text: #!/usr/bin/env python
  # Copyright (C) 2019 Emanuel Goncalves
  
  import setuptools
  
  with open("README.md", "r") as fh:
      long_description = fh.read()
  
  
  version = {}
  with open("crispy/__init__.py") as f:
      exec(f.read(), version)
  
  
  with open("requirements.txt") as f:
      requirements = f.read().split("\n")
  
  
  included_files = {
      "crispy": [
          "data/cytoBand.txt",
  
          "data/crispr_libs/Avana_v1.csv.gz",
          "data/crispr_libs/Brunello_v1.csv.gz",
          "data/crispr_libs/GeCKO_v2.csv.gz",
          "data/crispr_libs/Manjunath_Wu_v1.csv.gz",
          "data/crispr_libs/MasterLib_v1.csv.gz",
          "data/crispr_libs/MinLibCas9.csv.gz",
          "data/crispr_libs/Sabatini_Lander_v3.csv.gz",
          "data/crispr_libs/TKOv3.csv.gz",
          "data/crispr_libs/Yusa_v1.1.csv.gz",
  
          "data/crispr_manifests/project_score_exclude_samples.csv",
          "data/crispr_manifests/GeCKO2_Achilles_v3.3.8_dropped_guides.csv.gz",
          "data/crispr_manifests/Avana_DepMap19Q2_sample_map.csv.gz",
          "data/crispr_manifests/Avana_DepMap19Q2_dropped_guides.csv.gz",
          "data/crispr_manifests/Avana_DepMap19Q3_sample_map.csv.gz",
          "data/crispr_manifests/Avana_DepMap19Q3_dropped_guides.csv",
          "data/crispr_manifests/KM12_coverage_samplesheet.xlsx",
  
          "data/gene_sets/EssentialGenes.csv",
          "data/gene_sets/NonessentialGenes.csv",
          "data/gene_sets/pancan_core.csv",
          "data/gene_sets/curated_BAGEL_essential.csv",
          "data/gene_sets/curated_BAGEL_nonEssential.csv",
          "data/gene_sets/pan_core_essential_broad_depmap18Q3.txt",
          "data/gene_sets/pan_core_essential_broad_depmap18Q4.txt",
          "data/gene_sets/essential_sanger_depmap19.tsv",
  
          "data/copy_number/Summary_segmentation_data_994_lines_picnic.csv.gz",
  
          "data/images/example_gp_fit.png",
          "data/images/logo.png",
  
          "data/model_list_20200204.csv",
          "data/GrowthRates_v1.3.0_20190222.csv",
          "data/growth_rates_rapid_screen_1536_v1.6.3_02Jun20.csv",
          "data/SIDMvsMedia.xlsx",
          "data/crispr/CRISPR_Institute_Origin_20191108.csv.gz",
  
          "data/pathways/c2.all.v7.1.symbols.gmt",
          "data/pathways/c2.cp.kegg.v7.1.symbols.gmt",
          "data/pathways/c2.cp.v7.1.symbols.gmt",
          "data/pathways/c5.all.v7.1.symbols.gmt",
          "data/pathways/c5.bp.v7.1.symbols.gmt",
          "data/pathways/c6.all.v7.1.symbols.gmt",
          "data/pathways/h.all.v7.1.symbols.gmt",
      ]
  }
  
  
  setuptools.setup(
      name="cy",
      version=version["__version__"],
      author="Emanuel Goncalves",
      author_email="eg14@sanger.ac.uk",
      long_description=long_description,
      description="Modelling CRISPR dropout data",
      long_description_content_type="text/markdown",
      url="https://github.com/EmanuelGoncalves/crispy",
      packages=["crispy", "test"],
      include_package_data=True,
      package_data=included_files,
      install_requires=requirements,
      classifiers=(
          "Programming Language :: Python :: 3",
          "License :: OSI Approved :: BSD License",
          "Operating System :: OS Independent",
          "Intended Audience :: Science/Research",
          "Topic :: Scientific/Engineering :: Bio-Informatics",
          "Topic :: Scientific/Engineering :: Information Analysis",
      ),
  )
  