new_contents: """
  Given a tuple of index1, index2, correlation and a tuple of index, contig
  
  rewrite the correlation to be contig1, contig2, correlation
  """
  
  import os
  import sys
  import argparse
  
  __author__ = 'Rob Edwards'
  
  if __name__ == "__main__":
      parser = argparse.ArgumentParser(description=' ')
      parser.add_argument('-i', help='index file', required=True)
      parser.add_argument('-c', help='correlation file', required=True)
      parser.add_argument('-v', help='verbose output', action='store_true')
      args = parser.parse_args()
  
      i2c = {}
      with open(args.i, 'r') as fin:
          for l in fin:
              if ',' in l:
                  p = l.strip().split(',')
              elif "\t" in l:
                  p = l.strip().split("\t")
              else:
                  sys.stderr.write(f"Neither a comma or tab in {args.i}. What is separator?\n")
                  sys.exit(1)
  
      with open(args.c, 'r') as fin:
          for l in fin:
              if ',' in l:
                  p = l.strip().split(',')
              elif "\t" in l:
                  p = l.strip().split("\t")
              else:
                  sys.stderr.write(f"Neither a comma or tab in {args.c}. What is separator?\n")
                  sys.exit(1)
              if p[0] not in i2c:
                  sys.stderr.write(f"{p[0]} not found in the index file\n")
                  sys.exit(1)
              if p[1] not in i2c:
                  sys.stderr.write(f"{p[1]} not found in the index file\n")
                  sys.exit(1)
              print(f"{i2c[p[0]]}\t{i2c[p[1]]}\t{p[2]}")
subject: Convert an index to a contig