replace by main

.gitlab-ci.yml

@@ -30,55 +30,22 @@ image:
     - singularity build container.sif $RECIPE_PATH/Singularity.$BASENAME-$TAG
     - singularity push --docker-username gitlab-ci-token --docker-password $CI_JOB_TOKEN container.sif oras://"$CI_REGISTRY_IMAGE"/$BASENAME:$TAG
 
-
 #####################
-# Image analysis
+## Submission area
 #####################
 
-#deeplabcut-2202-test:
-#  extends: .templateTest
-#  variables:
-#    BASENAME: deeplabcut
-#    TAG: 2202
-#    RECIPE_PATH: recipes/image-analysis/deeplabcut
+## WRITE YOUR TEST RULE HERE AFTER BRANCHING ON SUBMISSION AND CREATE A MERGE REQUEST
 
-deeplabcut-2202-builddeploy:
-  extends: .templateBuildDeploy
-  variables:
-    BASENAME: deeplabcut
-    TAG: 2202
-    RECIPE_PATH: recipes/image-analysis/deeplabcut
-  only:
-    changes:
-      - recipes/image-analysis/deeplabcut/Singularity.deeplabcut-2202
+#####################
+# Image analysis
+#####################
 
+include:
+  - local: "yaml-files/image-analysis/deeplabcut-deploy.yaml"
 
 #####################
 ## Quality control
 #####################
 
-#fastqc-0119cv7-test:
-#  extends: .templateTest
-#  variables:
-#    BASENAME: fastqc
-#    TAG: 0119cv7
-#    RECIPE_PATH: recipes/quality-control/fastqc/
-
-
-#fastqc-0119cv8-test:
-#  extends: .templateTest
-#  variables:
-#    BASENAME: fastqc
-#    TAG: 0119cv8
-#    RECIPE_PATH: recipes/quality-control/fastqc/
-
-#fastqc-0119cv6-test:
-#  extends: .templateTest
-#  variables:
-#    BASENAME: fastqc
-#    TAG: 0119cv6
-#    RECIPE_PATH: recipes/quality-control/fastqc/
-
-
 include:
-  - local: yaml-files/quality-control/fastqc-deploy.yaml
+  - local: "yaml-files/quality-control/fastqc-deploy.yaml"

recipes/quality-control/fastqc/Singularity.fastqc-0119cv8

@@ -10,4 +10,3 @@ From: biocontainers/fastqc:v0.11.9_cv8
 
 %labels
     Author Nicolas Descostes
-

yaml-files/image-analysis/deeplabcut-deploy.yaml

+deeplabcut-2202-builddeploy:
+  extends: .templateBuildDeploy
+  variables:
+    BASENAME: deeplabcut
+    TAG: 2202
+    RECIPE_PATH: recipes/image-analysis/deeplabcut
+  only:
+    changes:
+      - recipes/image-analysis/deeplabcut/Singularity.deeplabcut-2202

yaml-files/image-analysis/deeplabcut-test.backup

+deeplabcut-2202-test:
+  extends: .templateTest
+  variables:
+    BASENAME: deeplabcut
+    TAG: 2202
+    RECIPE_PATH: recipes/image-analysis/deeplabcut

yaml-files/quality-control/fastqc-test.backup

+fastqc-0119cv7-test:
+  extends: .templateTest
+  variables:
+    BASENAME: fastqc
+    TAG: 0119cv7
+    RECIPE_PATH: recipes/quality-control/fastqc/
+
+
+fastqc-0119cv8-test:
+  extends: .templateTest
+  variables:
+    BASENAME: fastqc
+    TAG: 0119cv8
+    RECIPE_PATH: recipes/quality-control/fastqc/
+
+fastqc-0119cv6-test:
+  extends: .templateTest
+  variables:
+    BASENAME: fastqc
+    TAG: 0119cv6
+    RECIPE_PATH: recipes/quality-control/fastqc/