Merge pull request #88 from seqeralabs/fix/disable-azure-cloud-nf-core

fix: Exclude nf-core pipelines from azure_cloud compute environments

Author: stefanoboriero

.github/workflows/seqera-showcase-enterprise.yml

@@ -126,6 +126,7 @@ jobs:
             -i \
             pipelines/production*.yaml \
             compute-envs/enterprise*.yaml \
+            exclude/* \
             ${{ (github.event_name == 'workflow_dispatch' && inputs.pre_run != '') && format('--pre_run "{0}"', inputs.pre_run) || ''}} \
             ${{ (github.event_name == 'workflow_dispatch' && inputs.config != '') && format('--config "{0}"', inputs.config) || '' }} \
             ${{ (github.event_name == 'workflow_dispatch' && inputs.launch_container) && format('--launch-container "{0}"', inputs.launch_container) || '' }} \

.github/workflows/seqera-showcase-staging.yml

@@ -130,6 +130,7 @@ jobs:
             pipelines/staging*.yaml \
             compute-envs/staging*.yaml \
             compute-envs/sched-staging*.yaml \
+            exclude/* \
             ${{ (github.event_name == 'workflow_dispatch' && inputs.pre_run != '') && format('--pre_run "{0}"', inputs.pre_run) || ''}} \
             ${{ (github.event_name == 'workflow_dispatch' && inputs.config != '') && format('--config "{0}"', inputs.config) || '' }} \
             ${{ (github.event_name == 'workflow_dispatch' && inputs.launch_container) && format('--launch-container "{0}"', inputs.launch_container) || '' }} \

exclude/exclude.yaml

@@ -10,3 +10,50 @@ exclude:
       name: seqera_aws_ireland_fusionv2_nvme
       workdir: s3://seqera-showcase/scratch/cicd
       workspace: ""
+  # Do not run any nf-core pipeline on azure_cloud compute environments.
+  # These exclusions should be lifted once COMP-1933 is delivered:
+  # https://seqera.atlassian.net/browse/COMP-1933
+  - pipeline:
+      name: rnaseq
+      url: nf-core-rnaseq
+      latest: true
+      profiles:
+        - test
+    compute_environment:
+      ref: azure-cloud
+      name: seqera_azure_cloud
+      workdir: az://seqeralabs-showcase
+      workspace: ""
+  - pipeline:
+      name: viralrecon-illumina
+      url: nf-core-viralrecon-illumina
+      latest: true
+      profiles:
+        - test
+    compute_environment:
+      ref: azure-cloud
+      name: seqera_azure_cloud
+      workdir: az://seqeralabs-showcase
+      workspace: ""
+  - pipeline:
+      name: viralrecon-nanopore
+      url: nf-core-viralrecon-nanopore
+      latest: true
+      profiles:
+        - test
+    compute_environment:
+      ref: azure-cloud
+      name: seqera_azure_cloud
+      workdir: az://seqeralabs-showcase
+      workspace: ""
+  - pipeline:
+      name: sarek
+      url: nf-core-sarek
+      latest: true
+      profiles:
+        - test
+    compute_environment:
+      ref: azure-cloud
+      name: seqera_azure_cloud
+      workdir: az://seqeralabs-showcase
+      workspace: ""