content: from setuptools import setup, find_packages
  
  __version__ = eval(open('mitty/version.py').read().split('=')[1])
  setup(
      name='mitty',
      version=__version__,
      description='Simulator for genomic data',
      author='Seven Bridges Genomics',
      author_email='kaushik.ghose@sbgenomics.com',
      packages=find_packages(include=['mitty*']),
      include_package_data=True,
      entry_points={
        # Register the built in plugins
        'mitty.plugins.sfs': ['double_exp = mitty.plugins.site_frequency.double_exp'],
        'mitty.plugins.variants': ['snp = mitty.plugins.variants.snp_plugin',
                                   'delete = mitty.plugins.variants.delete_plugin',
                                   'uniformdel = mitty.plugins.variants.uniform_deletions',
                                   'uniformins = mitty.plugins.variants.uniform_insertions',
                                   'insert = mitty.plugins.variants.insert_plugin',
                                   #'inversion = mitty.plugins.variants.inversion_plugin',
                                   #'low_entropy_insert = mitty.plugins.variants.low_entropy_insert_plugin'
                                   ],
        'mitty.plugins.population': ['standard = mitty.plugins.population.standard',
                                     'vn = mitty.plugins.population.vn'],
        'mitty.plugins.reads': ['simple_sequential = mitty.plugins.reads.simple_sequential_plugin',
                                'simple_illumina = mitty.plugins.reads.simple_illumina_plugin'],
        # Command line scripts
        'console_scripts': ['genomes = mitty.genomes:cli',
                            'reads = mitty.reads:cli',
                            'perfectbam = mitty.benchmarking.perfectbam:cli',
                            'badbams = mitty.benchmarking.badbams:cli',
                            'alindel = mitty.benchmarking.indel_alignment_accuracy:cli',
                            'benchsummary = mitty.benchmarking.benchmark_summary:cli',
                            'vcf2pop = mitty.lib.vcf2pop:cli',
                            'bam2tfq = mitty.benchmarking.convert_bam_to_truth_fastq:cli',
                            'alindel_plot = mitty.benchmarking.indel_alignment_accuracy_plot:cli',
                            'misplot = mitty.benchmarking.misalignment_plot:cli',
                            'acubam = mitty.benchmarking.bam_accuracy:cli',
                            'migratedb = mitty.util.db_migrate:cli',
                            'plot_gc_bias = mitty.util.plot_gc_bias:cli',
                            'splitta = mitty.util.splitta:cli',
                            'kmers = mitty.util.kmers:cli',
                            'pybwa = mitty.util.pybwa:cli']
      },
      install_requires=[
        'cython',
        'setuptools>=11.0.0',
        'numpy>=1.9.0',
        'docopt>=0.6.2',
        'click>=3.3',
        'pysam>=0.8.1',
        'h5py>=2.5.0',
        'matplotlib>=1.3.0',
        'scipy'
      ],
  )