Package: TxRegInfra

Version: 1.2.1

Command: C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:TxRegInfra.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings TxRegInfra_1.2.1.tar.gz

StartedAt: 2019-04-13 06:07:10 -0400 (Sat, 13 Apr 2019)

EndedAt: 2019-04-13 06:11:40 -0400 (Sat, 13 Apr 2019)

EllapsedTime: 269.9 seconds

RetCode: 0

Status:  OK

CheckDir: TxRegInfra.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:TxRegInfra.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings TxRegInfra_1.2.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.8-bioc/meat/TxRegInfra.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 'TxRegInfra/DESCRIPTION' ... OK
* this is package 'TxRegInfra' version '1.2.1'
* package encoding: UTF-8
* 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 'TxRegInfra' 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 ... OK
* 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
          user system elapsed
txmodels 13.59   2.19    15.8
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
          user system elapsed
txmodels 18.07    1.4   19.48
* 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: OK

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/TxRegInfra_1.2.1.tar.gz && rm -rf TxRegInfra.buildbin-libdir && mkdir TxRegInfra.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=TxRegInfra.buildbin-libdir TxRegInfra_1.2.1.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL TxRegInfra_1.2.1.zip && rm TxRegInfra_1.2.1.tar.gz TxRegInfra_1.2.1.zip
###
##############################################################################
##############################################################################


  % 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 61209  100 61209    0     0  1213k      0 --:--:-- --:--:-- --:--:-- 1328k

install for i386

* installing *source* package 'TxRegInfra' ...
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'TxRegInfra'
    finding HTML links ... done
    RaggedMongoExpt                         html  
    URL_txregInAWS                          html  
    URL_txregLocal                          html  
    basicColData                            html  
    basicFormatter                          html  
    dgf_meta                                html  
    getDocumentFields                       html  
    getFieldNames                           html  
    grConverter                             html  
    importBedToMongo                        html  
    listAllCollections                      html  
    makeAggregator                          html  
    makeColData                             html  
    makeGRConverterList                     html  
    ragged41FP                              html  
    sbov                                    html  
    txmodels                                html  
    txregCollections                        html  
    verifyHasMongoCmd                       html  
    verifyRunningMongodb                    html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'TxRegInfra' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'TxRegInfra' as TxRegInfra_1.2.1.zip
* DONE (TxRegInfra)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library'
package 'TxRegInfra' successfully unpacked and MD5 sums checked
In R CMD INSTALL