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Merge pull request #84 from clEsperanto/deploy-to-scijava
Deploy to scijava
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| #!/bin/sh | ||
| curl -fsLO https://raw.githubusercontent.com/scijava/scijava-scripts/main/ci-build.sh | ||
| sh ci-build.sh |
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| Original file line number | Diff line number | Diff line change |
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| #!/bin/sh | ||
| curl -fsLO https://raw.githubusercontent.com/scijava/scijava-scripts/main/ci-setup-github-actions.sh | ||
| sh ci-setup-github-actions.sh |
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| Original file line number | Diff line number | Diff line change |
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| --- | ||
| name: build | ||
|
|
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| on: | ||
| push: | ||
| branches: [ main ] | ||
| branches: | ||
| - main | ||
| - deploy-to-scijava | ||
| tags: | ||
| - "*-[0-9]+.*" | ||
| paths-ignore: | ||
| - .github/workflows/build_fast.yaml | ||
| pull_request: | ||
| branches: [ main ] | ||
|
|
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|
|
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| branches: | ||
| - main | ||
| env: | ||
| opencl-icd-loader-git-tag: "v2023.04.17" | ||
| opencl-headers-git-tag: "v2023.04.17" | ||
|
|
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| opencl-icd-loader-git-tag: v2023.04.17 | ||
| opencl-headers-git-tag: v2023.04.17 | ||
| jobs: | ||
| build: | ||
| build-os: | ||
| strategy: | ||
| fail-fast: false | ||
| matrix: | ||
| name: [ubuntu, windows, macos] | ||
| name: | ||
| - ubuntu | ||
| - windows | ||
| - macos | ||
| include: | ||
| - name: ubuntu | ||
| os: ubuntu-latest | ||
| c-compiler: "gcc" | ||
| cxx-compiler: "g++" | ||
| cmake-build-type: "Release" | ||
| c-compiler: gcc | ||
| cxx-compiler: g++ | ||
| cmake-build-type: Release | ||
| cmake-build-flag: "" | ||
| - name: windows | ||
| os: windows-latest | ||
| c-compiler: "cl.exe" | ||
| cxx-compiler: "cl.exe" | ||
| cmake-build-type: "Release" | ||
| cmake-build-flag: "-A x64" | ||
| c-compiler: cl.exe | ||
| cxx-compiler: cl.exe | ||
| cmake-build-type: Release | ||
| cmake-build-flag: -A x64 | ||
| - name: macos | ||
| os: macos-13 | ||
| c-compiler: "clang" | ||
| cxx-compiler: "clang++" | ||
| cmake-build-type: "Release" | ||
| os: macos-14 | ||
| c-compiler: clang | ||
| cxx-compiler: clang++ | ||
| cmake-build-type: Release | ||
| cmake-build-flag: "" | ||
| runs-on: ${{ matrix.os }} | ||
|
|
||
| steps: | ||
| - uses: actions/checkout@v2 | ||
| - uses: ilammy/msvc-dev-cmd@v1 | ||
| - uses: actions/checkout@v4 | ||
| - uses: ilammy/msvc-dev-cmd@v1 | ||
| - name: Set up JDK | ||
| uses: actions/setup-java@v4 | ||
| with: | ||
| java-version: "11" | ||
| distribution: adopt | ||
| - name: Install ocl-icd-loader - windows | ||
| if: runner.os == 'Windows' | ||
| run: | | ||
| cd .. | ||
| - name: Set up JDK | ||
| uses: actions/setup-java@v2 | ||
| with: | ||
| java-version: '11' | ||
| distribution: 'adopt' | ||
| git clone --branch ${{ env.opencl-icd-loader-git-tag }} https://github.com/KhronosGroup/OpenCL-ICD-Loader | ||
| - name: Install ocl-icd-loader - windows | ||
| if: runner.os == 'Windows' | ||
| run: | | ||
| cd .. | ||
| git clone --branch ${{ env.opencl-icd-loader-git-tag }} https://github.com/KhronosGroup/OpenCL-ICD-Loader | ||
| git clone --branch ${{ env.opencl-headers-git-tag }} https://github.com/KhronosGroup/OpenCL-Headers | ||
| cmake -S "./OpenCL-Headers" -B "./OpenCL-Headers/build" | ||
| cmake --build "./OpenCL-Headers/build" --parallel 6 --target install | ||
| cmake -D CMAKE_PREFIX_PATH="./OpenCL-Headers" -D OPENCL_ICD_LOADER_HEADERS_DIR="./OpenCL-Headers/" -S "./OpenCL-ICD-Loader" -B "./OpenCL-ICD-Loader/build" -A x64 | ||
| cmake --build "./OpenCL-ICD-Loader/build" --parallel 6 --target install --config Release | ||
| shell: bash -l {0} | ||
| git clone --branch ${{ env.opencl-headers-git-tag }} https://github.com/KhronosGroup/OpenCL-Headers | ||
| cmake -S "./OpenCL-Headers" -B "./OpenCL-Headers/build" | ||
