From 897f3291f9d943b4deaef7bc924197c268bc8b3f Mon Sep 17 00:00:00 2001
From: zsloan
Date: Fri, 3 Apr 2020 16:57:59 -0500
Subject: Added option to select cofactors from collection for R/qtl

Fixed some issues with displaying the R/qtl results from the RData HET3-ITP dataa
---
 wqflask/utility/gen_geno_ob.py | 4 +++-
 1 file changed, 3 insertions(+), 1 deletion(-)

(limited to 'wqflask/utility/gen_geno_ob.py')

diff --git a/wqflask/utility/gen_geno_ob.py b/wqflask/utility/gen_geno_ob.py
index aa5b27c4..db40f6ea 100644
--- a/wqflask/utility/gen_geno_ob.py
+++ b/wqflask/utility/gen_geno_ob.py
@@ -45,10 +45,12 @@ class genotype(object):
         chr_ob = None
         for marker in qtl_results:
             locus = Locus(self)
-            if str(marker['chr']) != this_chr:
+            if (str(marker['chr']) != this_chr) and this_chr != "X": #ZS: This is really awkward but works as a temporary fix
                 if this_chr != "":
                     self.chromosomes.append(chr_ob)
                 this_chr = str(marker['chr'])
+                if this_chr == "20":
+                    this_chr = "X"
                 chr_ob = Chr(this_chr, self)
             if 'chr' in marker:
                 locus.chr = str(marker['chr'])
-- 
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