Updates to testing profiles

sanger-tol · Sep 13, 2023 · 1b34481 · 1b34481
1 parent 6d2b248
commit 1b34481
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Showing 7 changed files with 7 additions and 79 deletions.
diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
@@ -40,12 +40,12 @@ jobs:
         run: |
           curl https://dp24.cog.sanger.ac.uk/TreeValTinyData.tar.gz | tar xzf -
 
-      - name: Run FULL pipeline with test data
+      - name: Run RAPID pipeline with test data
         # Remember that you can parallelise this by using strategy.matrix
         run: |
-          nextflow run ${GITHUB_WORKSPACE} -entry FULL -profile github_full,docker --outdir ./results
+          nextflow run ${GITHUB_WORKSPACE} -entry RAPID -profile github_test,docker --outdir ./results-rapid
 
-      - name: Run RAPID pipeline with test data
+      - name: Run FULL pipeline with test data
         # Remember that you can parallelise this by using strategy.matrix
         run: |
-          nextflow run ${GITHUB_WORKSPACE} -entry RAPID -profile github_rapid,docker --outdir ./results
+          nextflow run ${GITHUB_WORKSPACE} -entry FULL -profile github_test,docker --outdir ./results-full
diff --git a/conf/farm_rapid.config b/conf/farm_rapid.config
diff --git a/conf/farm_full.config → conf/farm_test.config b/conf/farm_full.config → conf/farm_test.config
@@ -20,4 +20,5 @@ params {
     config_profile_description  = "FULL test dataset to check pipeline function, using a current full local dataset"
 
     input                       = "${projectDir}/assets/local_testing/nxOscDF5033.yaml"
+    output                      = nxOscDF5033
 }
diff --git a/conf/github_rapid.config b/conf/github_rapid.config
diff --git a/conf/github_full.config → conf/github_test.config b/conf/github_full.config → conf/github_test.config
@@ -21,5 +21,5 @@ params {
 
     // Input data
     input       = "${projectDir}/assets/github_testing/TreeValTinyTest.yaml"
-    outdir      = "TinyTest-FULL"
+    outdir      = "TinyTest"
 }
diff --git a/conf/local_github_rapid.config b/conf/local_github_rapid.config
diff --git a/conf/local_github_full.config → conf/local_github_test.config b/conf/local_github_full.config → conf/local_github_test.config
@@ -21,5 +21,5 @@ params {
 
     // Input data
     input       = "${projectDir}/assets/github_testing/TreeValTinyTest-Local.yaml"
-    outdir      = "TinyTest-FULL"
+    outdir      = "TinyTest"
 }