[maq-help] can not get result for ill2sanger

[Peng Yu <pen...@gm...>]

I have the following sequence.txt file. But maq's ill2sanger doesn't
give me any result (the output fastq file is empty). Could you let me
know what is wrong?

$maq ill2sanger s_1_sequence.txt s_1_sequence.fastq


$ cat s_1_sequence.txt
HWI-EAS11X_10097:4:1:1047:11719#0/1:NGGGAAGTCGAAACGGCAGGGAATGGAGAAAAAAGGGCCCGCNAAGGCTGNNAAGGAGGAGATCGGGAGAGGGGC:BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
HWI-EAS11X_10097:4:1:1047:9026#0/1:NCAGAGAAGACCAAGGAAGGCGTCCTCTATGTCGGAATCAAGNCCAGAGANNGGAATAGCGGTTCAGCATGAATG:BYYYR[\U[W__^]`Z_X_BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
HWI-EAS11X_10097:4:1:1048:2910#0/1:NTAAATCTGTCGTAAACTCTCCACACCACAGTACTCAGAGATNGTAAGAGNNGTTCAGCAGGAATACCGAGACCG:BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
HWI-EAS11X_10097:4:1:1048:12092#0/1:NGACTTCCCATGACATTTATACTCCTCCTGCGACCAGATCGGNAGAGCGGNNCAGCAGGAAGGCCGAGACCGAGC:BUYYWY[[YXaa^[aa^^YaX`__[P[XX\_^I^BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB


BTW, I downloaded maq-0.7.1.tar.bz2 and applied the
maq-ill2sanger.patch using the command.

cd maq-0.7.1; patch -p1 < ../maq-ill2sanger.patch

-- 
Regards,
Peng