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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