From 359fd846f8962e4ba7b5ece0f89513f55a4b841a Mon Sep 17 00:00:00 2001
From: zsloan
Date: Tue, 31 Dec 2019 12:36:32 -0600
Subject: Fixed bug that occurred if you input 0 for bootstrap when using
 reaper for mapping

---
 wqflask/wqflask/marker_regression/qtlreaper_mapping.py | 3 ++-
 wqflask/wqflask/marker_regression/run_mapping.py       | 1 -
 2 files changed, 2 insertions(+), 2 deletions(-)

diff --git a/wqflask/wqflask/marker_regression/qtlreaper_mapping.py b/wqflask/wqflask/marker_regression/qtlreaper_mapping.py
index fe216166..41764c1c 100644
--- a/wqflask/wqflask/marker_regression/qtlreaper_mapping.py
+++ b/wqflask/wqflask/marker_regression/qtlreaper_mapping.py
@@ -121,7 +121,8 @@ def parse_reaper_output(gwa_filename, permu_filename, bootstrap_filename):
                 bootstrap_vals.append(int(line))
 
     marker_obs = [marker_obs[i] for i in sorted_indices]
-    bootstrap_vals = [bootstrap_vals[i] for i in sorted_indices]
+    if len(bootstrap_vals) > 0:
+        bootstrap_vals = [bootstrap_vals[i] for i in sorted_indices]
 
     return marker_obs, permu_vals, bootstrap_vals
 
diff --git a/wqflask/wqflask/marker_regression/run_mapping.py b/wqflask/wqflask/marker_regression/run_mapping.py
index 9e06aa00..a65dafd5 100644
--- a/wqflask/wqflask/marker_regression/run_mapping.py
+++ b/wqflask/wqflask/marker_regression/run_mapping.py
@@ -62,7 +62,6 @@ class RunMapping(object):
         self.json_data['lodnames'] = ['lod.hk']
 
         all_samples_ordered = self.dataset.group.all_samples_ordered()
-        primary_sample_names = list(all_samples_ordered)
 
         self.vals = []
         if 'samples' in start_vars:
-- 
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