fix: extend index read parsing in sample sheet api

OpenOmics · Dec 12, 2023 · 83bdaf5 · 83bdaf5
1 parent 981f80b
commit 83bdaf5
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Showing 2 changed files with 5 additions and 2 deletions.
diff --git a/.gitignore b/.gitignore
@@ -3,3 +3,4 @@ logs
 .snakemake
 site
 output
+.tests/dry_run_out/*
diff --git a/scripts/samplesheet.py b/scripts/samplesheet.py
@@ -68,8 +68,10 @@ def process_v1_reads_section(self, section):
         for i, line in enumerate(section, start=1):
             if line.split(',')[0].isnumeric() and i == 1:
                 r1 = int(line.split(',')[0])
-            if line.split(',')[0].isnumeric() and i == 2:
-                r2 = int(line.split(',')[0])        
+            elif line.split(',')[0].isnumeric() and i == 2:
+                r2 = int(line.split(',')[0])
+            else:
+                self.process_simple_section([line])        
         if r1:
             setattr(self, 'Read01', r1)
         if r2:
-Original file line number
+Diff line change
@@ Expand Up / @@ -3,3 +3,4 @@ logs @@
     .snakemake
     site
     output
+    .tests/dry_run_out/*