Fix header dependency issues when building with GCC 13 #3
Workflow file for this run
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| name: Self-hosted CI | |
| on: | |
| pull_request: | |
| branches: [ master ] | |
| paths-ignore: | |
| - '**.md' | |
| workflow_dispatch: | |
| jobs: | |
| check-prerequisites: | |
| name: Check prerequisites | |
| runs-on: [self-hosted, kmc] | |
| env: | |
| DATA_DIR: ../../../../data | |
| SCRIPT: tests/kmc_CLI/check-prerequisites.py | |
| steps: | |
| - name: Check prerequisites | |
| run: | | |
| chmod +x $SCRIPT | |
| /usr/bin/time -v $SCRIPT $DATA_DIR | |
| prepare-small-fastq-tests: | |
| name: Prepare small fastq tests | |
| runs-on: [self-hosted, kmc] | |
| env: | |
| TRIVIAL_COUNTER: tests/kmc_CLI/trivial-k-mer-counter/bin/counter | |
| DATA_DIR: ../../../../data | |
| SCRIPT: tests/kmc_CLI/prepare_small_fastq_tests.py | |
| FILE_TO_GET_PART_FROM: F.vesca/SRR072005.fastq.gz | |
| steps: | |
| - name: Compile trivial counter | |
| run: | | |
| (cd tests/kmc_CLI/trivial-k-mer-counter; /usr/bin/time -v make) | |
| - name: Prepare pattern data | |
| run: | | |
| chmod +x $SCRIPT | |
| /usr/bin/time -v $SCRIPT $DATA_DIR $TRIVIAL_COUNTER $FILE_TO_GET_PART_FROM 400000 | |
| make-tests: | |
| name: Make tests | |
| runs-on: [self-hosted, kmc] | |
| needs: check-prerequisites | |
| env: | |
| KMC_EXE: ./bin/kmc | |
| KMC_DUMP_EXE: ./bin/kmc_dump | |
| KMC_TOOLS: ./bin/kmc_tools | |
| steps: | |
| - uses: actions/checkout@v2 | |
| with: | |
| submodules: recursive | |
| - name: make (default) | |
| run: | | |
| /usr/bin/time -v make -j32 | |
| small-fastq-tests: | |
| name: Small fastq tests | |
| runs-on: [self-hosted, kmc] | |
| needs: [make-tests, prepare-small-fastq-tests] | |
| env: | |
| DATA_DIR: ../../../../data | |
| SCRIPT: tests/kmc_CLI/run_small_fastq_tests.py | |
| KMC_EXE: ./bin/kmc | |
| KMC_DUMP_EXE: ./bin/kmc_dump | |
| KMC_TOOLS: ./bin/kmc_tools | |
| steps: | |
| - name: Run all small fastq tests | |
| run: | | |
| chmod +x $SCRIPT | |
| /usr/bin/time -v $SCRIPT $DATA_DIR $KMC_EXE $KMC_TOOLS $KMC_DUMP_EXE |