Merge pull request #160 from ggabernet/dev

aws tests fix github sha
nf-core · Mar 17, 2020 · 2ad5b20 · 2ad5b20
2 parents ebe89a2 + a06a45e
commit 2ad5b20
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/.github/workflows/awstest.yml b/.github/workflows/awstest.yml
@@ -28,4 +28,4 @@ jobs:
           AWS_SECRET_ACCESS_KEY: ${{secrets.AWS_KEY_SECRET}}
           TOWER_ACCESS_TOKEN: ${{secrets.TOWER_ACCESS_TOKEN}}
         run: |
-          aws batch submit-job --region eu-west-1 --job-name nf-core-sarek --job-queue 'default-8b3836e0-5eda-11ea-96e5-0a2c3f6a2a32' --job-definition nextflow --container-overrides '{"command": ["nf-core/sarek", "-r ${GITHUB_SHA} -profile test --outdir s3://nf-core-awsmegatests/sarek/results-${GITHUB_SHA} -w s3://nf-core-awsmegatests/sarek/work-${GITHUB_SHA} -with-tower"], "environment": [{"name": "TOWER_ACCESS_TOKEN", "value": "'"$TOWER_ACCESS_TOKEN"'"}]}' 
+          aws batch submit-job --region eu-west-1 --job-name nf-core-sarek --job-queue 'default-8b3836e0-5eda-11ea-96e5-0a2c3f6a2a32' --job-definition nextflow --container-overrides '{"command": ["nf-core/sarek", "-r '"${GITHUB_SHA}"' -profile test --outdir s3://nf-core-awsmegatests/sarek/results-'"${GITHUB_SHA}"' -w s3://nf-core-awsmegatests/sarek/work-'"${GITHUB_SHA}"' -with-tower"], "environment": [{"name": "TOWER_ACCESS_TOKEN", "value": "'"$TOWER_ACCESS_TOKEN"'"}]}'