100Re: Error running latest ssaha
- Aug 23, 2007Hi
Your command should work if test.fa is in valid fasta format. However
the file needs to be in UNIX text file format - ie just one character
at each linebreak. I managed to replicate this error by giving it a
fasta file in DOS text file format.
Try 'dos2unix test.fa' and rerunning the query.
--- In firstname.lastname@example.org, "sraxylan" <sraxylan@...> wrote:
> I'm trying to run ssaha on a fedora 7 (32bit) system and it's dying
> with an error every time I run it.
> I'm running the latest v33 version of ssaha, but I've also tried
> which also fails.
> I can successfully compute the hashtable from my subject fasta
> but when I try to search against this with a short test sequence
> /usr/local/bin/ssaha test.fa
> /data/public/DNA/Genomes/NCBIM36/Current/ncbi36_1 -qf fasta -sf hash
> [snip lots of output]
> Info: running DNA query against DNA hash table.
> const char* SourceReaderIndex::extractName(SequenceNumber):
> `(nameBuffer_=='>')||(nameBuffer_=='@')' failed.
> Any ideas about how to make this work?
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