[BioC] XCMS / mzR / Rcpp dependency issue

[Laurent Gatto]

Dear Uwe,

Something is happening with mzR and Rcpp 0.9.12 on Windows - see [1] and [2].
As a temporary fix, you can downgrade to Rcpp 0.9.10 [3] and proceed normally.

Best wishes,

Laurent

[1] http://lists.r-forge.r-project.org/pipermail/rcpp-devel/2012-June/thread.html#3940
[2] https://stat.ethz.ch/pipermail/bioconductor/2012-June/thread.html#46503
[3] http://cran.us.r-project.org/bin/windows/contrib/2.13/Rcpp_0.9.10.zip


On 28 June 2012 10:47, Uwe Schmitt <uschmitt at mineway.de> wrote:
> Hi,
>
> I have some problems to install xcms for R 2.5.1 on Windows 7, 64 bit.
> I follow the installation instructions and enter:
>
>> source("http://bioconductor.org/biocLite.R")
>> biocLite("xcms", dep=T)
>
> this loads some packages and gives me a warning:
> installed directory not writable, cannot update packages 'boot', 'class',
> 'KernSmooth', 'MASS', 'nnet', 'rpart', 'spatial'
>
> If I want to check if xmcs is installed I get:
>
>> require("xcms")
>
> Lade nötiges Paket: xcms
> Lade nötiges Paket: mzR
> Lade nötiges Paket: Rcpp
> Error : .onLoad failed in loadNamespace() for 'mzR', details:
> call: value[[3L]](cond)
> error: failed to load module Ramp from package mzR
> konnte Funktion "errorOccured" nicht finden
> Failed with error: ‘Paket ‘mzR’ konnte nicht geladen werden’
>
> I try to translate the messages to english:
>
> load required packet: xcms
> load required packet: mzR
> load required packet: Rcpp
> Error : .onLoad failed in loadNamespace() for 'mzR', details:
> call: value[[3L]](cond)
> error: failed to load module Ramp from package mzR
> could not find function "errorOccured"
> Failed with error: ‘Paket ‘mzR’ could not be loaded'
>
> Any hints what is going wrong ? I installed xcms on an older machine six
> months ago and I had no problems at all.
>
> Kind Regards,
>
> Uwe
>
>
> --
> Dr. rer. nat. Uwe Schmitt
> Leitung F/E Mathematik
>
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>
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>
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