Reposted from an old thread in the SOLiD forum :
Hi, I did the indexing with bwtsw and no -p and I got the following files :
Mouse_genome.fa.amb
Mouse_genome.fa.ann
Mouse_genome.fa.bwt
Mouse_genome.fa.pac
Mouse_genome.fa.rbwt
Mouse_genome.fa.rpac
Mouse_genome.fa.rsa
Mouse_genome.fa.sa
I managed to get the .sai file from the aln command, but now I'm stuck because the samse command gives me the error:
fail to open file '../Mouse_genome.fa.nt.ann'. Abort!
But I never get the .nt.ann file with indexing. I'm confused.
Hi, I did the indexing with bwtsw and no -p and I got the following files :
Mouse_genome.fa.amb
Mouse_genome.fa.ann
Mouse_genome.fa.bwt
Mouse_genome.fa.pac
Mouse_genome.fa.rbwt
Mouse_genome.fa.rpac
Mouse_genome.fa.rsa
Mouse_genome.fa.sa
I managed to get the .sai file from the aln command, but now I'm stuck because the samse command gives me the error:
fail to open file '../Mouse_genome.fa.nt.ann'. Abort!
But I never get the .nt.ann file with indexing. I'm confused.
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