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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 import argparse as ap
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5
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6 parser = ap.ArgumentParser(prog='data_path', conflict_handler='resolve',
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7 description="Output the galaxy file path of datasets in a text file")
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8
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9 input = parser.add_argument_group('Input', '')
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10 input.add_argument('-i', '--input', nargs='+', required=True, help="Paths to data1")
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11 input.add_argument('-j', '--input2', nargs='*', required=True, help="Paths to data2")
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12
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13 if len(sys.argv) == 0:
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14 parser.print_usage()
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15 sys.exit(1)
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16
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17 args = parser.parse_args()
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18 output = open('paths.txt', 'w')
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19 if len(args.input2) == 0:
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20 for index,path in enumerate(args.input):
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21 output.write("%s\n" % (path))
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22 else:
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23 for index,path in enumerate(args.input):
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24 output.write("%s\t%s\n" % (path, args.input2[index]))
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