SonarCloud detecting PRs but not changed files in a PR

SonarQube Cloud
, ,
1

I am using SonarCloud in a private Java & Scala based maven project in a Github Repo.

My Github Actions workflow file is like below

name: Pull-Request Checks

on:
  pull_request:
  workflow_dispatch:
    inputs:
      branch:
        type: string
        description: The branch, tag or SHA to checkout
        required: true
  schedule:
    - cron: '0 */6 * * *'  # Runs every 6 hours on default branch, main

jobs:

  Unit-Tests:
    runs-on: nexla-dind-runners
    steps:
      - name: Checkout
        uses: actions/checkout@v4
        with:
          fetch-depth: 0
          ref: ${{ github.event_name == 'workflow_dispatch' && github.event.inputs.branch || github.event_name == 'pull_request' && github.event.pull_request.head.ref || github.ref_name }}

      - name: Code Artifact Login
        uses: nexla/cloud-actions/actions/code-artifact-login@v1

      - name: Set up JDK
        uses: actions/setup-java@v4
        with:
          java-version: 17
          distribution: corretto

      - uses: sdkman/sdkman-action@master
        id: sdkman
        with:
          candidate: scala
          version: 2.12.18

      - name: Set up Maven
        uses: stCarolas/setup-maven@v5
        with:
          maven-version: 3.9.9

      - name: Restore Maven cache
        uses: actions/cache@v4
        with:
          path: |
            ~/.m2/repository
          key: maven-${{ hashFiles('**/pom.xml') }}
          restore-keys: |
            maven-

      - name: Build with Maven
        env:
          MAVEN_OPTS: -Xmx8g -XX:+HeapDumpOnOutOfMemoryError -XX:HeapDumpPath=/root/.m2/heapdump
        shell: bash
        run: |
          echo "Running unit tests"
          mvn clean install -T 1 -Dsonar.skip=true --settings .mvn/local-settings.xml --no-transfer-progress

      - name: Display JaCoCo XML Report
        run: |
          echo "Printing JaCoCo aggregate XML report"
          cat coverage/target/site/jacoco-aggregate/jacoco.xml

      - name: Fetch base branch
        if: github.event_name == 'pull_request'
        run: git fetch origin ${{ github.event.pull_request.base.ref }}

      - name: Analyze on SonarCloud
        env:
          SONAR_TOKEN: ${{ secrets.SONAR_TOKEN }}
        run: |
          if [[ "${{ github.event_name }}" == "pull_request" ]]; then
            mvn sonar:sonar --settings .mvn/local-settings.xml \
              -Dsonar.log.level=INFO \
              -Dorg.slf4j.simpleLogger.log.org.sonarsource.scanner.lib.internal.facade.forked.ScannerEngineLauncher=INFO \
              -Dsonar.projectKey=${{ secrets.SONAR_PROJECT_KEY }} \
              -Dsonar.organization=${{ secrets.SONAR_ORGANIZATION }} \
              -Dsonar.host.url=https://sonarcloud.io \
              -Dsonar.login=${{ secrets.SONAR_TOKEN }} \
              -Dsonar.pullrequest.key=${{ github.event.pull_request.number }} \
              -Dsonar.pullrequest.branch=${{ github.head_ref }} \
              -Dsonar.pullrequest.base=${{ github.base_ref }} \
              -Dsonar.coverage.jacoco.xmlReportPaths=${{ github.workspace }}/coverage/target/site/jacoco-aggregate/jacoco.xml
          else
            mvn sonar:sonar --settings .mvn/local-settings.xml \
              -Dsonar.log.level=INFO \
              -Dorg.slf4j.simpleLogger.log.org.sonarsource.scanner.lib.internal.facade.forked.ScannerEngineLauncher=INFO \
              -Dsonar.projectKey=${{ secrets.SONAR_PROJECT_KEY }} \
              -Dsonar.organization=${{ secrets.SONAR_ORGANIZATION }} \
              -Dsonar.host.url=https://sonarcloud.io \
              -Dsonar.login=${{ secrets.SONAR_TOKEN }} \
              -Dsonar.coverage.jacoco.xmlReportPaths=${{ github.workspace }}/coverage/target/site/jacoco-aggregate/jacoco.xml
          fi

I am observing that sonar is detecting PRs but not the changed files within the PR.

Screenshot 2025-06-30 at 10.56.38 PM
Screenshot 2025-06-30 at 10.56.38 PM1920×518 48.5 KB

Automatic analysis is disabled

Screenshot 2025-06-30 at 10.57.51 PM
Screenshot 2025-06-30 at 10.57.51 PM1712×324 26.9 KB

New Code is set to previous version.

Sonar Analysis logs are placed here.

Can someone let me know what is going wrong?

2

If I maven the command like below it is working. Can someone explain the reasoning behind this?

            mvn clean package sonar:sonar -T 3 --settings ./.mvn/local-settings.xml -T 1 --no-transfer-progress \
              -Dsonar.projectKey=${{ secrets.SONAR_PROJECT_KEY }} \
              -Dsonar.organization=${{ secrets.SONAR_ORGANIZATION }} \
              -Dsonar.host.url=https://sonarcloud.io \
              -Dsonar.login=${{ secrets.SONAR_TOKEN }} \
              -Dsonar.pullrequest.key=${{ github.event.pull_request.number }} \
              -Dsonar.pullrequest.branch=${{ github.head_ref }} \
              -Dsonar.pullrequest.base=${{ github.base_ref }}
          else
            mvn clean package sonar:sonar -T 3 --settings ./.mvn/local-settings.xml -T 1 --no-transfer-progress \
              -Dsonar.projectKey=${{ secrets.SONAR_PROJECT_KEY }} \
              -Dsonar.organization=${{ secrets.SONAR_ORGANIZATION }} \
              -Dsonar.host.url=https://sonarcloud.io \
              -Dsonar.login=${{ secrets.SONAR_TOKEN }} 
          fi
3

Hey there.

In the logs you shared it shows that 0 files have been indexed.

[INFO] 0 files indexed (done) | time=33ms`

Can you share the logs from a working run? That might give some clues on what the difference is.