VinaPoseGenerator works on Windows

      url = "http://vina.scripps.edu/download/autodock_vina_1_1_2_linux_x86.tgz"

      filename = "autodock_vina_1_1_2_linux_x86.tgz"

      dirname = "autodock_vina_1_1_2_linux_x86"

      self.vina_dir = os.path.join(data_dir, dirname)

      self.vina_cmd = os.path.join(self.vina_dir, "bin/vina")

    elif platform.system() == 'Darwin':

      if sixty_four_bits:

        url = "http://vina.scripps.edu/download/autodock_vina_1_1_2_mac_64bit.tar.gz"

        url = "http://vina.scripps.edu/download/autodock_vina_1_1_2_mac.tgz"

        filename = "autodock_vina_1_1_2_mac.tgz"

        dirname = "autodock_vina_1_1_2_mac"

      self.vina_dir = os.path.join(data_dir, dirname)

      self.vina_cmd = os.path.join(self.vina_dir, "bin/vina")

    elif platform.system() == 'Windows':

      url = "http://vina.scripps.edu/download/autodock_vina_1_1_2_win32.msi"

      filename = "autodock_vina_1_1_2_win32.msi"

      self.vina_dir = "\\Program Files (x86)\\The Scripps Research Institute\\Vina"

      self.vina_cmd = os.path.join(self.vina_dir, "vina.exe")

    else:

      raise ValueError(

          "This class can only run on Linux or Mac. If you are on Windows, please try using a cloud platform to run this code instead."

          "Unknown operating system.  Try using a cloud platform to run this code instead."

      )

    self.vina_dir = os.path.join(data_dir, dirname)

    self.pocket_finder = pocket_finder

    if not os.path.exists(self.vina_dir):

      logger.info("Vina not available. Downloading")

      download_url(url, data_dir)

      downloaded_file = os.path.join(data_dir, filename)

      logger.info("Downloaded Vina. Extracting")

      if platform.system() == 'Windows':

        msi_cmd = "msiexec /i %s" % downloaded_file

        check_output(msi_cmd.split())

      else:

        with tarfile.open(downloaded_file) as tar:

          tar.extractall(data_dir)

      logger.info("Cleanup: removing downloaded vina tar.gz")

      os.remove(downloaded_file)

    self.vina_cmd = os.path.join(self.vina_dir, "bin/vina")

  def generate_poses(self,

                     molecular_complex,

      log_file = os.path.join(out_dir, "%s_log.txt" % ligand_name)

      out_pdbqt = os.path.join(out_dir, "%s_docked.pdbqt" % ligand_name)

      logger.info("About to call Vina")

      call(

          "%s --config %s --log %s --out %s" % (self.vina_cmd, conf_file,

                                                log_file, out_pdbqt),

          shell=True)

      if platform.system() == 'Windows':

        args = [self.vina_cmd, "--config", conf_file, "--log", log_file, "--out", out_pdbqt]

      else:

        # I'm not sure why specifying the args as a list fails on other platforms,

        # but for some reason it only works if I pass it as a string.

        args = "%s --config %s --log %s --out %s" % (self.vina_cmd, conf_file, log_file, out_pdbqt)

      call(args, shell=True)

      ligands, scores = vina_utils.load_docked_ligands(out_pdbqt)

      docked_complexes += [(protein_mol[1], ligand) for ligand in ligands]

      all_scores += scores