diff --git a/setup.py b/setup.py
deleted file mode 100755
index b5688a9..0000000
--- a/setup.py
+++ /dev/null
@@ -1,152 +0,0 @@
-#!/usr/bin/env python
-# -*- coding: utf-8 -*-
-
-# Note: To use the 'upload' functionality of this file, you must:
-#   $ pip install twine
-"""Based on https://github.com/kennethreitz/setup.py"""
-
-import io
-import os
-import sys
-from shutil import rmtree
-
-from setuptools import Command, find_packages, setup
-from setuptools.command.test import test as TestCommand
-
-# Package meta-data.
-NAME = "stranger"
-DESCRIPTION = "Annotate VCF files with str variants"
-URL = "https://github.com/moonso/stranger"
-EMAIL = "mans.magnusson@scilifelab.com"
-AUTHOR = "Måns Magnusson"
-REQUIRES_PYTHON = ">=3.6.0"
-VERSION = None
-
-# What packages are required for this module to be executed?
-REQUIRED = ["click", "coloredlogs", "pyyaml", "setuptools"]
-
-# What packages are optional?
-EXTRAS = {
-    "tests": ["pytest", "pytest-cov"],
-}
-
-# The rest you shouldn't have to touch too much :)
-# ------------------------------------------------
-# Except, perhaps the License and Trove Classifiers!
-# If you do change the License, remember to change the Trove Classifier for that!
-
-here = os.path.abspath(os.path.dirname(__file__))
-
-# Import the README and use it as the long-description.
-# Note: this will only work if 'README.md' is present in your MANIFEST.in file!
-try:
-    with io.open(os.path.join(here, "README.md"), encoding="utf-8") as f:
-        long_description = "\n" + f.read()
-except FileNotFoundError:
-    long_description = DESCRIPTION
-
-# Load the package's __version__.py module as a dictionary.
-about = {}
-if not VERSION:
-    with open(os.path.join(here, NAME, "__version__.py")) as f:
-        exec(f.read(), about)
-else:
-    about["__version__"] = VERSION
-
-
-class UploadCommand(Command):
-    """Support setup.py upload."""
-
-    description = "Build and publish the package."
-    user_options = []
-
-    @staticmethod
-    def status(s):
-        """Prints things in bold."""
-        print("\033[1m{0}\033[0m".format(s))
-
-    def initialize_options(self):
-        pass
-
-    def finalize_options(self):
-        pass
-
-    def run(self):
-        try:
-            self.status("Removing previous builds…")
-            rmtree(os.path.join(here, "dist"))
-        except OSError:
-            pass
-
-        self.status("Building Source and Wheel (universal) distribution…")
-        os.system("{0} setup.py sdist bdist_wheel --universal".format(sys.executable))
-
-        self.status("Uploading the package to PyPI via Twine…")
-        os.system("twine upload dist/*")
-
-        self.status("Pushing git tags…")
-        os.system("git tag v{0}".format(about["__version__"]))
-        os.system("git push --tags")
-
-        sys.exit()
-
-
-# This is a plug-in for setuptools that will invoke py.test
-# when you run python setup.py test
-class PyTest(TestCommand):
-    """Set up the py.test test runner."""
-
-    def finalize_options(self):
-        """Set options for the command line."""
-        TestCommand.finalize_options(self)
-        self.test_args = ["--cov=stranger"]
-        self.test_suite = True
-
-    def run_tests(self):
-        """Execute the test runner command."""
-        # Import here, because outside the required eggs aren't loaded yet
-        import pytest
-
-        sys.exit(pytest.main(self.test_args))
-
-
-# Where the magic happens:
-setup(
-    name=NAME,
-    version=about["__version__"],
-    description=DESCRIPTION,
-    long_description=long_description,
-    long_description_content_type="text/markdown",
-    author=AUTHOR,
-    author_email=EMAIL,
-    python_requires=REQUIRES_PYTHON,
-    url=URL,
-    packages=find_packages(exclude=("tests",)),
-    entry_points={
-        "console_scripts": ["stranger = stranger.__main__:base_command"],
-    },
-    install_requires=REQUIRED,
-    extras_require=EXTRAS,
-    tests_require=EXTRAS["tests"],
-    include_package_data=True,
-    license="MIT",
-    keywords=["vcf", "variants", "str"],
-    classifiers=[
-        # Trove classifiers
-        # Full list: https://pypi.python.org/pypi?%3Aaction=list_classifiers
-        "License :: OSI Approved :: MIT License",
-        "Programming Language :: Python",
-        "Programming Language :: Python :: 3",
-        "Programming Language :: Python :: 3.6",
-        "Programming Language :: Python :: Implementation :: CPython",
-        "Operating System :: MacOS :: MacOS X",
-        "Operating System :: Unix",
-        "Intended Audience :: Science/Research",
-        "Topic :: Scientific/Engineering :: Bio-Informatics",
-    ],
-    # $ setup.py publish support.
-    cmdclass={
-        "upload": UploadCommand,
-        "test": PyTest,
-    },
-)
diff --git a/stranger/cli.py b/stranger/cli.py
index 448c899..71e0569 100644
--- a/stranger/cli.py
+++ b/stranger/cli.py
@@ -1,7 +1,6 @@
 import gzip
 import logging
 from codecs import getreader, open
-from pprint import pprint as pp
 
 import click
 import coloredlogs