[R] 'weaver' package problem

[Peter Dalgaard]

Michael Kubovy <kubovy at virginia.edu> writes:

> Hi Seth,
> 
> The possibility of caching computations would be a great boon when  
> one is iteratively refining a paper; so I'm most grateful for your  
> work on this. Unfortunately I have a problem to report:
> 
> ******************installing******************
>  > source("http://bioconductor.org/biocLite.R")
>  > biocLite("weaver")
> Running getBioC version 0.1.8 with R version 2.4.0
> Running biocinstall version 1.9.8 with R version 2.4.0
> Your version of R requires version 1.9 of Bioconductor.
> trying URL 'http://bioconductor.org/packages/1.9/bioc/bin/macosx/ 
> universal/contrib/2.4/weaver_1.0.0.tgz'
> Content type 'application/x-gzip' length 101153 bytes
> opened URL
> ==================================================
> downloaded 98Kb
> 
> 
> The downloaded packages are in
> 	/tmp/RtmpO6uHHW/downloaded_packages
> 
> ******************loading weaver******************
>  > library(weaver)
> Loading required package: digest
> Loading required package: tools
> Loading required package: codetools
> 
> ******************testing Sweave******************
>  > testfile <- system.file("Sweave", "Sweave-test-1.Rnw", package =  
> "utils")
>  >
>  > ## enforce par(ask=FALSE)
>  > options(par.ask.default=FALSE)
>  >
>  > ## create a LaTeX file
>  > Sweave(testfile)
> Writing to file Sweave-test-1.tex
> Processing code chunks ...
> 1 : print term verbatim
> 2 : term hide
> 3 : echo print term verbatim
> 4 : term verbatim
> 5 : echo term verbatim
> 6 : echo term verbatim eps pdf
> 7 : echo term verbatim eps pdf
> 
> You can now run LaTeX on 'Sweave-test-1.tex'
> 
> ******************testing weaver******************
>  > weaver(testfile)
> Error in weaver(testfile) : unused argument(s) ("/Library/Frameworks/ 
> R.framework/Resources/library/utils/Sweave/Sweave-test-1.Rnw")

Er, that would not appear to be the intended usage, as per

http://www.bioconductor.org/packages/1.9/bioc/vignettes/weaver/inst/doc/weaver_howTo.pdf#search=%22weaver%20bioconductor%22

-- 
   O__  ---- Peter Dalgaard             Øster Farimagsgade 5, Entr.B
  c/ /'_ --- Dept. of Biostatistics     PO Box 2099, 1014 Cph. K
 (*) \(*) -- University of Copenhagen   Denmark          Ph:  (+45) 35327918
~~~~~~~~~~ - (p.dalgaard at biostat.ku.dk)                  FAX: (+45) 35327907