old_contents: from EMAlgorithm import EMAlgorithm
  from DatabaseReducer import DatabaseReducer
  
  STAPHILOCCOCUS = "alignments/alignments_staphi"
  SALMONELLA = "alignments/alignments_salmonella"
  KLEBSIELLA = "alignments/alignments_klebsiella"
  
  STAPHILOCCOCUS_NEW = "alignments/new/alignments_staphi"
  SALMONELLA_NEW = "alignments/new/alignments_salmonella"
  KLEBSIELLA_NEW = "alignments/new/alignments_klebsiella"
  
  STAPHILOCCOCUS2 = "alignments/Ivan/outs/Staphi_x1.out"
  SALMONELLA2 = "alignments/Ivan/outs/salmonella_x1.out"
  KLEBSIELLA2 = "alignments/Ivan/outs/klebsiella_x1.fastq.out"
  
  INPUT_FILE = KLEBSIELLA + "_x1.sam"
  
  #DatabaseReducer().generate()
  EM = EMAlgorithm().start(INPUT_FILE)
  
  
  
new_contents: from EMAlgorithm import EMAlgorithm
  from DatabaseReducer import DatabaseReducer
  
  STAPHILOCCOCUS = "alignments/alignments_staphi"
  SALMONELLA = "alignments/alignments_salmonella"
  KLEBSIELLA = "alignments/alignments_klebsiella"
  
  STAPHILOCCOCUS_NEW = "alignments/new/alignments_staphi"
  SALMONELLA_NEW = "alignments/new/alignments_salmonella"
  KLEBSIELLA_NEW = "alignments/new/alignments_klebsiella"
  
  STAPHILOCCOCUS_TEST = "alignments/test/outs/staphi"
  SALMONELLA_TEST = "alignments/test/outs/salmonella"
  KLEBSIELLA_TEST = "alignments/test/outs/klebsiella"
  
  INPUT_FILE = KLEBSIELLA_TEST + "_x1.sam"
  
  #DatabaseReducer().generate()
  EM = EMAlgorithm().start(INPUT_FILE)
  
  
  
subject: Update project