I found a package on www.bioconductor.com that allows me to install using
this line:
source("http://bioconductor.org/biocLite.R")
biocLite("MassSpecWavelet")
The prompt showed me the following message:
Running biocinstall version 2.1.10 with R version 2.6.2
Your version of R requires version 2.1 of Bioconductor.
trying URL
'http://bioconductor.org/packages/2.1/bioc/bin/windows/contrib/2.6/MassSpecWavelet_1.4.0.zip'
Content type 'application/zip' length 2129961 bytes (2.0 Mb)
opened URL
downloaded 2.0 Mb
package 'MassSpecWavelet' successfully unpacked and MD5 sums checked
The downloaded packages are in
C:\Documents and Settings\Yuan\Local
Settings\Temp\RtmpIjgEwP\downloaded_packages
updating HTML package descriptions
In their help package, they have listed commands that will allow a sample
runthrough of their algorithm using a sample dataset.
I entered these codes in but was returned the following error messages:
data(exampleMS)
Warning message:
In data(exampleMS) : data set 'exampleMS' not
found> SNR.Th <- 3
> peakInfo <- peakDetectionCWT(exampleMS, SNR.Th=SNR.Th)
Error: could not find function
"peakDetectionCWT"> majorPeakInfo = peakInfo$majorPeakInfo
Error: object "peakInfo" not found> peakIndex <- majorPeakInfo$peakIndex
Error: object "majorPeakInfo" not found> plotPeak(exampleMS, peakIndex, main=paste('Identified peaks with SNR
>',
> SNR.Th))
Did I make a mistake somewhere or is the code they wrote flawed?
--
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library(MassSpecWavelet) On 24/03/2008, Chaser <zhang816 at gmail.com> wrote:> > I found a package on www.bioconductor.com that allows me to install using > this line: > > source("http://bioconductor.org/biocLite.R") > biocLite("MassSpecWavelet") > > The prompt showed me the following message: > > Running biocinstall version 2.1.10 with R version 2.6.2 > Your version of R requires version 2.1 of Bioconductor. > trying URL > 'http://bioconductor.org/packages/2.1/bioc/bin/windows/contrib/2.6/MassSpecWavelet_1.4.0.zip' > Content type 'application/zip' length 2129961 bytes (2.0 Mb) > opened URL > downloaded 2.0 Mb > > package 'MassSpecWavelet' successfully unpacked and MD5 sums checked > > The downloaded packages are in > C:\Documents and Settings\Yuan\Local > Settings\Temp\RtmpIjgEwP\downloaded_packages > updating HTML package descriptions > > In their help package, they have listed commands that will allow a sample > runthrough of their algorithm using a sample dataset. > > I entered these codes in but was returned the following error messages: > > data(exampleMS) > Warning message: > In data(exampleMS) : data set 'exampleMS' not found > > SNR.Th <- 3 > > peakInfo <- peakDetectionCWT(exampleMS, SNR.Th=SNR.Th) > Error: could not find function "peakDetectionCWT" > > majorPeakInfo = peakInfo$majorPeakInfo > Error: object "peakInfo" not found > > peakIndex <- majorPeakInfo$peakIndex > Error: object "majorPeakInfo" not found > > plotPeak(exampleMS, peakIndex, main=paste('Identified peaks with SNR >', > > SNR.Th)) > > > Did I make a mistake somewhere or is the code they wrote flawed? > > -- > View this message in context: http://www.nabble.com/Simple-problem-in-R-tp16259116p16259116.html > Sent from the R help mailing list archive at Nabble.com. > > ______________________________________________ > R-help at r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code. >-- Henrique Dallazuanna Curitiba-Paran?-Brasil 25? 25' 40" S 49? 16' 22" O
On Mon, 24 Mar 2008, Chaser wrote:> > I found a package on www.bioconductor.com that allows me to install using > this line: > > source("http://bioconductor.org/biocLite.R") > biocLite("MassSpecWavelet") > > The prompt showed me the following message: > > Running biocinstall version 2.1.10 with R version 2.6.2 > Your version of R requires version 2.1 of Bioconductor. > trying URL > 'http://bioconductor.org/packages/2.1/bioc/bin/windows/contrib/2.6/MassSpecWavelet_1.4.0.zip' > Content type 'application/zip' length 2129961 bytes (2.0 Mb) > opened URL > downloaded 2.0 Mb > > package 'MassSpecWavelet' successfully unpacked and MD5 sums checked > > The downloaded packages are in > C:\Documents and Settings\Yuan\Local > Settings\Temp\RtmpIjgEwP\downloaded_packages > updating HTML package descriptions > > In their help package, they have listed commands that will allow a sample > runthrough of their algorithm using a sample dataset. > > I entered these codes in but was returned the following error messages: > > data(exampleMS) > Warning message: > In data(exampleMS) : data set 'exampleMS' not found >> SNR.Th <- 3 >> peakInfo <- peakDetectionCWT(exampleMS, SNR.Th=SNR.Th) > Error: could not find function "peakDetectionCWT" >> majorPeakInfo = peakInfo$majorPeakInfo > Error: object "peakInfo" not found >> peakIndex <- majorPeakInfo$peakIndex > Error: object "majorPeakInfo" not found >> plotPeak(exampleMS, peakIndex, main=paste('Identified peaks with SNR >', >> SNR.Th)) > > > Did I make a mistake somewhere or is the code they wrote flawed? >Did you remember library( MassSpecWavelet ) ?? HTH, Chuck> -- > View this message in context: http://www.nabble.com/Simple-problem-in-R-tp16259116p16259116.html > Sent from the R help mailing list archive at Nabble.com. > > ______________________________________________ > R-help at r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code. >Charles C. Berry (858) 534-2098 Dept of Family/Preventive Medicine E mailto:cberry at tajo.ucsd.edu UC San Diego http://famprevmed.ucsd.edu/faculty/cberry/ La Jolla, San Diego 92093-0901