Package: oneSENSE

Version: 1.2.0

Command: C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:oneSENSE.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings oneSENSE_1.2.0.tar.gz

StartedAt: 2018-10-17 03:45:32 -0400 (Wed, 17 Oct 2018)

EndedAt: 2018-10-17 03:47:53 -0400 (Wed, 17 Oct 2018)

EllapsedTime: 140.9 seconds

RetCode: 1

Status:  ERROR

CheckDir: oneSENSE.Rcheck

Warnings: NA

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### Running command:
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###   C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:oneSENSE.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings oneSENSE_1.2.0.tar.gz
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* using log directory 'C:/Users/biocbuild/bbs-3.7-bioc/meat/oneSENSE.Rcheck'
* using R version 3.5.1 Patched (2018-07-24 r75005)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'oneSENSE/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'oneSENSE' version '1.2.0'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'oneSENSE' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... NOTE
File
  LICENSE
is not mentioned in the DESCRIPTION file.
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* loading checks for arch 'i386'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
* loading checks for arch 'x64'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... ERROR
Running examples in 'oneSENSE-Ex.R' failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: OneSmapperFreq2
> ### Title: Frequency Heatplot Generation Part 2
> ### Aliases: OneSmapperFreq2
> 
> ### ** Examples
> 
> 
> dir2 <-system.file('extdata/fcs_Out',package='oneSENSE')
> file5 <- system.file('extdata/myFFdatas.rds', package = 'oneSENSE')
> FFdata1 <- readRDS(file5)
> OneSmapperFreq2(dir2, 250, FFdata1) #remove hash symbol to run
No scatter mode specifed:
  Setting the mode to markers
  Read more about this attribute -> https://plot.ly/r/reference/#scatter-mode
Warning: 'export' is deprecated.
Use 'orca' instead.
See help("Deprecated")
Error in shell.exec(url) : 
  file association for 'C:/Users/biocbuild/bbs-3.7-bioc/R/library/oneSENSE/extdata/grouptwo.png' not available or invalid
Calls: OneSmapperFreq2 -> browseURL -> shell.exec
Execution halted
** running examples for arch 'x64' ... ERROR
Running examples in 'oneSENSE-Ex.R' failed
Warning in file(con, "r") :
  cannot open file '../oneSENSE-Ex_x64.Rout': Permission denied
Error in file(con, "r") : cannot open the connection
Execution halted

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/oneSENSE_1.2.0.tar.gz && rm -rf oneSENSE.buildbin-libdir && mkdir oneSENSE.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=oneSENSE.buildbin-libdir oneSENSE_1.2.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL oneSENSE_1.2.0.zip && rm oneSENSE_1.2.0.tar.gz oneSENSE_1.2.0.zip
###
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install for i386

* installing *source* package 'oneSENSE' ...
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'oneSENSE'
    finding HTML links ... done
    FCStSNE                                 html  
    OneSmapperFlour                         html  
    OneSmapperFreq1                         html  
    OneSmapperFreq2                         html  
    getCoords                               html  
    getParameters                           html  
    oneSENSE_GUI                            html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'oneSENSE' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'oneSENSE' as oneSENSE_1.2.0.zip
* DONE (oneSENSE)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'oneSENSE' successfully unpacked and MD5 sums checked
In R CMD INSTALL