23 lines
572 B
Python
23 lines
572 B
Python
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import os.path
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import sys
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from optparse import OptionParser
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def main():
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global OPTIONS
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usage = "usage: %prog [options] cmap input.soapsnp"
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parser = OptionParser(usage=usage)
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(OPTIONS, args) = parser.parse_args()
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if len(args) != 2:
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parser.error("Requires exactly 2 arguments")
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cmap = dict([reversed(line.split()) for line in open(args[0])])
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#print cmap
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for line in open(args[1]):
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parts = line.split()
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mapped = cmap[parts[0]]
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print "\t".join([mapped] + parts[1:])
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if __name__ == "__main__":
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main()
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