Hello, everyone

I forgot the sessionInfo() in my former post about the failure of
readAligned. Here I reposted below it with this info. Thanks. Anyou

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'


 > sessionInfo()

R version 2.12.0 (2010-10-15)

Platform: x86_64-unknown-linux-gnu (64-bit)

 locale:

[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C

[3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8

[5] LC_MONETARY=C LC_MESSAGES=en_US.UTF-8

[7] LC_PAPER=en_US.UTF-8 LC_NAME=C

[9] LC_ADDRESS=C LC_TELEPHONE=C

[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C

 attached base packages:

[1] stats graphics grDevices utils datasets methods base

 other attached packages:

[1] ShortRead_1.4.0 lattice_0.19-13 BSgenome_1.14.2 Biostrings_2.18.2

[5] IRanges_1.8.2

 loaded via a namespace (and not attached):

[1] Biobase_2.10.0 grid_2.12.0 hwriter_1.2

	[[alternative HTML version deleted]]

