From b4d1e262831823ae98db63b3bb589d3644ef9280 Mon Sep 17 00:00:00 2001
From: Isaac Overcast <isaac.overcast@gmail.com>
Date: Wed, 8 Jan 2020 10:08:52 -0500
Subject: [PATCH] Make hackersonly.exclude_reference default to True, since in
 most cases the reference sequence isn't 'real' data, and people won't want it
 included in downstream.

---
 ipyrad/core/params.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/ipyrad/core/params.py b/ipyrad/core/params.py
index 33c3b174..92c5d53c 100644
--- a/ipyrad/core/params.py
+++ b/ipyrad/core/params.py
@@ -42,7 +42,7 @@ def __init__(self):
             ("demultiplex_on_i7_tags", False),
             ("declone_PCR_duplicates", False),
             ("merge_technical_replicates", True),
-            ("exclude_reference", False),
+            ("exclude_reference", True),
             ("trim_loci_min_sites", 4),
         ])