Steve, Dan,

Thank you guys for your comments. Unfortunately, the problem started when
we installed R 3.0.1 version-metaXCMS package is build under lower version
and does not work at all (our fault, we should have checked that before
updating R). So we went back to R (2.15.3) version and to our surprise we
got this error after opening the new session. Now, even more packages are
not functional and there is no use of the software on this computer at the
moment.
Should we try to install Rcpp 0.10.4, or it works only with 3.0 version? We
tried Rcpp 0.9.10 but got error....

All best, Monika

On Wed, Jul 31, 2013 at 6:34 PM, Dan Tenenbaum <dtenenba@fhcrc.org> wrote:

> On Wed, Jul 31, 2013 at 4:39 PM, Steve Lianoglou
> <lianoglou.steve@gene.com> wrote:
> > Hi,
> >
> > On Wed, Jul 31, 2013 at 4:28 PM, Monika Lukaszewska [guest]
> > <guest@bioconductor.org> wrote:
> >>
> >> To whom it may concern:
> >> Here I get this error when I open new R session:
> >>
> >> "During startup - Warning messages:
> >> 1: In fun(libname, pkgname) :
> >>    mzR has been built against a different Rcpp version
> >>  than is installed on your system. 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
> >>  mailing list -- http://www.bioconductor.org/help/mailing-list.
> >> 2: Class "C++Object" is defined (with package slot ‘Rcpp’) but no
> metadata object found to revise subclass information---not exported?
>  Making a copy in package ‘.GlobalEnv’"
> >>
> >> I have installed xcms and metaXCMS packages but I encounter several
> errors when I try to run metaXCMS.
> >>
> >> I installed/uninstall R several times. IS there a way of fixing
> mzR/Rcpp problem?
> >
> > You're installing an old(er) version of R (2.15.3), please install the
> > latest version of R (3.0.1) and then reinstall your packages using
> > biocLite.
> >
> > There was some chatter about mzR and Rcpp inconsistencies some time
> > ago, which maybe what is biting you now, and I believe has since been
> > resolved. The upgrade to R 3.0.1 will likely be all you need.
> >
> > You'll also get the added bonus of using the latest and greatest (and
> > supported) versions of the Bionconductor packages you will be using
> > for your analysis.
> >
>
> And when you're done with all that, make sure you have Rcpp 0.10.4
> installed.
>
>
>
> > HTH,
> > -steve
> >
> > --
> > Steve Lianoglou
> > Computational Biologist
> > Bioinformatics and Computational Biology
> > Genentech
> >
> > _______________________________________________
> > Bioconductor mailing list
> > Bioconductor@r-project.org
> > https://stat.ethz.ch/mailman/listinfo/bioconductor
> > Search the archives:
> http://news.gmane.org/gmane.science.biology.informatics.conductor
>



-- 
Monika Lukaszewska

Postdoctoral Fellow
Chemistry & Biochemistry Department
Montana State University
Bozeman MT, 59717
lab: (406) 994 5418
tokminalukas@chemistry.montana.edu

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