old_contents: '''Temporary file to demonstrate the sample dataset.
  '''
  
  from pymongo import MongoClient
  import pandas as pd
  from skimage import io
  import matplotlib.pyplot as plt
  import subprocess as sp
  import time
  import os
  
  abspath = os.path.dirname(__file__)
  
  def string2tuple(string_tuple):
      # TODO add docstring
      string_values = string_tuple.split(', ')
      coords = (int(string_values[0][1:]), string_values[1][1:-2])
      return coords
  
  
  # start mongodb daemon
  
  client = MongoClient('localhost', 27017)
  db = client['myofusion_test']
  collection = db.wells_test
  
  # import documents if collection is empty
  # wait two seconds to allow collection to import
  if db.wells_test.find({}).count() == 0:
      sp.Popen(['mongoimport', '-host', 'localhost:27017', '-d',
                'myofusion_test', '-c', 'wells_test', os.path.join(abspath, 'testdata/wells_test.json')])
      time.sleep(2)
  
  #  parse image filename and id and gene name
  cursor = collection.find({})
  titles = []
  images = []
  for doc in cursor:
      print doc
      key = doc['_id']
      gene_name = doc['gene_name']
      image_fn = doc['filename']
      image_fn = os.path.join(abspath, 'testdata/images/') + image_fn.split('/')[5]
      image = io.imread(image_fn)
      images.append(image)
      titles.append(' '.join([key, gene_name]))
  
  # read dataframe from CSV, show first 5 rows
  test_data = pd.read_csv(os.path.join(abspath, 'testdata/data_test.csv'), index_col=0,
                           converters={0: string2tuple})
  print test_data.head()
  
  
  # display all images
  fig, axes = plt.subplots(2, 4)
  
  for ax in axes.ravel():
      ax.imshow(images.pop())
      ax.set_title(titles.pop())
      ax.axis('off')
  
  plt.show()
  
new_contents: '''Temporary file to demonstrate the sample dataset.
  '''
  
  from pymongo import MongoClient
  import pandas as pd
  from skimage import io
  import matplotlib
  matplotlib.use('Agg')
  import matplotlib.pyplot as plt
  import subprocess as sp
  import time
  import os
  
  abspath = os.path.dirname(__file__)
  
  def string2tuple(string_tuple):
      # TODO add docstring
      string_values = string_tuple.split(', ')
      coords = (int(string_values[0][1:]), string_values[1][1:-2])
      return coords
  
  
  # start mongodb daemon
  
  client = MongoClient('localhost', 27017)
  db = client['myofusion_test']
  collection = db.wells_test
  
  # import documents if collection is empty
  # wait two seconds to allow collection to import
  if db.wells_test.find({}).count() == 0:
      sp.Popen(['mongoimport', '-host', 'localhost:27017', '-d',
                'myofusion_test', '-c', 'wells_test', os.path.join(abspath, 'testdata/wells_test.json')])
      time.sleep(2)
  
  #  parse image filename and id and gene name
  cursor = collection.find({})
  titles = []
  images = []
  for doc in cursor:
      print doc
      key = doc['_id']
      gene_name = doc['gene_name']
      image_fn = doc['filename']
      image_fn = os.path.join(abspath, 'testdata/images/') + image_fn.split('/')[5]
      image = io.imread(image_fn)
      images.append(image)
      titles.append(' '.join([key, gene_name]))
  
  # read dataframe from CSV, show first 5 rows
  test_data = pd.read_csv(os.path.join(abspath, 'testdata/data_test.csv'), index_col=0,
                           converters={0: string2tuple})
  print test_data.head()
  
  
  # display all images
  fig, axes = plt.subplots(2, 4)
  
  for ax in axes.ravel():
      ax.imshow(images.pop())
      ax.set_title(titles.pop())
      ax.axis('off')
  
  plt.show()
  
subject: Change matplotlib to use 'Agg'