[Bioc-devel] Need help

Laurent Gatto lg390 at cam.ac.uk
Fri Oct 14 23:41:01 CEST 2016

Dear Arvind,

This question would have been more appropriate on the support site,
rather than the developer mailing list.

The output of sessionInfo() would have been useful too, so what comes is
speculation based on the BiocUpgrade message.

I assume you are using Windows, otherwise your mzR installation would
have been compiled from source against your installed Rcpp version. We
won't be able to rebuild mzR agains the latest Rcpp because the current
devel version is now frozen prior to the imminent release. I don't think
we want (or can) update the previous version, if that's what you are

I have 3 suggestions

1) What you see is not an error, just a warning, so just ignore it for
   now and carry on.

2) Build mzR from source with biocLite("mzR", type="source"), which will
   require a fully functional build environment (you'll need to install

3) Once the new vesion of Bioconductor is released (next week on
   Tuesday, I believe), install the lastest R (3.3.1) and update all
   packages. Recommended irrespective of the mzR warning above.

Best wishes,


On 14 October 2016 21:19, Arvind Korwar wrote:

> Dear All,
> I am coming across following error.
> Warning message:In fun(libname, pkgname) :
>   mzR has been built against a different Rcpp version (0.12.6)
> than is installed on your system (0.12.7). This might lead to errors
> when loading mzR. If you encounter such issues, please send a report,
> including the output of sessionInfo() to the Bioc support forum at
> https://support.bioconductor.org/. For details see
> alsohttps://github.com/sneumann/mzR/wiki/mzR-Rcpp-compiler-linker-issue.
> I followed as suggested
> https://github.com/sneumann/mzR/wiki/mzR-Rcpp-compiler-linker-issue
> 1) Update mzR
> library("BiocInstaller")biocLite("mzR")
> 2) Upgrade your Bioconductor installation
> library("BiocInstaller")biocLite("BiocUpgrade")
>> library("BiocInstaller")> biocLite("BiocUpgrade")Error: Bioconductor version 3.3 can be upgraded, but only to 'devel'; see ?useDevel. Use biocLite()
>   without any arguments to update installed packages
> Please suggest me how to fix this problem.
> Thanks for your help.
> Arvind...
> 	[[alternative HTML version deleted]]
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Laurent Gatto | @lgatt0

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