From 7904610f4f66da33e9ced1eb5f11365ec11d6472 Mon Sep 17 00:00:00 2001
From: Frederick Muriuki Muriithi
Date: Mon, 9 Dec 2024 15:31:48 -0600
Subject: Handle common typo likely to exist in control files.

---
 r_qtl/r_qtl2.py | 10 +++++++++-
 1 file changed, 9 insertions(+), 1 deletion(-)

(limited to 'r_qtl/r_qtl2.py')

diff --git a/r_qtl/r_qtl2.py b/r_qtl/r_qtl2.py
index c6307f5..dfa84ba 100644
--- a/r_qtl/r_qtl2.py
+++ b/r_qtl/r_qtl2.py
@@ -187,7 +187,7 @@ def control_data(control_src: Union[Path, ZipFile]) -> dict:
     r_qtl.exceptions.InvalidFormat
     """
     def __cleanup__(cdata):
-        return {
+        _cdata = {
             **cdata,
             **dict((filetype,
                     ([cdata[filetype]] if isinstance(cdata[filetype], str)
@@ -195,6 +195,14 @@ def control_data(control_src: Union[Path, ZipFile]) -> dict:
                     ) for filetype in
                    (typ for typ in cdata.keys() if typ in FILE_TYPES))
         }
+        if "na.string" in _cdata:# handle common error in file.
+            _cdata = {
+                **cdata,
+                "na.strings": list(set(
+                    _cdata["na.string"] + _cdata["na.strings"]))
+            }
+
+        return _cdata
 
     if isinstance(control_src, ZipFile):
         return __cleanup__(__control_data_from_zipfile__(control_src))
-- 
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