From 4852e600a4e808de1384ece48c4ae641d00c0c7c Mon Sep 17 00:00:00 2001
From: Kivanc Corut <kivanc.corut@uga.edu>
Date: Mon, 22 Nov 2021 11:28:20 -0500
Subject: [PATCH] Update ends_with_gz func

---
 workflow/rules/common.smk | 8 ++++----
 1 file changed, 4 insertions(+), 4 deletions(-)

diff --git a/workflow/rules/common.smk b/workflow/rules/common.smk
index 1e56558..ea06535 100644
--- a/workflow/rules/common.smk
+++ b/workflow/rules/common.smk
@@ -126,11 +126,11 @@ def get_reads(wildcards):
         # single end
         return {"r1": fastqs.fq1}
 
-def ends_with_gz(wildcards):
-    fastq1 = samples.loc[(wildcards.sample, wildcards.library), ["fq1"]]
-    if fastq1.fq1.endswith("gz"):
+def ends_with_gz(samp_tab):
+    if samp_tab["fq1"].str.endswith('gz').all():
         return True
-    return False
+    else:
+        return False
 
 def get_phenos(wildcards):
     """Get fastq files using samples sheet."""