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unittests.yml
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name: unittests
on: [push, pull_request]
jobs:
linux-unittests-ldc:
name: Dub Tests LDC
strategy:
matrix:
os: [ubuntu-latest]
dc: [ldc-latest]
runs-on: ${{ matrix.os }}
steps:
- uses: actions/checkout@v2
with:
submodules: recursive
- name: Install D compiler
uses: dlang-community/setup-dlang@v1
with:
compiler: ${{ matrix.dc }}
- name: Install htslib deps
run: |
sudo apt-get update && sudo apt-get install -y build-essential autoconf zlib1g-dev libbz2-dev liblzma-dev libcurl4-openssl-dev libssl-dev
- name: Get htslib commit
id: get-htslib-commit
run: echo "::set-output name=sha_short::$(git rev-parse --short :htslib)"
- name: Cache htslib
id: cache-htslib
uses: actions/cache@v2
with:
path: htslib
key: ${{ runner.os}}-htslib-${{ steps.get-htslib-commit.outputs.sha_short }}
- name: Build htslib
if: steps.cache-htslib.outputs.cache-hit != 'true'
run: |
cd htslib
autoreconf -i
./configure
make
- name: Install htslib
run: |
cd htslib
sudo make install
sudo ldconfig
- name: Setup additional test files
run: |
cd htslib
cd test
cd tabix
bgzip -c gff_file.gff > gff_file.gff.gz
tabix gff_file.gff.gz
bgzip -c bed_file.bed > bed_file.bed.gz
tabix bed_file.bed.gz
bgzip -c vcf_file.vcf > vcf_file.vcf.gz
tabix vcf_file.vcf.gz
- name: Run tests
run: dub -q test -b=unittest-cov
env:
LIBRARY_PATH: /usr/local/lib
- name: Run safety tests
run: dub -q test -c=unittest-safety
env:
LIBRARY_PATH: /usr/local/lib
- name: Upload coverage
run: bash <(curl -s https://codecov.io/bash)
linux-unittests-dmd:
name: Dub Tests DMD
strategy:
matrix:
os: [ubuntu-latest]
dc: [dmd-latest]
runs-on: ${{ matrix.os }}
steps:
- uses: actions/checkout@v2
with:
submodules: recursive
- name: Install D compiler
uses: dlang-community/setup-dlang@v1
with:
compiler: ${{ matrix.dc }}
- name: Install htslib deps
run: |
sudo apt-get update && sudo apt-get install -y build-essential autoconf zlib1g-dev libbz2-dev liblzma-dev libcurl4-openssl-dev libssl-dev
- name: Get htslib commit
id: get-htslib-commit
run: echo "::set-output name=sha_short::$(git rev-parse --short :htslib)"
- name: Cache htslib
id: cache-htslib
uses: actions/cache@v2
with:
path: htslib
key: ${{ runner.os}}-htslib-${{ steps.get-htslib-commit.outputs.sha_short }}
- name: Build htslib
if: steps.cache-htslib.outputs.cache-hit != 'true'
run: |
cd htslib
autoreconf -i
./configure
make
- name: Install htslib
run: |
cd htslib
sudo make install
sudo ldconfig
- name: Setup additional test files
run: |
cd htslib
cd test
cd tabix
bgzip -c gff_file.gff > gff_file.gff.gz
tabix gff_file.gff.gz
bgzip -c bed_file.bed > bed_file.bed.gz
tabix bed_file.bed.gz
bgzip -c vcf_file.vcf > vcf_file.vcf.gz
tabix vcf_file.vcf.gz
- name: Run tests
run: dub -q test -b=unittest-cov
env:
LIBRARY_PATH: /usr/local/lib
- name: Run safety tests
run: dub -q test -c=unittest-safety
env:
LIBRARY_PATH: /usr/local/lib
macos-unittests-dmd:
name: Dub Tests DMD
strategy:
matrix:
os: [macos-latest]
dc: [dmd-latest]
runs-on: ${{ matrix.os }}
steps:
- uses: actions/checkout@v2
with:
submodules: recursive
- name: Install D compiler
uses: dlang-community/setup-dlang@v1
with:
compiler: ${{ matrix.dc }}
- name: Install htslib deps
run: |
brew install xz autoconf automake
- name: Get htslib commit
id: get-htslib-commit
run: echo "::set-output name=sha_short::$(git rev-parse --short :htslib)"
- name: Cache htslib
id: cache-htslib
uses: actions/cache@v2
with:
path: htslib
key: ${{ runner.os}}-htslib-${{ steps.get-htslib-commit.outputs.sha_short }}
- name: Build htslib
if: steps.cache-htslib.outputs.cache-hit != 'true'
run: |
cd htslib
autoreconf -i
./configure
make
- name: Install htslib
run: |
cd htslib
sudo make install
- name: Setup additional test files
run: |
cd htslib
cd test
cd tabix
bgzip -c gff_file.gff > gff_file.gff.gz
tabix gff_file.gff.gz
bgzip -c bed_file.bed > bed_file.bed.gz
tabix bed_file.bed.gz
bgzip -c vcf_file.vcf > vcf_file.vcf.gz
tabix vcf_file.vcf.gz
- name: Run tests
run: dub -q test -b=unittest-cov
env:
LIBRARY_PATH: /usr/local/lib
- name: Run safety tests
run: dub -q test -c=unittest-safety
env:
LIBRARY_PATH: /usr/local/lib