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build.yml
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on:
push:
paths:
- 'dataset/**'
- 'scripts/**'
- 'source/**'
pull_request:
paths:
- 'dataset/**'
- 'scripts/**'
- 'source/**'
name: Build
jobs:
download_and_test_ubuntu:
runs-on: ubuntu-20.04
strategy:
matrix:
arch: [x86_64, aarch64]
steps:
- uses: actions/checkout@v4
- name: Download Release Binaries
run: |
curl -L -o trimal.zip https://github.com/inab/trimal/releases/download/v1.5.0/trimAl_Linux_x86-64.zip &&
unzip trimal.zip && mv trimal/* source/
- name: Test trimal for Linux x86_64
if: matrix.arch == 'x86_64'
run: file source/trimal && file source/readal && file source/statal && ./scripts/generate_trimmed_msas.sh &&
./scripts/compare_trimmed_msas.sh
- name: Build trimal for Linux aarch64
if: matrix.arch == 'aarch64'
uses: uraimo/run-on-arch-action@v2
with:
arch: ${{ matrix.arch }}
distro: ubuntu20.04
githubToken: ${{ github.token }}
dockerRunArgs: |
--volume "${PWD}:/trimal"
install: |
apt-get update -q -y
apt-get install -q -y file
run: |
file source/trimal && file source/readal && file source/statal && ./scripts/generate_trimmed_msas.sh &&
./scripts/compare_trimmed_msas.sh
build_and_test_ubuntu:
runs-on: ubuntu-20.04
strategy:
matrix:
arch: [x86_64, aarch64]
steps:
- uses: actions/checkout@v4
- name: Build trimal for Linux x86_64
if: matrix.arch == 'x86_64'
run: cd source && make all && file trimal && file readal && file statal &&
cd .. && ./scripts/generate_trimmed_msas.sh && ./scripts/compare_trimmed_msas.sh
- name: Build trimal for Linux aarch64
if: matrix.arch == 'aarch64'
uses: uraimo/run-on-arch-action@v2
with:
arch: ${{ matrix.arch }}
distro: ubuntu20.04
githubToken: ${{ github.token }}
dockerRunArgs: |
--volume "${PWD}:/trimal"
install: |
apt-get update -q -y
apt-get install -q -y make g++ file
run: |
cd /trimal/source && make all && file trimal && file readal && file statal &&
cd .. && ./scripts/generate_trimmed_msas.sh && ./scripts/compare_trimmed_msas.sh
download_and_test_windows:
runs-on: windows-2022
steps:
- uses: actions/checkout@v4
- name: Download Release Binaries
run: |
curl -L -o trimal.zip https://github.com/inab/trimal/releases/download/v1.5.0/trimAl_Windows_x86-64.zip
- name: Unzip Binaries
run: |
powershell -Command "Expand-Archive -Path trimal.zip -DestinationPath ."
- name: Verify Binaries
run: |
Move-Item -Path .\trimal.exe -Destination .\source\
Get-Command .\source\trimal.exe
- name: Run generate_trimmed_msas.ps1
run: |
powershell -ExecutionPolicy Bypass -File .\scripts\generate_trimmed_msas.ps1
- name: Run compare_trimmed_msas.ps1
run: |
powershell -ExecutionPolicy Bypass -File .\scripts\compare_trimmed_msas.ps1
build_and_test_windows:
runs-on: windows-2022
steps:
- uses: actions/checkout@v4
- name: Set up MSYS2
uses: msys2/setup-msys2@v2
with:
msystem: MINGW64
update: true
install: >-
make
mingw-w64-x86_64-gcc
file
- name: Build trimal for Windows x86_64
run: |
cd source
make -f makefile.Windows
file trimal.exe
file readal.exe
file statal.exe
- name: Run generate_trimmed_msas.ps1
run: |
powershell -ExecutionPolicy Bypass -File .\scripts\generate_trimmed_msas.ps1
- name: Run compare_trimmed_msas.ps1
run: |
powershell -ExecutionPolicy Bypass -File .\scripts\compare_trimmed_msas.ps1