Skip to content

Use dev version of AWS templates #586

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

Merged
apeltzer merged 3 commits into from
Oct 21, 2020
Merged

Use dev version of AWS templates #586

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
3 commits
Select commit Hold shift + click to select a range
dcd8bad
Use dev version of AWS templates
jfy133 Oct 21, 2020
b2e5719
Update awsfulltest.yml
jfy133 Oct 21, 2020
0b5e90b
Update awstest.yml
jfy133 Oct 21, 2020
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
8 changes: 5 additions & 3 deletions .github/workflows/awsfulltest.yml
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,10 +1,12 @@

name: nf-core AWS full size tests
# This workflow is triggered on push to the master branch.
# This workflow is triggered on published releases.
# It can be additionally triggered manually with GitHub actions workflow dispatch.
# It runs the -profile 'test_full' on AWS batch

on:
release:
types: [published]
workflow_dispatch:

jobs:
run-awstest:
Expand Down Expand Up @@ -36,4 +38,4 @@ jobs:
--job-name nf-core-eager \
--job-queue $AWS_JOB_QUEUE \
--job-definition $AWS_JOB_DEFINITION \
--container-overrides '{"command": ["nf-core/eager", "-r '"${GITHUB_SHA}"' -profile awsfulltest --outdir s3://'"${AWS_S3_BUCKET}"'/eager/results-'"${GITHUB_SHA}"' -w s3://'"${AWS_S3_BUCKET}"'/eager/work-'"${GITHUB_SHA}"' -with-tower"], "environment": [{"name": "TOWER_ACCESS_TOKEN", "value": '"$TOWER_ACCESS_TOKEN"'}]}'
--container-overrides '{"command": ["nf-core/eager", "-r '"${GITHUB_SHA}"' -profile awsfulltest --outdir s3://'"${AWS_S3_BUCKET}"'/eager/results-'"${GITHUB_SHA}"' -w s3://'"${AWS_S3_BUCKET}"'/eager/work-'"${GITHUB_SHA}"' -with-tower"], "environment": [{"name": "TOWER_ACCESS_TOKEN", "value": "'"$TOWER_ACCESS_TOKEN"'"}]}'
6 changes: 4 additions & 2 deletions .github/workflows/awstest.yml
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,11 +1,13 @@
name: nf-core AWS test
# This workflow is triggered on push to the master branch.
# It runs the -profile 'test' on AWS batch
# It can be additionally triggered manually with GitHub actions workflow dispatch.
# It runs the -profile 'test' on AWS batch.

on:
push:
branches:
- master
workflow_dispatch:

jobs:
run-awstest:
Expand Down Expand Up @@ -36,4 +38,4 @@ jobs:
--job-name nf-core-eager \
--job-queue $AWS_JOB_QUEUE \
--job-definition $AWS_JOB_DEFINITION \
--container-overrides '{"command": ["nf-core/eager", "-r '"${GITHUB_SHA}"' -profile test_tsv_complex --outdir s3://'"${AWS_S3_BUCKET}"'/eager/results-'"${GITHUB_SHA}"' -w s3://'"${AWS_S3_BUCKET}"'/eager/work-'"${GITHUB_SHA}"' -with-tower"], "environment": [{"name": "TOWER_ACCESS_TOKEN", "value": "'"$TOWER_ACCESS_TOKEN"'"}]}'eager/work-'"${GITHUB_SHA}"' -with-tower"], "environment": [{"name": "TOWER_ACCESS_TOKEN", "value": '"$TOWER_ACCESS_TOKEN"'}]}'
--container-overrides '{"command": ["nf-core/eager", "-r '"${GITHUB_SHA}"' -profile test_tsv_complex --outdir s3://'"${AWS_S3_BUCKET}"'/eager/results-'"${GITHUB_SHA}"' -w s3://'"${AWS_S3_BUCKET}"'/eager/work-'"${GITHUB_SHA}"' -with-tower"], "environment": [{"name": "TOWER_ACCESS_TOKEN", "value": "'"$TOWER_ACCESS_TOKEN"'"}]}'
⚡