| cmake --build "./OpenCL-Headers/build" --parallel 6 --target install | ||
| cmake -D CMAKE_PREFIX_PATH="./OpenCL-Headers" -D OPENCL_ICD_LOADER_HEADERS_DIR="./OpenCL-Headers/" -S "./OpenCL-ICD-Loader" -B "./OpenCL-ICD-Loader/build" -A x64 | ||
| cmake --build "./OpenCL-ICD-Loader/build" --parallel 6 --target install --config Release | ||
| shell: bash -l {0} | ||
| - name: Increase swapfile on Ubuntu | ||
| if: runner.os == 'Linux' | ||
| run: | | ||
| sudo swapoff -a | ||
| sudo fallocate -l 15G /swapfile | ||
| sudo chmod 600 /swapfile | ||
| sudo mkswap /swapfile | ||
| sudo swapon /swapfile | ||
| sudo swapon --show | ||
| - name: Install openCL on Ubuntu | ||
| if: runner.os == 'Linux' | ||
| run: sudo apt install ocl-icd-opencl-dev | ||
| - name: Build with Maven | ||
| run: mvn clean install -DskipTests | ||
| shell: bash | ||
| - name: Run Java class (only possible on MacOS intel) | ||
| if: contains(matrix.os, 'macos') | ||
| run: > | ||
| if [[ $(uname -m) == 'x86_64' ]]; then | ||
| mvn dependency:build-classpath -Dmdep.outputFile=classpath.txt | ||
| java -cp target/classes:$(cat classpath.txt) net.clesperanto.ClesperantoJ | ||
| fi | ||
| - name: Get Maven Version and Upload Artifact | ||
| shell: bash | ||
| run: | | ||
| MVN_VERSION=$(mvn -q \ | ||
| -Dexec.executable=echo \ | ||
| -Dexec.args='${project.version}' \ | ||
| --non-recursive \ | ||
| exec:exec) | ||
| MVN_NAME=$(mvn -q \ | ||
| -Dexec.executable=echo \ | ||
| -Dexec.args='${project.name}' \ | ||
| --non-recursive \ | ||
| exec:exec) | ||
| echo "version=${MVN_VERSION}" >> $GITHUB_OUTPUT | ||
| echo "name=${MVN_NAME}" >> $GITHUB_OUTPUT | ||
| id: mvn_info | ||
| - name: Upload native library | ||
| uses: actions/upload-artifact@v4 | ||
| with: | ||
| name: ${{ matrix.name }}-artifact | ||
| path: target/${{steps.mvn_info.outputs.name}}-${{steps.mvn_info.outputs.version}}.jar | ||
| build: | ||
| needs: build-os | ||
| runs-on: macos-13 | ||
| steps: | ||
| - uses: actions/checkout@v4 | ||
| - name: Set up JDK 8 | ||
| uses: actions/setup-java@v4 | ||
| with: | ||
| java-version: "8" | ||
| distribution: zulu | ||
| cache: maven | ||
| - name: Download all platform-specific JAR files | ||
| uses: actions/download-artifact@v4 | ||
| - name: Get Maven Version | ||
| run: | | ||
| MVN_VERSION=$(mvn -q \ | ||
| -Dexec.executable=echo \ | ||
| -Dexec.args='${project.version}' \ | ||
| --non-recursive \ | ||
| exec:exec) | ||
| MVN_NAME=$(mvn -q \ | ||
| -Dexec.executable=echo \ | ||
| -Dexec.args='${project.name}' \ | ||
| --non-recursive \ | ||
| exec:exec) | ||
| echo "version=${MVN_VERSION}" >> $GITHUB_OUTPUT | ||
| echo "name=${MVN_NAME}" >> $GITHUB_OUTPUT | ||
| id: mvn_info | ||
| - name: Extract compiled native libraries to target fodler libs | ||
| run: | | ||
| jar xf ubuntu-artifact/${{steps.mvn_info.outputs.name}}-${{steps.mvn_info.outputs.version}}.jar net/clesperanto/linux-x86_64 | ||
| - name: Increase swapfile on Ubuntu | ||
| if: runner.os == 'Linux' | ||
| run: | | ||
| sudo swapoff -a | ||
| sudo fallocate -l 15G /swapfile | ||
| sudo chmod 600 /swapfile | ||
| sudo mkswap /swapfile | ||
| sudo swapon /swapfile | ||
| sudo swapon --show | ||
| jar xf windows-artifact/${{steps.mvn_info.outputs.name}}-${{steps.mvn_info.outputs.version}}.jar net/clesperanto/windows-x86_64 | ||
| - name: Install openCL on Ubuntu | ||
| if: runner.os == 'Linux' | ||
| run: sudo apt install ocl-icd-opencl-dev | ||
| jar xf macos-artifact/${{steps.mvn_info.outputs.name}}-${{steps.mvn_info.outputs.version}}.jar net/clesperanto/macosx-arm64 | ||
| - name: Build with Maven | ||
| run: mvn clean install -DskipTests | ||
| shell: bash | ||
| mkdir -p libs | ||
| - name: Run Java class (only possible on MacOS) | ||
| if: contains(matrix.os, 'macos') | ||
| run: | | ||
| mvn dependency:build-classpath -Dmdep.outputFile=classpath.txt | ||
| java -cp target/classes:$(cat classpath.txt) net.clesperanto.ClesperantoJ | ||
| mv net/clesperanto/* libs/ | ||
| - name: Set up CI environment | ||
| run: .github/setup.sh | ||
| - name: Execute the build | ||
| run: .github/build.sh | ||
| env: | ||
| GPG_KEY_NAME: ${{ secrets.GPG_KEY_NAME }} | ||
