[R] Error in FUN(X[[1L]], ...) : STRING_ELT() can only be applied to a 'character vector', not a 'integer'
eriki at ccbr.umn.edu
Sun May 23 09:27:50 CEST 2010
> Sorry - I figured that this to be a more common defined error than anything
> specific to the data/function... Thanks for looking at this.
> The data and function are below. Creating a single line of the data.frame at
> a time will work (i.e. fold(s))
> For multiple line data.frames, an error is generated. Ideally I would like
> to record the output from fold(sq) in a two column data.frame, whether it
> requires reading in the data to fold one line at a time or in bulk.
>> s<- "ATTATGCATCGACTAGCATCACTAG"
>  "...((((........))))......"
>  -2.3
>> sq <- data.frame(c("ATGTGTGATATGCATGTACAGCATCGAC",
> + "ACTAGCACTAGCATCAGCTGTAGATAGA",
> + "ACTAGCATCGACATCATCGACATGATAG",
> + "CATCGACTACGACTACGTAGATAGATAG",
> + "ATCAGCACTACGACACATAGATAGAATA"))
> Error in fold(sq) :
> STRING_ELT() can only be applied to a 'character vector', not a 'list'
>> struct <- t(as.data.frame(sapply(sq[,1], fold, t=37)))
> Error in FUN(X[[1L]], ...) :
> STRING_ELT() can only be applied to a 'character vector', not a 'integer'
This appears to be a Bioconductor package, so if this doesn't help, I'd ask on
the specific bioconductor mailing list. I don't have the package installed, so
take the following advice with that in mind.
Did you look at the str(sq) ? It is not a character vector, it is a factor, so
you might need to convert or see stringsAsFactors in ?options.
lapply(sq[, 1], function(x) fold(as.character(x)))
If that doesn't work, try the other list.
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