[R-pkg-devel] pairwiseAlignment

[Ben Bolker]

    I'm not sure this is the right venue for your question (the mailing 
list is for package *development*).  You might try opening an issue at 
the package bug-report site:

https://github.com/Bioconductor/Biostrings/issues

or asking on https://www.biostars.org/ forum (where there are a lot of 
bioinformatics people)

  You may be asked to provide a reproducible example (e.g. by simulation 
or random generation ...)

   cheers
    Ben Bolker

On 6/16/21 9:14 PM, csmatyi wrote:
> Hello,
> 
> I am trying to align two sequences, in DNAString format using the R command pairwiseAlignment.
> I keep getting this error:
> 
> pairwiseAlignment(si,sj)
> Error in .Call2("XStringSet_align_pairwiseAlignment", pattern, subject,  :
>    max(nchar(pattern) * nchar(subject)) is too big (must be <= 2147483647)
> 
> The 2 DNAstrings are si and sj, and are 108,007 bp and 120,698 bp long, respectively.
> 
> Can someone help me? Are the sequences too long perchance?
> 
> Thanks, Matthew
> 
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