| GPG_PASSPHRASE: ${{ secrets.GPG_PASSPHRASE }} | ||
| MAVEN_USER: ${{ secrets.MAVEN_USER }} | ||
| MAVEN_PASS: ${{ secrets.MAVEN_PASS }} | ||
| OSSRH_PASS: ${{ secrets.OSSRH_PASS }} | ||
| SIGNING_ASC: ${{ secrets.SIGNING_ASC }} |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,44 @@ | ||
| name: build fast | ||
| on: | ||
| push: | ||
| branches: | ||
| - main | ||
| - deploy-to-scijava | ||
| tags: | ||
| - "*-[0-9]+.*" | ||
| pull_request: | ||
| branches: | ||
| - main | ||
| env: | ||
| opencl-icd-loader-git-tag: v2023.04.17 | ||
| opencl-headers-git-tag: v2023.04.17 | ||
| jobs: | ||
| build: | ||
| runs-on: macos-13 | ||
| steps: | ||
| - uses: actions/checkout@v4 | ||
| - name: Set up JDK 8 | ||
| uses: actions/setup-java@v4 | ||
| with: | ||
| java-version: "8" | ||
| distribution: zulu | ||
| cache: maven | ||
| - name: Check secrets are set | ||
| run: | | ||
| if [ -z "$GPG_KEY_NAME" ]; then echo "GPG_KEY_NAME is not set"; fi | ||
| if [ -z "$GPG_PASSPHRASE" ]; then echo "GPG_PASSPHRASE is not set"; fi | ||
| if [ -z "$MAVEN_USER" ]; then echo "MAVEN_USER is not set"; fi | ||
| if [ -z "$MAVEN_PASS" ]; then echo "MAVEN_PASS is not set"; fi | ||
| if [ -z "$OSSRH_PASS" ]; then echo "OSSRH_PASS is not set"; fi | ||
| if [ -z "$SIGNING_ASC" ]; then echo "SIGNING_ASC is not set"; fi | ||
| - name: Set up CI environment | ||
| run: .github/setup.sh | ||
| - name: Execute the build | ||
| run: .github/build.sh | ||
| env: | ||
| GPG_KEY_NAME: ${{ secrets.GPG_KEY_NAME }} | ||
| GPG_PASSPHRASE: ${{ secrets.GPG_PASSPHRASE }} | ||
| MAVEN_USER: ${{ secrets.MAVEN_USER }} | ||
| MAVEN_PASS: ${{ secrets.MAVEN_PASS }} | ||
| OSSRH_PASS: ${{ secrets.OSSRH_PASS }} | ||
| SIGNING_ASC: ${{ secrets.SIGNING_ASC }} |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,6 +1,10 @@ | ||
| name: ClesperantoJ tests | ||
|
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| on: [push] | ||
| on: | ||
| push: | ||
| branches: [ main ] | ||
| pull_request: | ||
| branches: [ main ] | ||
|
|
||
| jobs: | ||
| test: | ||
|
|
||
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,27 @@ | ||
| Copyright 2024 Stéphane Rigaud, Robert Haase, Institut Pasteur Paris, Max Planck Institute for Molecular Cell Biology and Genetics Dresden, ScaDS.AI, Leipzig University | ||
|
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| Redistribution and use in source and binary forms, with or without | ||
| modification, are permitted provided that the following conditions are met: | ||
|
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| 1. Redistributions of source code must retain the above copyright notice, | ||
| this list of conditions and the following disclaimer. | ||
|
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| 2. Redistributions in binary form must reproduce the above copyright notice, | ||
| this list of conditions and the following disclaimer in the documentation | ||
| and/or other materials provided with the distribution. | ||
|
|
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| 3. Neither the name of the copyright holder nor the names of its contributors | ||
| may be used to endorse or promote products derived from this software without | ||
| specific prior written permission. | ||
|
|
||
| THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" | ||
| AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE | ||
| IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE | ||
| ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE | ||
| LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR | ||
| CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF | ||
| SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS | ||
| INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN | ||
| CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) | ||
| ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE | ||
| POSSIBILITY OF SUCH DAMAGE. |
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32 changes: 32 additions & 0 deletions
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src/main/java/net/clesperanto/ImagePlusClesperantoJExample.java
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