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BioC 3.4: CHECK report for BatchQC on tokay1

This page was generated on 2017-04-15 16:21:01 -0400 (Sat, 15 Apr 2017).

Package 86/1296HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
BatchQC 1.2.1
Solaiappan Manimaran
Snapshot Date: 2017-04-14 17:17:13 -0400 (Fri, 14 Apr 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_4/madman/Rpacks/BatchQC
Last Changed Rev: 124428 / Revision: 128728
Last Changed Date: 2016-11-23 23:11:06 -0500 (Wed, 23 Nov 2016)
malbec1 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64  OK  OK [ OK ] OK UNNEEDED, same version exists in internal repository
morelia Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: BatchQC
Version: 1.2.1
Command: rm -rf BatchQC.buildbin-libdir BatchQC.Rcheck && mkdir BatchQC.buildbin-libdir BatchQC.Rcheck && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=BatchQC.buildbin-libdir BatchQC_1.2.1.tar.gz >BatchQC.Rcheck\00install.out 2>&1 && cp BatchQC.Rcheck\00install.out BatchQC-install.out && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD check --library=BatchQC.buildbin-libdir --install="check:BatchQC-install.out" --force-multiarch --no-vignettes --timings BatchQC_1.2.1.tar.gz
StartedAt: 2017-04-14 21:05:02 -0400 (Fri, 14 Apr 2017)
EndedAt: 2017-04-14 21:08:18 -0400 (Fri, 14 Apr 2017)
EllapsedTime: 196.6 seconds
RetCode: 0
Status:  OK  
CheckDir: BatchQC.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf BatchQC.buildbin-libdir BatchQC.Rcheck && mkdir BatchQC.buildbin-libdir BatchQC.Rcheck && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=BatchQC.buildbin-libdir BatchQC_1.2.1.tar.gz >BatchQC.Rcheck\00install.out 2>&1 && cp BatchQC.Rcheck\00install.out BatchQC-install.out  && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD check --library=BatchQC.buildbin-libdir --install="check:BatchQC-install.out" --force-multiarch --no-vignettes --timings BatchQC_1.2.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.4-bioc/meat/BatchQC.Rcheck'
* using R version 3.3.3 (2017-03-06)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'BatchQC/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'BatchQC' version '1.2.1'
* 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 'BatchQC' 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'testthat.R'
 OK
** running tests for arch 'x64' ...
  Running 'testthat.R'
 OK
* 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

BatchQC.Rcheck/00install.out:


install for i386

* installing *source* package 'BatchQC' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'BatchQC' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'BatchQC' as BatchQC_1.2.1.zip
* DONE (BatchQC)

BatchQC.Rcheck/examples_i386/BatchQC-Ex.timings:

nameusersystemelapsed
batchQC1.740.443.10
batchQC_analyze0.180.020.20
batchQC_condition_adjusted0.050.000.05
batchQC_filter_genes0.050.000.05
batchQC_fsva_adjusted0.170.010.18
batchQC_num.sv0.090.000.10
batchQC_shapeVariation0.080.000.07
batchQC_sva0.170.000.18
batchQC_svregress_adjusted0.180.000.17
batchqc_circosplot0.090.000.09
batchqc_correlation0.160.000.16
batchqc_corscatter0.040.020.06
batchqc_explained_variation0.030.000.03
batchqc_heatmap0.140.000.14
batchqc_pc_explained_variation0.050.000.05
batchqc_pca0.050.000.05
batchqc_pca_svd0.150.000.15
batchtest0.070.000.07
combatPlot0.060.000.06
getShinyInput0.050.030.08
getShinyInputCombat000
getShinyInputOrig0.040.010.06
getShinyInputSVA000
getShinyInputSVAf000
getShinyInputSVAr000
gnormalize000
log2CPM0.050.000.05
rnaseq_sim0.180.040.22
setShinyInput000
setShinyInputCombat000
setShinyInputOrig000
setShinyInputSVA000
setShinyInputSVAf000
setShinyInputSVAr000

BatchQC.Rcheck/examples_x64/BatchQC-Ex.timings:

nameusersystemelapsed
batchQC2.760.383.64
batchQC_analyze0.390.010.41
batchQC_condition_adjusted0.080.000.08
batchQC_filter_genes0.080.000.08
batchQC_fsva_adjusted0.270.000.27
batchQC_num.sv0.150.000.16
batchQC_shapeVariation0.160.000.15
batchQC_sva0.230.000.24
batchQC_svregress_adjusted0.250.020.27
batchqc_circosplot0.20.00.2
batchqc_correlation0.330.000.33
batchqc_corscatter0.080.000.08
batchqc_explained_variation0.030.000.03
batchqc_heatmap0.20.00.2
batchqc_pc_explained_variation0.050.000.04
batchqc_pca0.030.010.05
batchqc_pca_svd0.220.000.22
batchtest0.060.020.08
combatPlot0.060.000.06
getShinyInput0.050.020.06
getShinyInputCombat000
getShinyInputOrig0.040.010.07
getShinyInputSVA000
getShinyInputSVAf000
getShinyInputSVAr000
gnormalize000
log2CPM0.070.020.07
rnaseq_sim0.240.040.28
setShinyInput000
setShinyInputCombat000
setShinyInputOrig0.010.000.02
setShinyInputSVA000
setShinyInputSVAf000
setShinyInputSVAr000