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1 import os
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2 import sys
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3
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4 inter_file = sys.argv[1]
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5 prey_file = sys.argv[2]
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6 bait_file = sys.argv[3]
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7 num_of_rep = sys.argv[4]
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8 vc_bool = sys.argv[5]
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9 vc_num = sys.argv[6]
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10 go_bool = sys.argv[7]
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11 go_file = sys.argv[8]
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12 output_file = sys.argv[9]
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13
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14 def default_run(inter_file1,prey_file1,bait_file1,output_file1,num_of_rep1):
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15 cmd = r"SAINTexpress-spc " + r"-R" + str(num_of_rep1) + " " + str(inter_file1) + " " + str(prey_file1) + " " + str(bait_file1)
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16 os.system(cmd)
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17 open('list.txt')
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18 os.rename('list.txt', str(output_file1))
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19
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20 def with_L(inter_file1,prey_file1,bait_file1,output_file1,vc_num1,num_of_rep1):
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21 cmd = r"SAINTexpress-spc "+ r"-R" + str(num_of_rep1) + " " + r"-L" + str(vc_num1) + " " + str(inter_file1) + " " + str(prey_file1) + " " + str(bait_file1)
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22 os.system(cmd)
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23 open('list.txt')
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24 os.rename('list.txt', str(output_file1))
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25
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26 def external_data_no_L(inter_file1,prey_file1,bait_file1,output_file1,go_file1,num_of_rep1):
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27 cmd = r"SAINTexpress-spc "+ r"-R" + str(num_of_rep1) + " " + str(inter_file1) + " " + str(prey_file1) + " " + str(bait_file1) + " " + str(go_file1)
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28 os.system(cmd)
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29 open('list.txt')
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30 os.rename('list.txt', str(output_file1))
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31
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32 def external_data_with_L(inter_file1,prey_file1,bait_file1,output_file1,go_file1,num_of_rep1,vc_num1):
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33 cmd = r"SAINTexpress-spc "+ r"-R" + str(num_of_rep1) + " " + r"-L" + str(vc_num1) + " " + str(inter_file1) + " " + str(prey_file1) + " " + str(bait_file1) + " " + str(go_file1)
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34 os.system(cmd)
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35 open('list.txt')
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36 os.rename('list.txt', str(output_file1))
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37
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38 if (vc_bool == "true"):
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39 if (go_bool == "false"):
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40 with_L(inter_file, prey_file, bait_file, output_file, vc_num, num_of_rep)
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41 elif (go_bool == "true"):
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42 external_data_with_L(inter_file, prey_file, bait_file, output_file, go_file, num_of_rep, vc_num)
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43 elif (vc_bool == "false"):
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44 if (go_bool == "false"):
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45 default_run(inter_file, prey_file, bait_file, output_file, num_of_rep)
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46 elif (go_bool == "true"):
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47 external_data_no_L(inter_file, prey_file, bait_file, output_file, go_file, num_of_rep)
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