Hi, Martin

It is working after updated packages following your suggestion. Thanks.

Best,

Anyou



On Mon, Dec 13, 2010 at 9:37 AM, Martin Morgan <mtmorgan@fhcrc.org> wrote:

> On 12/13/2010 09:24 AM, ANYOU WANG wrote:
> > Hello, everyone
> >
> >  A question about readAligned. I tried to input the .map
> > aligned sequence data using readAligned, but it failed (detail
> > below), even using the testing data downloaded from the ShortRead
> website.
> > Could anyone give some suggestions? Thanks.
> >
> > Anyou
> >
> > expdir<-"/disk2/lab/tmp1/"
> > Test.me3 <- sapply( list.files( expdir, "*.map" ),function(filename)
> > readAligned(expdir, filename, type="MAQMapShort" ))
> >
> > Error: Input/Output
> >
> > 'readAligned' failed to parse files
> >
> > dirPath: '/disk2/lab/tmp1/'
> >
> > pattern: 'run4_lane8.map'
> >
> > type: 'MAQMapShort'
> >
> > error: function '_new_RoSeqs_from_CharAEAE' not provided by
> > package 'Biostrings'
>
> Hi
>
> This suggests an incorrect version of Biostrings. Follow the directions
> here
>
> http://bioconductor.org/install/index.html#update-bioconductor-packages
>
> to update packages, and please let us know how it goes -- use
> sessionInfo() to report your session information
>
> Best,
>
> Martin
> >
> >
> >  ***my system info below
> >
> > Mandriva Linux 2010, 64bit, 8 CPU,12G RAM.
> >
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> >
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>
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