text: #!/usr/bin/env python
  """Setup file and install script for NextGen sequencing analysis scripts.
  """
  import os
  from setuptools import setup, find_packages
  
  version = "1.2.0"
  
  def write_version_py():
      version_py = os.path.join(os.path.dirname(__file__), 'bcbio', 'pipeline',
                                'version.py')
      try:
          import subprocess
          p = subprocess.Popen(["git", "rev-parse", "--short", "HEAD"],
                               stdout=subprocess.PIPE)
          githash = p.stdout.read().strip()
      except:
          githash = ""
      with open(version_py, "w") as out_handle:
          out_handle.write("\n".join(['__version__ = "%s"' % version,
                                      '__git_revision__ = "%s"' % githash]))
  
  install_requires = [] # install dependencies via conda
  zip_safe = False
  scripts = ['scripts/bcbio_nextgen.py', 'scripts/bcbio_setup_genome.py', 'scripts/bcbio_prepare_samples.py',
             'scripts/bcbio_fastq_umi_prep.py', 'scripts/cwltool2wdl.py']
  
  write_version_py()
  setup(name="bcbio-nextgen",
        version=version,
        author="bcbio community",
        author_email="biovalidation@googlegroups.com",
        description="Best-practice pipelines for fully automated high throughput sequencing analysis",
        long_description=(open('README.rst').read()),
        license="MIT",
        url="https://github.com/bcbio/bcbio-nextgen",
        packages=find_packages(exclude=["tests"]),
        zip_safe=zip_safe,
        scripts=scripts,
        install_requires=install_requires,
        include_package_data=True)
  