Fix logic in get_fastqc_files function

alsmith151 · Mar 21, 2024 · e820801 · e820801
1 parent 42cbce5
commit e820801
Showing 1 changed file with 4 additions and 3 deletions.
diff --git a/seqnado/workflow/rules/qc.smk b/seqnado/workflow/rules/qc.smk
@@ -96,8 +96,9 @@ use rule samtools_stats as samtools_stats_filtered with:
 def get_fastqc_files(wildcards):
 
 
-    single_end_assays = [name for name in SAMPLE_NAMES if DESIGN.query(name).is_paired == True]
-    paired_end_assays = [name for name in SAMPLE_NAMES if DESIGN.query(name).is_paired == False]   
+    single_end_assays = [name for name in SAMPLE_NAMES if DESIGN.query(name).is_paired == False]
+    paired_end_assays = [name for name in SAMPLE_NAMES if DESIGN.query(name).is_paired == True]
+
 
     fastqc_raw_paired = expand(
             "seqnado_output/qc/fastqc_raw/{sample}_{read}_fastqc.html",
@@ -123,7 +124,7 @@ def get_fastqc_files(wildcards):
     all_qc_files = []
     for files in [fastqc_raw_paired, fastqc_trimmed_paired, fastqc_raw_single, fastqc_trimmed_single]:
         if files:
-            all_qc_files.extend(files)
+            all_qc_files.extend(*files)
 
     return all_qc_files