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1 #!/usr/bin/env python
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2 import pandas as pd
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3 import argparse
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4
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5
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6 parser = argparse.ArgumentParser()
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7 parser.add_argument('-i', '--input', help='Tabular Input File Name')
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8 parser.add_argument('-o','--output', help='Tabular Output File')
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9 parser.add_argument('-c', '--columns',nargs='+', help='Column Headers to Sort By')
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10 args=parser.parse_args()
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11
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12 cols=args.columns
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13 table=pd.read_csv(args.input,sep='\t')
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14 blist = list(table.columns)
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15 for token in cols:
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16 blist.remove(token)
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17 sorted_table = table[args.columns + blist]
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18 # write without index, seperated by tabs
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19 sorted_table.to_csv(args.output,sep='\t',index=False)
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20
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