Add some sanity checks in SC__ANNOTATE_BY_SAMPLE_METADATA process

vib-singlecell-nf · Sep 24, 2020 · 16c5dbf · 16c5dbf
1 parent 239b229
commit 16c5dbf
Showing 1 changed file with 6 additions and 0 deletions.
diff --git a/src/utils/processes/h5adAnnotate.nf b/src/utils/processes/h5adAnnotate.nf
@@ -130,8 +130,14 @@ process SC__ANNOTATE_BY_SAMPLE_METADATA {
         //  samplecolumnName
         sampleColumnName = ''
         if(processParams.containsKey("by")) {
+            if(!processParams.by.containsKey("sampleColumnName")) {
+                throw new Exception("VSN ERROR: Missing sampleColumnName param in params.sc.sample_annotate.by.")
+            }
             sampleColumnName = processParams.by.sampleColumnName
         } else {
+            if(!processParams.containsKey("sampleColumnName")) {
+                throw new Exception("VSN ERROR: Missing sampleColumnName param in params.sc.sample_annotate.")
+            }
             // make it backward compatible (see sample_annotate_old_v1.config)
             sampleColumnName = processParams.sampleColumnName
         }