Originally posted by dukevn
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That doesn't look any DNA I have seen before!
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MAQ - Segmentation fault
Hi all,
I just started with the DNA sequencing and analysis area and everything is all new to me. So please be easy on me.
Now I am trying to learn how to align and analyze data. I downloaded MAQ, compiled it (in PowerPC G5 computer), copied maq, maq.pl etc to runfiles director, and try to run with a test data file as suggested in MAQ
Calib-36.dat came together with the MAQ package, and ref.fasta is as simple asCode:maq.pl demo ref.fasta calib-36.dat
After a while, I got Segmentation fault error:Code:>D86934(D86934)probable sugar-nucleotide dehydratase [imported] - Mycobacterium leprae MYGEPVRALVTGAAGFIGSTLVDRLLADGHTVVGLDNFATGHAANLEHLASTPALAFVEA DIVTADLQTILDEHRPEVVFHLAAQIDVRHSVVDPQFDASVNVIGTVRLAEAARHTGVRK IVHTSSGGSIYGTPSQYPTPETVPTDPTSPYAAGKVAGEIYLNTFRHLCGLDCSHIAPAN VYGPRQDPYGEAGVVAIFVQALLSDRPTKVFGDGTHTRDYVFVDDVVDAFIKASGDAGGG QRFNIGTGIETSDRQLHTAVSAAVGGPDDPEFHPPRLGDLKRSCLDIGLATTVLGWSPQV QLDDGVRRTVEYFRAAQRS
What I am doing wrong, or is this any missing step that I forget? Anybody help please!Code:-- CMD: mkdir -p maqdemo -- CMD: /usr/local/bin/maq simulate -N 1000000 maqdemo/r1.fq maqdemo/r2.fq ref.fasta calib-36.dat > maqdemo/true.snp -- 1 sequences, total length: 319 sh: line 1: 37110 Segmentation fault /usr/local/bin/maq simulate -N 1000000 maqdemo/r1.fq maqdemo/r2.fq ref.fasta calib-36.dat > maqdemo/true.snp ** fail to run command '/usr/local/bin/maq simulate -N 1000000 maqdemo/r1.fq maqdemo/r2.fq ref.fasta calib-36.dat > maqdemo/true.snp' at /usr/local/bin/maq.pl line 842.
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