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1 #!/usr/bin/env python
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2
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3 import sys
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4 from Population import Population
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5
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6 input_file, output_file = sys.argv[1:3]
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7 tags = sys.argv[3:]
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8
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9 aliases = {}
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10
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11 for tag in tags:
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12 column, alias = tag.split(':', 1)
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13 column = column.strip()
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14 alias = alias.strip()
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15 if alias:
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16 aliases[column] = alias
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17
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18 p_total = Population()
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19 p_total.from_population_file(input_file)
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20
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21 with open(output_file, 'w') as ofh:
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22 for column in p_total.column_list():
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23 individual = p_total.individual_with_column(column)
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24 real_name = individual.real_name
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25 rv = [column, real_name, '']
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26 if column in aliases:
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27 alias = aliases[column]
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28 if alias != real_name:
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29 rv[2] = alias
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30 print >> ofh, '\t'.join(rv)
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31
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32 sys.exit(0)
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33
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