Question: rnahybrid "Error in nextSQ. Aborting"
0
gravatar for nathanielsaxe
4.5 years ago by
United Kingdom
nathanielsaxe10 wrote:

I've been running rnahybrid on some custom UTR and mirna sequences and it seems to work fine as i get a long list of possible targets, however, the last entry on all the files is an error message

"Error in nextSQ. Aborting"

I've googled it and nothing has appeared, I found the source file for it, but I can't understand it at all.

https://github.com/semenko/mirna-scanner/blob/master/rnahybrid/src/fasta.c

Could someone explain to me what the error message means? 

 

Thanks

ADD COMMENTlink modified 4.5 years ago by David Fredman990 • written 4.5 years ago by nathanielsaxe10
1
gravatar for David Fredman
4.5 years ago by
David Fredman990
University of Bergen, Norway
David Fredman990 wrote:

A guess on the error message - your fasta file ends with an empty line or similar, that makes the Fasta parser in RNAhybrid fail on trying to parse it. Alternatively, you have a malformatted fasta entry in a multi-fasta sequence. Do you get results for all your UTR and miRNA sequences, or does it stop mid-way somewhere?

On a side note, the latest version of the source code is here

http://bibiserv.techfak.uni-bielefeld.de/download/tools/rnahybrid.html

ADD COMMENTlink modified 4.5 years ago • written 4.5 years ago by David Fredman990
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