test: nf-test init

Functional-Genomics-Lab · Apr 2, 2024 · 612c274 · 612c274
1 parent 2926644
commit 612c274
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Showing 5 changed files with 33 additions and 3 deletions.
diff --git a/.gitignore b/.gitignore
@@ -0,0 +1,9 @@
+.DS_Store
+.idea
+*.log
+tmp/
+
+.nextflow*
+.nf-test*
+work/
+results/
diff --git a/conf/test.config b/conf/test.config
@@ -0,0 +1,10 @@
+params {
+    bams = [ "https://raw.githubusercontent.com/Kraus-Lab/groHMM/master/inst/extdata/S0mR1.bam", "https://raw.githubusercontent.com/Kraus-Lab/groHMM/master/inst/extdata/S40mR1.bam" ]
+}
+
+process {
+    cpus = 6
+    memory = '16.GB'
+    time = '1h'
+
+}
diff --git a/nextflow.config b/nextflow.config
@@ -10,9 +10,7 @@ profiles {
     local {
         wave.enabled = true
         docker.enabled = true
-        cpus = 6
-        memory = '16 GB'
-        time = '1h'
+        includeConfig "conf/test.config"
     }
     utd_ganymede {
         includeConfig "https://raw.githubusercontent.com/nf-core/configs/master/conf/utd_ganymede.config"

diff --git a/nf-test.config b/nf-test.config
@@ -0,0 +1,8 @@
+config {
+
+    testsDir "tests"
+    workDir ".nf-test"
+    configFile "conf/test.config"
+    profile "local"
+
+}
diff --git a/tests/nextflow.config b/tests/nextflow.config
@@ -0,0 +1,5 @@
+/*
+========================================================================================
+    Nextflow config file for running tests
+========================================================================================
+*/