From 3eadb4f77cd45cc3c0e3f5c604b948c00cb8d46d Mon Sep 17 00:00:00 2001
From: afombravo <afonsombravo@hotmail.com>
Date: Sun, 19 Jan 2025 22:32:08 +0000
Subject: [PATCH] I changed the test data to 2FAST2Q repo data, NOT NF-CORE
 test data, just as a way to check if it is working. The test data I was using
 from NF-core has the wrong input file format.

---
 modules/nf-core/fast2q/main.nf | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/modules/nf-core/fast2q/main.nf b/modules/nf-core/fast2q/main.nf
index d64ed807355..be47a20ecb0 100644
--- a/modules/nf-core/fast2q/main.nf
+++ b/modules/nf-core/fast2q/main.nf
@@ -22,7 +22,7 @@ process FAST2Q {
     script:
     def args            = task.ext.args ?: ''
     def input_file      = "--s ${fastq}" ?: ''
-    def library_file    = library ? "--g ${library}" : ''
+    def library_file    = (library instanceof Path && library.exists()) ? "--g ${library}" : ''
 
     """
     mkdir -p ./2FAST2Q_output