From fb0230358f0ac4e2fb530202735cd0a1f0e86ed3 Mon Sep 17 00:00:00 2001
From: Sarah Griffiths <sarah.griffiths@nanoporetech.com>
Date: Wed, 8 Sep 2021 13:42:51 +0000
Subject: [PATCH] Update fastqingress.nf to give error message if no fastq
 files

---
 lib/fastqingress.nf | 7 ++++++-
 1 file changed, 6 insertions(+), 1 deletion(-)

diff --git a/lib/fastqingress.nf b/lib/fastqingress.nf
index 30713a7..ee5f21e 100644
--- a/lib/fastqingress.nf
+++ b/lib/fastqingress.nf
@@ -1,4 +1,3 @@
-
 process checkSampleSheet {
     label "artic"
     cpus 1
@@ -166,5 +165,11 @@ def fastq_ingress(input_folder, output_folder, samples, sanitize)
     }
     // resolve whether we have demultiplexed data or single sample
     data = resolve_barcode_structure(input_folder, sample_sheet)
+    // return error if data empty after processing
+    if (data == null) {
+        println("")
+        println("Error: `--fastq` Unable to find FASTQ files or BARCODE folders in the provided --fastq path")
+        exit 1
+    }
     return data
 }