[BioC] biomaRt doesn't load RCurl automatically

[Shi, Tao]

Hi list,

This only happened after I switched to R-2.8.0 and the latest biomaRt and RCurl.  I was using R-2.7.0 before and everything worked fine.  Currently, manually loading RCurl after loading biomaRt solves the problem.  Please see the R outputs below.  Many thanks!

##==============================================================
R version 2.8.0 (2008-10-20)
Copyright (C) 2008 The R Foundation for Statistical Computing
ISBN 3-900051-07-0

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> library(biomaRt)
> ?getSNP
> mart <- useMart("snp",dataset="hsapiens_snp")
Error in curlPerform(curl = curl, .opts = opts, .encoding = .encoding) : 
  could not find function "findHTTPHeaderEncoding"
> 
> snp = getSNP(chromosome = 8, start = 148350, end = 148612, mart = mart)
Error in martCheck(mart, "snp") : object "mart" not found
In addition: Warning message:
The getSNP function will be removed in the next release of biomaRt.  Use the getBM function instead.  The biomaRt vignette contains examples of retrieving SNP data 
> show(snp)
Error: object "snp" not found
Error in show(snp) : 
  error in evaluating the argument 'object' in selecting a method for function 'show'
> ?findHTTPHeaderEncoding
No documentation for 'findHTTPHeaderEncoding' in specified packages and libraries:
you could try '??findHTTPHeaderEncoding'
> library(RCurl)
> mart <- useMart("snp",dataset="hsapiens_snp")
Checking attributes and filters ... ok
> snp = getSNP(chromosome = 8, start = 148350, end = 148612, mart = mart)
Warning message:
The getSNP function will be removed in the next release of biomaRt.  Use the getBM function instead.  The biomaRt vignette contains examples of retrieving SNP data 
> snp
    refsnp_id allele chrom_start chrom_strand
1     rs13291    C/T      148462            1
2   rs1134186    T/C      148569            1
3   rs1134187    G/A      148539           -1
4   rs1134189    G/A      148535           -1
5   rs1134190    C/T      148533           -1
6   rs1134191    C/T      148499           -1
7   rs1134192    G/A      148462           -1
8   rs1134195    G/T      148394           -1
9   rs3965587    C/T      148535            1
10  rs4046274    C/A      148394            1
11  rs4046275    A/G      148411            1
12  rs4046276    C/T      148462            1
13  rs4046277    G/A      148499            1
14  rs4046278    G/A      148533            1
15  rs4378731    G/A      148601            1
16 rs11136408    G/A      148525            1
17 rs12019378    T/G      148471            1
> sessionInfo()
R version 2.8.0 (2008-10-20) 
i386-pc-mingw32 

locale:
LC_COLLATE=English_United States.1252;LC_CTYPE=English_United States.1252;LC_MONETARY=English_United States.1252;LC_NUMERIC=C;LC_TIME=English_United States.1252

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] RCurl_0.9-4    biomaRt_1.16.0

loaded via a namespace (and not attached):
[1] XML_1.96-0
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