In Ray, fastq files must have the extension .fastq.
Input files
.fasta
.fasta.gz (needs HAVE_LIBZ=y at compilation)
.fasta.bz2 (needs HAVE_LIBBZ2=y at compilation)
.fastq
.fastq.gz (needs HAVE_LIBZ=y at compilation)
.fastq.bz2 (needs HAVE_LIBBZ2=y at compilation)
.sff (paired reads must be extracted manually)
.csfasta (color-space reads)
Note: file format is determined with file extension.
ln -s h.fq h.fastq
ln -s d.fq d.fastq
mpirun -np 2 ./Ray -k 30 -s h.fastq -s d.fastq -o dh
Sébastien
> ________________________________________
> De : Huanle LIU [[email protected]]
> Date d'envoi : 14 juillet 2011 06:48
> À : [email protected]
> Objet : [Denovoassembler-users] what does this warning mean?
>
> Hi there,
>
> I have installed Ray 1.6.0.
>
> I was able to run those example data sets.
>
> However, when it came to my own data, i always got this warning message:
> terminate called after throwing an instance of 'std::out_of_range' what():
> basic_string::substr
>
> The command line i used is :
>
> mpirun -np 2 ./Ray -k 30 -s h.fq -s d.fq -o dh
>
>
> Could anyone help me figure out the rub?
>
> Thanks in advance.
>
>
> Cheers,
>
> Huanle
>
------------------------------------------------------------------------------
AppSumo Presents a FREE Video for the SourceForge Community by Eric
Ries, the creator of the Lean Startup Methodology on "Lean Startup
Secrets Revealed." This video shows you how to validate your ideas,
optimize your ideas and identify your business strategy.
http://p.sf.net/sfu/appsumosfdev2dev
_______________________________________________
Denovoassembler-users mailing list
[email protected]
https://lists.sourceforge.net/lists/listinfo/denovoassembler-users
