[2] | 1 | #!/usr/bin/env python |
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| 2 | #By, Guruprasad Ananda. |
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| 3 | |
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| 4 | from galaxy import eggs |
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| 5 | import sys, re |
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| 6 | |
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| 7 | def stop_err(msg): |
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| 8 | sys.stderr.write(msg) |
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| 9 | sys.exit() |
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| 10 | |
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| 11 | def main(): |
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| 12 | if len(sys.argv) != 4: |
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| 13 | stop_err("usage: convert_characters infile from_char outfile") |
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| 14 | |
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| 15 | try: |
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| 16 | fin = open(sys.argv[1],'r') |
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| 17 | except: |
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| 18 | stop_err("Input file cannot be opened for reading.") |
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| 19 | |
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| 20 | from_char = sys.argv[2] |
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| 21 | |
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| 22 | try: |
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| 23 | fout = open(sys.argv[3],'w') |
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| 24 | except: |
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| 25 | stop_err("Output file cannot be opened for writing.") |
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| 26 | |
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| 27 | char_dict = {'T':'\t','s':'\s','Dt':'\.','C':',','D':'-','U':'_','P':'\|','Co':':'} |
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| 28 | from_ch = char_dict[from_char] + '+' #making an RE to match 1 or more occurences. |
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| 29 | skipped = 0 |
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| 30 | |
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| 31 | for line in fin: |
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| 32 | line = line.strip() |
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| 33 | try: |
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| 34 | fout.write("%s\n" %(re.sub(from_ch,'\t',line))) |
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| 35 | except: |
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| 36 | skipped += 1 |
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| 37 | |
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| 38 | if skipped: |
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| 39 | print "Skipped %d lines as invalid." %skipped |
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| 40 | |
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| 41 | if __name__ == "__main__": |
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| 42 | main() |
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