Using main pybedtools.

requirements.txt

@@ -5,6 +5,7 @@ networkx
 numpy
 pandas
 pyBigWig
-pybedtools @ git+https://github.com/blaiseli/pybedtools.git@fix_missing_headers --global-option="cythonize"
+# pybedtools @ git+https://github.com/blaiseli/pybedtools.git@fix_missing_headers --global-option="cythonize"
+pybedtools
 scipy
 seaborn

setup.py

@@ -28,7 +28,8 @@ setup(
         "numpy",
         "pandas",
         "pyBigWig",
-        "pybedtools @ git+https://github.com/blaiseli/pybedtools.git@fix_missing_headers",
+        # "pybedtools @ git+https://github.com/blaiseli/pybedtools.git@fix_missing_headers",
+        "pybedtools",
         "scipy",
         "seaborn"],
     # specific versions and index would rather belong to requirements.txt