new_contents: """
  Small demonstration of the hlines and vlines plots.
  """
  
  import matplotlib.pyplot as plt
  import matplotlib.text
  import numpy as np
  from os.path import basename
  from io import StringIO
  from sys import argv
  
  file = argv[1]
  base = basename(file)
  seqs = base.split('_')
  mz = {'alpha':[],'beta':[],'q':[]}
  intensity = {'alpha':[],'beta':[],'q':[]}
  annotation = {'alpha':[],'beta':[],'q':[]}
  xmax = 0
  ymax = 0
  sequence = ''
  with open(file) as f:
  	#sequence = f.readline()
  	for line in f:
  		line = line.replace(' ','')
  		lines = line.split('\t')
  		mz1 = float(lines[0])
  		intensity1 = float(lines[1])
  		if mz1 > xmax:
  			xmax = mz1
  		if intensity1 > ymax:
  			ymax = intensity1
  		if 'Alpha' in lines[2]:
  			mz['alpha'].append(mz1)
  			intensity['alpha'].append(intensity1)
  			annotation['alpha'].append(lines[2])
  		if 'Beta' in lines[2]:
  			mz['beta'].append(mz1)
  			intensity['beta'].append(intensity1)
  			annotation['beta'].append(lines[2])
  		if '?' in lines[2]:
  			mz['q'].append(mz1)
                          intensity['q'].append(intensity1)
                          annotation['q'].append(lines[2])	
  xmax=1000
  ymax = 100*1.5
  fig = plt.figure(figsize=(30,10))
  axes = fig.add_subplot(1,1,1)
  plt.xlim((200,xmax))
  plt.ylim((0,ymax))
  axes.plot(0)
  axes.vlines(mz['alpha'], [0], intensity['alpha'],colors='green',linewidths=2)
  for i,txt in enumerate(annotation['alpha']) :
  	if mz['alpha'][i] >= 1000:
  		continue
  	axes.text(mz['alpha'][i],intensity['alpha'][i],txt,color='green',fontsize=10,rotation='horizontal',family='monospace')
  axes.vlines(mz['beta'],[0],intensity['beta'],colors='red',linewidths=2)
  for i,txt in enumerate(annotation['beta']) :
          if mz['beta'][i] >= 1000:
                  continue
          axes.text(mz['beta'][i],intensity['beta'][i],txt,color='red',fontsize=10,rotation='horizontal',family='monospace')
  axes.vlines(mz['q'],[0],intensity['q'],colors='black',linewidths=2)
  a = axes.text(210,90,seqs[0]+'-'+seqs[2],fontsize=20,family='monospace',color='green')
  b = axes.text(210,80,seqs[1]+'-'+seqs[3],fontsize=20,family='monospace',color='red')
  axes.set_xlabel('m/z')
  axes.set_ylabel('Intensity')
  fig.savefig(file+'.png',bbox_inches='tight')
  
subject: add annotation function