Cannot install package "mzR"
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cheng68 • 0
@cheng68-9862
Last seen 5.4 years ago

Hi Everyone,

 

I have not been able to install the package "mzR", which is one of the dependencies I need, recently on R (3.2.3) and Bioconductor (3.2). It seems that it has something to do with the conflict with the other package "Rcpp". The issue only occurs when I run R under windows 7, no issues under Linux.

> biocLite("mzR")
BioC_mirror: https://bioconductor.org
Using Bioconductor 3.2 (BiocInstaller 1.20.1), R 3.2.3 (2015-12-10).
Installing package(s) ‘mzR’
Warning: dependencies ‘methods’, ‘utils’, ‘graphics’, ‘stats’, ‘parallel’ are not available
also installing the dependencies ‘Rcpp’, ‘Biobase’, ‘BiocGenerics’, ‘ProtGenerics’, ‘zlibbioc’

trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.2/Rcpp_0.12.3.zip'
Content type 'application/zip' length 3197833 bytes (3.0 MB)
downloaded 3.0 MB

trying URL 'https://bioconductor.org/packages/3.2/bioc/bin/windows/contrib/3.2/Biobase_2.30.0.zip'
Content type 'application/zip' length 4227858 bytes (4.0 MB)
downloaded 4.0 MB

trying URL 'https://bioconductor.org/packages/3.2/bioc/bin/windows/contrib/3.2/BiocGenerics_0.16.1.zip'
Content type 'application/zip' length 962958 bytes (940 KB)
downloaded 940 KB

trying URL 'https://bioconductor.org/packages/3.2/bioc/bin/windows/contrib/3.2/ProtGenerics_1.2.1.zip'
Content type 'application/zip' length 62396 bytes (60 KB)
downloaded 60 KB

trying URL 'https://bioconductor.org/packages/3.2/bioc/bin/windows/contrib/3.2/zlibbioc_1.16.0.zip'
Content type 'application/zip' length 693613 bytes (677 KB)
downloaded 677 KB

trying URL 'https://bioconductor.org/packages/3.2/bioc/bin/windows/contrib/3.2/mzR_2.4.1.zip'
Content type 'application/zip' length 8395399 bytes (8.0 MB)
downloaded 8.0 MB

package ‘Rcpp’ successfully unpacked and MD5 sums checked
package ‘Biobase’ successfully unpacked and MD5 sums checked
package ‘BiocGenerics’ successfully unpacked and MD5 sums checked
package ‘ProtGenerics’ successfully unpacked and MD5 sums checked
package ‘zlibbioc’ successfully unpacked and MD5 sums checked
package ‘mzR’ successfully unpacked and MD5 sums checked

The downloaded binary packages are in
        C:\Users\cheng68\AppData\Local\Temp\RtmpoBBgx2\downloaded_packages


> library(mzR)
Loading required package: Rcpp
Error : .onLoad failed in loadNamespace() for 'mzR', details:
  call: description[["RcppModules"]]
  error: subscript out of bounds
In addition: Warning message:
In packageDescription(pkg, lib.loc = lib) : no package 'mzR' was found
Error: package or namespace load failed for ‘mzR’


> sessionInfo()
R version 3.2.3 (2015-12-10)
Platform: x86_64-w64-mingw32/x64 (64-bit)

locale:
[1] LC_COLLATE=English_United States.1252  LC_CTYPE=English_United States.1252   
[3] LC_MONETARY=English_United States.1252 LC_NUMERIC=C                          
[5] LC_TIME=English_United States.1252    

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] Rcpp_0.12.3          BiocInstaller_1.20.1

loaded via a namespace (and not attached):
[1] ProtGenerics_1.2.1  parallel_3.2.3      tools_3.2.3         Biobase_2.30.0      BiocGenerics_0.16.1

 

Any suggestions?

 

 

Many thanks in advance,

Mike C.

mzR Rcpp • 1.2k views
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