Multiple platform build/check report for BioC 3.8 - CHECK report for TSRchitect on tokay1

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### Running command:
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###   C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:TSRchitect.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings TSRchitect_1.8.9.tar.gz
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* using log directory 'C:/Users/biocbuild/bbs-3.8-bioc/meat/TSRchitect.Rcheck'
* using R version 3.5.3 (2019-03-11)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'TSRchitect/DESCRIPTION' ... OK
* this is package 'TSRchitect' version '1.8.9'
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
  cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
 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 'TSRchitect' 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
  inst/LICENSE
will install at top-level and is not mentioned in the DESCRIPTION file.
* checking for left-over files ... OK
* checking index information ... WARNING
Empty or missing file 'demo/00Index'.
See sections 'The INDEX file' and 'Package subdirectories' in the
'Writing R Extensions' manual.
* checking package subdirectories ... WARNING
Subdirectory 'demo' contains no demos.
* 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
                   user system elapsed
loadTSSobj-methods 7.61   0.54    9.06
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
                   user system elapsed
loadTSSobj-methods 7.89   0.14    8.03
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 2 WARNINGs, 1 NOTE
See
  'C:/Users/biocbuild/bbs-3.8-bioc/meat/TSRchitect.Rcheck/00check.log'
for details.

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### Running command:
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###   C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/TSRchitect_1.8.9.tar.gz && rm -rf TSRchitect.buildbin-libdir && mkdir TSRchitect.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=TSRchitect.buildbin-libdir TSRchitect_1.8.9.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL TSRchitect_1.8.9.zip && rm TSRchitect_1.8.9.tar.gz TSRchitect_1.8.9.zip
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  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 2029k  100 2029k    0     0  14.1M      0 --:--:-- --:--:-- --:--:-- 14.4M

install for i386

* installing *source* package 'TSRchitect' ...
** R
** demo
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'TSRchitect'
    finding HTML links ... done
    TSRchitectUsersGuide                    html  
    TSRmshapeIndex                          html  
    TSRshapeIndex                           html  
    addAnnotationToTSR-methods              html  
    finding level-2 HTML links ... done

    addTagCountsToTSR-methods               html  
    bedToTSS-methods                        html  
    cDNAtoBED-methods                       html  
    createSummarizedExperiment-methods      html  
    detTSR-methods                          html  
    determineTSR-methods                    html  
    getBamData-methods                      html  
    getFileNames-methods                    html  
    getTSRdata-methods                      html  
    getTSScountData-methods                 html  
    getTSStagData-methods                   html  
    getTitle-methods                        html  
    importAnnotationExternal-methods        html  
    importAnnotationHub-methods             html  
    inputToTSS-methods                      html  
    loadTSSobj-methods                      html  
    makeGRangesFromTSR-methods              html  
    mergeSampleData-methods                 html  
    prcTSS                                  html  
    processTSS-methods                      html  
    tagCountTSS                             html  
    tsrCluster                              html  
    tssArrayProperties                      html  
    tssObject                               html  
    writeTSR-methods                        html  
** building package indices
** installing vignettes
   'TSRchitect.Rmd' using 'UTF-8' 
   'TSRchitectUsersGuide.Rmd' using 'UTF-8' 
Warning in res[i] <- withCallingHandlers(if (tangle) process_tangle(group) else process_group(group),  :
  number of items to replace is not a multiple of replacement length
Warning in res[i] <- withCallingHandlers(if (tangle) process_tangle(group) else process_group(group),  :
  number of items to replace is not a multiple of replacement length
Warning in res[i] <- withCallingHandlers(if (tangle) process_tangle(group) else process_group(group),  :
  number of items to replace is not a multiple of replacement length
Warning in res[i] <- withCallingHandlers(if (tangle) process_tangle(group) else process_group(group),  :
  number of items to replace is not a multiple of replacement length
Warning in res[i] <- withCallingHandlers(if (tangle) process_tangle(group) else process_group(group),  :
  number of items to replace is not a multiple of replacement length
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'TSRchitect' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'TSRchitect' as TSRchitect_1.8.9.zip
* DONE (TSRchitect)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library'
package 'TSRchitect' successfully unpacked and MD5 sums checked
In R CMD INSTALL

CHECK report for TSRchitect on tokay1

Summary

Command output

Installation output

Tests output

Example timings