Hi Gao,
Did you change the R-related paths in your startMZmine script? Please send us
the script together with your problem report.
Best regards,
Tomas
On Oct 28, 2014, at 15:22, GY <gzql...@163.com> wrote:
>
>
> Hi,
>
> I'm using mzmine for data processing and when i'm trying to use the
> wavelets(XCMS) algorithm, the software shows " Couldn't start R. Please check
> if R is installed and path to the libraries is set properly in the
> startMZmine script. can you give me some suggestion on this?
>
> please find related information below.
>
> The version of R installed is R-3.1.1 and it is installed under C:/Program
> Files. I’m running the 64-bits version of R.
>
> Please refer to the script below
>
>
>
>
>
> R version 3.1.1 (2014-07-10) -- "Sock it to Me"
>
> Copyright (C) 2014 The R Foundation for Statistical Computing
>
> Platform: x86_64-w64-mingw32/x64 (64-bit)
>
>
>
> R is free software and comes with ABSOLUTELY NO WARRANTY.
>
> You are welcome to redistribute it under certain conditions.
>
> Type 'license()' or 'licence()' for distribution details.
>
>
>
> Natural language support but running in an English locale
>
>
>
> R is a collaborative project with many contributors.
>
> Type 'contributors()' for more information and
>
> 'citation()' on how to cite R or R packages in publications.
>
>
>
> Type 'demo()' for some demos, 'help()' for on-line help, or
>
> 'help.start()' for an HTML browser interface to help.
>
> Type 'q()' to quit R.
>
>
>
> > .libPaths()
>
> [1] "C:/Users/a0068387/Documents/R/win-library/3.1"
>
> [2] "C:/Program Files/R/R-3.1.1/library"
>
> > packageDescription("xcms")
>
> Package: xcms
>
> Version: 1.42.0
>
> Date: 2014-10-11
>
> Title: LC/MS and GC/MS Data Analysis
>
> Author: Colin A. Smith <csm...@scripps.edu>, Ralf Tautenhahn
>
> <rtaut...@gmail.com>, Steffen Neumann <sneum...@ipb-halle.de>,
>
> Paul Benton <hpben...@scripps.edu>, Christopher Conley
>
> <cjcon...@ucdavis.edu>
>
> Maintainer: Ralf Tautenhahn <rtaut...@gmail.com>
>
> Depends: R (>= 2.14.0), methods, mzR (>= 1.1.6), BiocGenerics, Biobase
>
> Suggests: faahKO, msdata, ncdf, multtest, rgl, MassSpecWavelet (>=
>
> 1.5.2), RANN, RUnit
>
> Enhances: Rgraphviz, Rmpi, XML
>
> Description: Framework for processing and visualization of
>
> chromatographically separated and single-spectra mass spectral
>
> data. Imports from AIA/ANDI NetCDF, mzXML, mzData and mzML
>
> files. Preprocesses data for high-throughput, untargeted
>
> analyte profiling.
>
> License: GPL (>= 2) + file LICENSE
>
> URL: http://metlin.scripps.edu/download/ and
>
> https://github.com/sneumann/xcms
>
> BugReports: https://github.com/sneumann/xcms/issues/new
>
> biocViews: MassSpectrometry, Metabolomics
>
> Packaged: 2014-10-14 02:08:49 UTC; biocbuild
>
> Built: R 3.1.1; i386-w64-mingw32; 2014-10-14 14:24:49 UTC; windows
>
>
>
> -- File: C:/Users/a0068387/Documents/R/win-library/3.1/xcms/Meta/package.rds
>
> > package
>
>
> Thanks a lot.
>
> Gao Yan
>
>
>
>
>
>
> ------------------------------------------------------------------------------
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> Mzmine-devel mailing list
> Mzmine-devel@lists.sourceforge.net
> https://lists.sourceforge.net/lists/listinfo/mzmine-devel
===============================================
Tomas Pluskal
G0 Cell Unit, Okinawa Institute of Science and Technology Graduate University
1919-1 Tancha, Onna-son, Okinawa 904-0495, Japan
WWW: https://groups.oist.jp/g0
TEL: +81-98-966-8684
Fax: +81-98-966-2890
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