I suppose that 'sff_extract' is probably searching for 'ssaha2' but cannot find it. Could you tell us what this gives:
echo $PATH Oh, and by the way, which 'mira' version do you have installed? Leonor. On 26/05/11 03:24, Juan Daniel Montenegro Cabrera wrote:
Dear all, Sorry for repeating old threads, but I cannot access the mira-talk archives for some reason. I have an sff file of a standard 3Kb paired-end library. When I try to extract the fasta, qualities and xml, using sff_extract, I obtain the following answer: [ErroNo22] I have used the standard linker sequence. How could I solve this? By the way, I have downloaded the ssaha2 binary from sanger trust (the source code was not available) and I cannot run it. I copied it to /usr/local/bioinf/ssaha2/ but still cannot make it work. I do not have that much experience in linux. Please, tell what I am doing wrong. And how can I solve these issues. Juan Montenegro
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