From 87285c2f516caae7d614322d17d5540531ad56ef Mon Sep 17 00:00:00 2001
From: Nelle Varoquaux <nelle.varoquaux@gmail.com>
Date: Tue, 10 Jun 2014 15:35:32 -0700
Subject: [PATCH] FIX alpha passed in the PM1 algorithm was positive

---
 pastis/algorithms.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/pastis/algorithms.py b/pastis/algorithms.py
index 7487ac65..eb84295c 100644
--- a/pastis/algorithms.py
+++ b/pastis/algorithms.py
@@ -267,7 +267,7 @@ def run_pm1(directory):
                     os.path.join(directory,
                                  'counts.txt'),
                     options["chromosomes"],
-                    -1 * options["alpha"],
+                    options["alpha"],
                     options["beta"],
                     os.path.join(directory,
                                  'PM1.log'))