From 1cdc27e69fba30688d25f225bef0eac0614dac94 Mon Sep 17 00:00:00 2001
From: James Baker <59581582+jtb324@users.noreply.github.com>
Date: Tue, 30 Sep 2025 09:25:29 -0500
Subject: [PATCH] Update ibdreduce_v3.py

I accidentally created a bug in IBDReduce at line 184-187 of the ibdreduce_v3.py.
---
 IBDReduce/ibdreduce_v3.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/IBDReduce/ibdreduce_v3.py b/IBDReduce/ibdreduce_v3.py
index 2258ff5..818936d 100755
--- a/IBDReduce/ibdreduce_v3.py
+++ b/IBDReduce/ibdreduce_v3.py
@@ -182,8 +182,8 @@ def parse_pheno(ifile: str, phenotype: Optional[str] = None) -> Tuple[int, int]:
                 phenotype_indx = header_list.index(phenotype)
                 continue
             else: # If no phenotype string then we skip the header
-                phenotype_indx = 1 # If no phenotype name is passed then we are going to treat this like a 2 column file where the first column are the ids and the second column is the phenotype status
                 if i == 0:
+                    phenotype_indx = 1 # If no phenotype name is passed then we are going to treat this like a 2 column file where the first column are the ids and the second column is the phenotype status
                     continue
 
             l = l.strip().split()