From f866451ae1a12a183d95dd8b522cc1a2d5b3fc8a Mon Sep 17 00:00:00 2001
From: Maria Katsantoni <mariakatsantoni@Marias-iMac.local>
Date: Tue, 24 Aug 2021 14:04:19 +0200
Subject: [PATCH] Removed expand in rule alfa_qc

---
 workflow/Snakefile | 36 +++++++++++++++---------------------
 1 file changed, 15 insertions(+), 21 deletions(-)

diff --git a/workflow/Snakefile b/workflow/Snakefile
index 6b0bed8..8898894 100644
--- a/workflow/Snakefile
+++ b/workflow/Snakefile
@@ -1486,30 +1486,24 @@ rule alfa_qc:
     '''
     input:
         plus = lambda wildcards:
-            expand(
-                os.path.join(
-                    config["output_dir"],
-                    "samples",
-                    "{sample}",
-                    "ALFA",
-                    "{unique}",
-                    "{sample}.{unique}.plus.bg"),
-                sample=wildcards.sample,
-                unique=alfa_dict[wildcards.renamed_unique]
+            os.path.join(
+                config["output_dir"],
+                "samples",
+                wildcards.sample,
+                "ALFA",
+                alfa_dict[wildcards.renamed_unique],
+                wildcards.sample + "." + alfa_dict[wildcards.renamed_unique] + ".plus.bg"
             ),
 
         minus = lambda wildcards:
-            expand(
-                os.path.join(
-                    config["output_dir"],
-                    "samples",
-                    "{sample}",
-                    "ALFA",
-                    "{unique}",
-                    "{sample}.{unique}.minus.bg"),
-                sample=wildcards.sample,
-                unique=alfa_dict[wildcards.renamed_unique]
-            ),
+            os.path.join(
+                config["output_dir"],
+                "samples",
+                wildcards.sample,
+                "ALFA",
+                alfa_dict[wildcards.renamed_unique],
+                wildcards.sample + "." + alfa_dict[wildcards.renamed_unique] + ".minus.bg"
+                ),
 
         gtf = lambda wildcards:
             os.path.join(
-- 
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