Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

Update Github Action to run full-sized test for all 3 download methods #288

Merged
merged 4 commits into from
Feb 22, 2024
Merged

Update Github Action to run full-sized test for all 3 download methods #288

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
4 commits
Select commit Hold shift + click to select a range
1a8e682
Update Github Action to run full-sized test for all 3 download methods
drpatelh Feb 22, 2024
430c520
Update CHANGELOG
drpatelh Feb 22, 2024
68d96f1
Add in missing strategy section
drpatelh Feb 22, 2024
2263d70
Merge branch 'dev' into fixes
drpatelh Feb 22, 2024
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
24 changes: 18 additions & 6 deletions .github/workflows/cloud_tests_full.yml
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -19,20 +19,24 @@ jobs:
run-full-tests-on-aws:
if: ${{ github.event.inputs.platform == 'all' || github.event.inputs.platform == 'aws' || !github.event.inputs }}
runs-on: ubuntu-latest
strategy:
matrix:
download_method: ["aspera", "ftp", "sratools"]
steps:
- uses: seqeralabs/action-tower-launch@v2
with:
workspace_id: ${{ secrets.TOWER_WORKSPACE_ID }}
access_token: ${{ secrets.TOWER_ACCESS_TOKEN }}
compute_env: ${{ secrets.TOWER_CE_AWS_CPU }}
workdir: "${{ secrets.TOWER_BUCKET_AWS }}/work/fetchngs/work-${{ github.sha }}"
run_name: "aws_fetchngs_full"
run_name: "aws_fetchngs_full_${{ matrix.download_method }}"
revision: ${{ github.sha }}
profiles: test_full
parameters: |
{
"hook_url": "${{ secrets.MEGATESTS_ALERTS_SLACK_HOOK_URL }}",
"outdir": "${{ secrets.TOWER_BUCKET_AWS }}/fetchngs/results-${{ github.sha }}/"
"download_method": "${{ matrix.download_method }}",
"outdir": "${{ secrets.TOWER_BUCKET_AWS }}/fetchngs/results-${{ github.sha }}/download_method_${{ matrix.download_method }}/"
}
- uses: actions/upload-artifact@v3
with:
Expand All @@ -42,20 +46,24 @@ jobs:
run-full-tests-on-azure:
if: ${{ github.event.inputs.platform == 'all' || github.event.inputs.platform == 'azure' || !github.event.inputs }}
runs-on: ubuntu-latest
strategy:
matrix:
download_method: ["aspera", "ftp", "sratools"]
steps:
- uses: seqeralabs/action-tower-launch@v2
with:
workspace_id: ${{ secrets.TOWER_WORKSPACE_ID }}
access_token: ${{ secrets.TOWER_ACCESS_TOKEN }}
compute_env: ${{ secrets.TOWER_CE_AZURE_CPU }}
workdir: "${{ secrets.TOWER_BUCKET_AZURE }}/work/fetchngs/work-${{ github.sha }}"
run_name: "azure_fetchngs_full"
run_name: "azure_fetchngs_full_${{ matrix.download_method }}"
revision: ${{ github.sha }}
profiles: test_full
parameters: |
{
"hook_url": "${{ secrets.MEGATESTS_ALERTS_SLACK_HOOK_URL }}",
"outdir": "${{ secrets.TOWER_BUCKET_AZURE }}/fetchngs/results-${{ github.sha }}/"
"download_method": "${{ matrix.download_method }}",
"outdir": "${{ secrets.TOWER_BUCKET_AZURE }}/fetchngs/results-${{ github.sha }}/download_method_${{ matrix.download_method }}/"
}
- uses: actions/upload-artifact@v3
with:
Expand All @@ -65,20 +73,24 @@ jobs:
run-full-tests-on-gcp:
if: ${{ github.event.inputs.platform == 'gcp' || !github.event.inputs }}
runs-on: ubuntu-latest
strategy:
matrix:
download_method: ["aspera", "ftp", "sratools"]
steps:
- uses: seqeralabs/action-tower-launch@v2
with:
workspace_id: ${{ secrets.TOWER_WORKSPACE_ID }}
access_token: ${{ secrets.TOWER_ACCESS_TOKEN }}
compute_env: ${{ secrets.TOWER_CE_GCP_CPU }}
workdir: "${{ secrets.TOWER_BUCKET_GCP }}/work/fetchngs/work-${{ github.sha }}"
run_name: "gcp_fetchngs_full"
run_name: "gcp_fetchngs_full_${{ matrix.download_method }}"
revision: ${{ github.sha }}
profiles: test_full
parameters: |
{
"hook_url": "${{ secrets.MEGATESTS_ALERTS_SLACK_HOOK_URL }}",
"outdir": "${{ secrets.TOWER_BUCKET_GCP }}/fetchngs/results-${{ github.sha }}/"
"download_method": "${{ matrix.download_method }}",
"outdir": "${{ secrets.TOWER_BUCKET_GCP }}/fetchngs/results-${{ github.sha }}/download_method_${{ matrix.download_method }}/"
}
- uses: actions/upload-artifact@v3
with:
Expand Down
1 change: 1 addition & 0 deletions CHANGELOG.md
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -48,6 +48,7 @@ Thank you to everyone else that has contributed by reporting bugs, enhancements
- [PR #268](https://github.com/nf-core/fetchngs/pull/268) - Add mermaid diagram
- [PR #273](https://github.com/nf-core/fetchngs/pull/273) - Update utility subworkflows
- [PR #283](https://github.com/nf-core/fetchngs/pull/283) - Template update for nf-core/tools v2.13
- [PR #288](https://github.com/nf-core/fetchngs/pull/288) - Update Github Action to run full-sized test for all 3 download methods
- [PR #290](https://github.com/nf-core/fetchngs/pull/290) - Remove mentions of deprecated Synapse functionality in pipeline

### Software dependencies
Expand Down
Loading