From 6110980cdb37f749f0d68e3f65903f2b7454afa9 Mon Sep 17 00:00:00 2001
From: Ryan Dale <ryan.dale@nih.gov>
Date: Wed, 21 Nov 2018 15:03:23 -0500
Subject: [PATCH] update paths to headers for extensions

---
 setup.py | 17 +++++++++--------
 1 file changed, 9 insertions(+), 8 deletions(-)

diff --git a/setup.py b/setup.py
index bc1c4fb2..8fe3b8fc 100644
--- a/setup.py
+++ b/setup.py
@@ -196,18 +196,18 @@ def run(self):
 extensions = [
     Extension(
         'pybedtools.cbedtools',
-        depends=glob.glob('src/*h'),
+        depends=glob.glob('pybedtools/include/*h'),
         libraries=['stdc++', 'z'],
-        include_dirs=['src/'],
-        sources=['pybedtools/cbedtools' + EXT] + glob.glob('src/*.cpp'),
+        include_dirs=['pybedtools/include/'],
+        sources=['pybedtools/cbedtools' + EXT] + glob.glob('pybedtools/include/*.cpp'),
         language='c++'),
 
     Extension(
         'pybedtools.featurefuncs',
-        depends=glob.glob('src/*h'),
+        depends=glob.glob('pybedtools/include/*h'),
         libraries=['stdc++', 'z'],
-        include_dirs=['src/'],
-        sources=['pybedtools/featurefuncs' + EXT] + glob.glob('src/*.cpp'),
+        include_dirs=['pybedtools/include/'],
+        sources=['pybedtools/featurefuncs' + EXT] + glob.glob('pybedtools/include/*.cpp'),
         language='c++'),
 ]
 
@@ -275,9 +275,10 @@ def run(self):
                                      "*.pxd",
                                      "*.cxx",
                                      "*.c",
-                                     "*.cpp"]
+                                     "*.cpp"],
+                      'src': ['src/*'],
                       },
-        include_package_data=False,
+        include_package_data=True,
         scripts=['pybedtools/scripts/venn_gchart.py',
                  'pybedtools/scripts/venn_mpl.py',
                  'pybedtools/scripts/annotate.py',