+              with:
+                github-token: ${{ secrets.GITHUB_TOKEN }}
+                java-version: '21'
+                distribution: 'graalvm-community'
+            - name: Setup JBang
+              uses: jbangdev/setup-jbang@main
+            - name: Run metadata block properties verification script
+              shell: bash
+              run: tests/verify_mdb_properties.sh

.github/workflows/codeql.yml

@@ -0,0 +1,104 @@
+# 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 Advanced"
+
+on:
+  push:
+    branches: [ "develop", "master" ]
+  pull_request:
+    branches: [ "develop", "master" ]
+  schedule:
+    - cron: '30 6 * * 4'
+
+jobs:
+  analyze:
+    name: Analyze (${{ matrix.language }})
+    # 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 (GitHub.com only)
+    # Consider using larger runners or machines with greater resources for possible analysis time improvements.
+    runs-on: ${{ (matrix.language == 'swift' && 'macos-latest') || 'ubuntu-latest' }}
+    permissions:
+      # required for all workflows
+      security-events: write
+
+      # required to fetch internal or private CodeQL packs
+      packages: read
+
+      # only required for workflows in private repositories
+      actions: read
+      contents: read
+
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+        - language: actions
+          build-mode: none
+        - language: java-kotlin
+          build-mode: none # This mode only analyzes Java. Set this to 'autobuild' or 'manual' to analyze Kotlin too.
+        - language: javascript-typescript
+          build-mode: none
+        - language: python
+          build-mode: none
+        # CodeQL supports the following values keywords for 'language': 'actions', 'c-cpp', 'csharp', 'go', 'java-kotlin', 'javascript-typescript', 'python', 'ruby', 'swift'
+        # Use `c-cpp` to analyze code written in C, C++ or both
+        # Use 'java-kotlin' to analyze code written in Java, Kotlin or both
+        # Use 'javascript-typescript' to analyze code written in JavaScript, TypeScript or both
+        # To learn more about changing the languages that are analyzed or customizing the build mode for your analysis,
+        # see https://docs.github.com/en/code-security/code-scanning/creating-an-advanced-setup-for-code-scanning/customizing-your-advanced-setup-for-code-scanning.
+        # If you are analyzing a compiled language, you can modify the 'build-mode' for that language to customize how
+        # your codebase is analyzed, see https://docs.github.com/en/code-security/code-scanning/creating-an-advanced-setup-for-code-scanning/codeql-code-scanning-for-compiled-languages
+    steps:
+    - name: Checkout repository
+      uses: actions/checkout@v6
+
+    # Add any setup steps before running the `github/codeql-action/init` action.
+    # This includes steps like installing compilers or runtimes (`actions/setup-node`
+    # or others). This is typically only required for manual builds.
+    # - name: Setup runtime (example)
+    #   uses: actions/setup-example@v1
+
+    # Initializes the CodeQL tools for scanning.
+    - name: Initialize CodeQL
+      uses: github/codeql-action/init@v4
+      with:
+        languages: ${{ matrix.language }}
+        build-mode: ${{ matrix.build-mode }}
+        # If you wish to specify custom queries, you can do so here or in a config file.
+        # By default, queries listed here will override any specified in a config file.
+        # Prefix the list here with "+" to use these queries and those in the config file.
+
+        # For more details on CodeQL's query packs, refer to: https://docs.github.com/en/code-security/code-scanning/automatically-scanning-your-code-for-vulnerabilities-and-errors/configuring-code-scanning#using-queries-in-ql-packs
+        # queries: security-extended,security-and-quality
+
+    # If the analyze step fails for one of the languages you are analyzing with
+    # "We were unable to automatically build your code", modify the matrix above
+    # to set the build mode to "manual" for that language. Then modify this step
+    # to build your code.
+    # ℹ️ Command-line programs to run using the OS shell.
+    # 📚 See https://docs.github.com/en/actions/using-workflows/workflow-syntax-for-github-actions#jobsjob_idstepsrun
+    - if: matrix.build-mode == 'manual'
+      shell: bash
+      run: |
+        echo 'If you are using a "manual" build mode for one or more of the' \
+          'languages you are analyzing, replace this with the commands to build' \
+          'your code, for example:'
+        echo '  make bootstrap'
+        echo '  make release'
+        exit 1
+
+    - name: Perform CodeQL Analysis
+      uses: github/codeql-action/analyze@v4
+      with:
+        category: "/language:${{matrix.language}}"