From 8683b0ce6e70789a5cf0300d1ab3fe71d583b81e Mon Sep 17 00:00:00 2001
From: Lucille Delisle <lucille.delisle@epfl.ch>
Date: Thu, 11 Feb 2021 13:52:14 +0100
Subject: [PATCH] Put a warning message when tableWithAnnotations file does not
 exists.

---
 step2-DESeq2.R | 2 ++
 1 file changed, 2 insertions(+)

diff --git a/step2-DESeq2.R b/step2-DESeq2.R
index 66fc2ac..5404135 100644
--- a/step2-DESeq2.R
+++ b/step2-DESeq2.R
@@ -152,6 +152,8 @@ if(exists("tableWithAnnotations")){
     if(!is.na(geneIDColInAnnotations)){
       annot.df<-ann[match(rownames(resOrdered),ann[,geneIDColInAnnotations]),]
     }
+  } else {
+    cat("The annotation file specified:",tableWithAnnotations," does not exists. It will not be added.\n")
   }
 }