old_contents: # -*- coding: utf-8 -*-
  
  import os
  import sys
  
  import click
  
  from .algorithm import multi_run_epicom, run_epicom
  from ..neurommsig import get_ad_graph, get_ep_graph, get_pd_graph
  
  
  @click.group()
  def main():
      """Run epicom reloaded"""
  
  
  @main.command()
  @click.option('-d', '--directory', default=os.getcwd())
  def ad(directory):
      """Run EpiCom on AD"""
      graph = get_ad_graph()
      run_epicom(graph, directory)
  
  
  @main.command()
  @click.option('-o', '--output', type=click.File('w'), default=sys.stdout)
  def multi(output):
      """Run EpiCom on all of NeuroMMSig"""
      graphs = [
          get_ad_graph(),
          get_ep_graph(),
          get_pd_graph(),
      ]
  
      multi_run_epicom(graphs, output)
  
  
  if __name__ == '__main__':
      main()
  
new_contents: # -*- coding: utf-8 -*-
  
  import os
  import sys
  
  import click
  
  from .algorithm import multi_run_epicom, run_epicom
  from ..neurommsig import get_ad_graph, get_ep_graph, get_pd_graph
  
  
  @click.group()
  def main():
      """Run EpiCom-Reloaded"""
  
  
  @main.command()
  @click.option('-d', '--directory', default=os.getcwd())
  def ad(directory):
      """Run EpiCom on AD"""
      graph = get_ad_graph()
      run_epicom(graph, directory)
  
  
  @main.command()
  @click.option('-d', '--directory', default=os.getcwd())
  def pd(directory):
      """Run EpiCom on PD"""
      graph = get_pd_graph()
      run_epicom(graph, directory)
  
  
  @main.command()
  @click.option('-d', '--directory', default=os.getcwd())
  def ep(directory):
      """Run EpiCom on Epilepsy"""
      graph = get_ep_graph()
      run_epicom(graph, directory)
  
  
  @main.command()
  @click.option('-o', '--output', type=click.File('w'), default=sys.stdout)
  def multi(output):
      """Run EpiCom on all of NeuroMMSig"""
      graphs = [
          get_ad_graph(),
          get_ep_graph(),
          get_pd_graph(),
      ]
  
      multi_run_epicom(graphs, output)
  
  
  if __name__ == '__main__':
      main()
  
subject: Update EpiCom CLI