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name: Testing hybrid / docker from PR | ||
on: | ||
pull_request: | ||
branches: [ master ] | ||
types: [ opened, synchronize, reopened ] | ||
branches: [master, dev] | ||
types: [opened, synchronize, reopened] | ||
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jobs: | ||
run_nextflow: | ||
name: Run pipeline for the upcoming PR | ||
runs-on: ubuntu-latest | ||
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steps: | ||
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- name: Check out pipeline code | ||
uses: actions/checkout@v2 | ||
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- name: Install Nextflow | ||
env: | ||
CAPSULE_LOG: none | ||
run: | | ||
wget -qO- get.nextflow.io | bash | ||
sudo mv nextflow /usr/local/bin/ | ||
- name: Clean environment | ||
run: | | ||
sudo rm -rf /usr/local/lib/android # will release about 10 GB if you don't need Android | ||
sudo rm -rf /usr/share/dotnet # will release about 20GB if you don't need .NET | ||
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- name: Run tests for hybrid | ||
run: | | ||
nextflow run main.nf -profile docker,test,hybrid | ||
rm -r work .nextflow* | ||
- name: View results | ||
run: | | ||
sudo apt-get install -y tree | ||
tree hybrid_test | ||
- name: Check out pipeline code | ||
uses: actions/checkout@v2 | ||
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||
- name: Install Nextflow | ||
env: | ||
CAPSULE_LOG: none | ||
run: | | ||
wget -qO- get.nextflow.io | bash | ||
sudo mv nextflow /usr/local/bin/ | ||
- name: Clean environment | ||
run: | | ||
sudo rm -rf /usr/local/lib/android # will release about 10 GB if you don't need Android | ||
sudo rm -rf /usr/share/dotnet # will release about 20GB if you don't need .NET | ||
- name: Run tests for hybrid | ||
run: | | ||
nextflow run main.nf -profile docker,test,hybrid | ||
rm -r work .nextflow* | ||
- name: View results | ||
run: | | ||
sudo apt-get install -y tree | ||
tree hybrid_test |
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Original file line number | Diff line number | Diff line change |
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@@ -1,42 +1,42 @@ | ||
name: Testing hybrid / singularity from PR | ||
on: | ||
pull_request: | ||
branches: [ master ] | ||
types: [ opened, synchronize, reopened ] | ||
branches: [master, dev] | ||
types: [opened, synchronize, reopened] | ||
|
||
jobs: | ||
run_nextflow: | ||
name: Run pipeline for the upcoming PR | ||
runs-on: ubuntu-latest | ||
|
||
steps: | ||
- name: Check out pipeline code | ||
uses: actions/checkout@v2 | ||
- name: Install Singularity | ||
uses: eWaterCycle/setup-singularity@v7 | ||
with: | ||
singularity-version: 3.8.3 | ||
- name: Install Nextflow | ||
env: | ||
CAPSULE_LOG: none | ||
run: | | ||
wget -qO- get.nextflow.io | bash | ||
sudo mv nextflow /usr/local/bin/ | ||
- name: Clean environment | ||
run: | | ||
sudo rm -rf /usr/local/lib/android # will release about 10 GB if you don't need Android | ||
sudo rm -rf /usr/share/dotnet # will release about 20GB if you don't need .NET | ||
- name: Run tests for hybrid | ||
run: | | ||
nextflow run main.nf -profile singularity,test,hybrid | ||
rm -r work .nextflow* | ||
- name: View results | ||
run: | | ||
sudo apt-get install -y tree | ||
tree hybrid_test | ||
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||
- name: Check out pipeline code | ||
uses: actions/checkout@v2 | ||
|
||
- name: Install Singularity | ||
uses: eWaterCycle/setup-singularity@v7 | ||
with: | ||
singularity-version: 3.8.3 | ||
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||
- name: Install Nextflow | ||
env: | ||
CAPSULE_LOG: none | ||
run: | | ||
wget -qO- get.nextflow.io | bash | ||
sudo mv nextflow /usr/local/bin/ | ||
- name: Clean environment | ||
run: | | ||
sudo rm -rf /usr/local/lib/android # will release about 10 GB if you don't need Android | ||
sudo rm -rf /usr/share/dotnet # will release about 20GB if you don't need .NET | ||
- name: Run tests for hybrid | ||
run: | | ||
nextflow run main.nf -profile singularity,test,hybrid | ||
rm -r work .nextflow* | ||
- name: View results | ||
run: | | ||
sudo apt-get install -y tree | ||
tree hybrid_test |