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BioC 3.4: CHECK report for erccdashboard on tokay1

This page was generated on 2017-04-15 16:19:02 -0400 (Sat, 15 Apr 2017).

Package 389/1296HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
erccdashboard 1.8.0
Sarah Munro
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/erccdashboard
Last Changed Rev: 122710 / Revision: 128728
Last Changed Date: 2016-10-17 14:45:06 -0400 (Mon, 17 Oct 2016)
malbec1 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64  NotNeeded  OK [ OK ] OK UNNEEDED, same version exists in internal repository
morelia Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: erccdashboard
Version: 1.8.0
Command: rm -rf erccdashboard.buildbin-libdir erccdashboard.Rcheck && mkdir erccdashboard.buildbin-libdir erccdashboard.Rcheck && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=erccdashboard.buildbin-libdir erccdashboard_1.8.0.tar.gz >erccdashboard.Rcheck\00install.out 2>&1 && cp erccdashboard.Rcheck\00install.out erccdashboard-install.out && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD check --library=erccdashboard.buildbin-libdir --install="check:erccdashboard-install.out" --force-multiarch --no-vignettes --timings erccdashboard_1.8.0.tar.gz
StartedAt: 2017-04-14 22:11:55 -0400 (Fri, 14 Apr 2017)
EndedAt: 2017-04-14 22:14:36 -0400 (Fri, 14 Apr 2017)
EllapsedTime: 161.1 seconds
RetCode: 0
Status:  OK  
CheckDir: erccdashboard.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf erccdashboard.buildbin-libdir erccdashboard.Rcheck && mkdir erccdashboard.buildbin-libdir erccdashboard.Rcheck && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=erccdashboard.buildbin-libdir erccdashboard_1.8.0.tar.gz >erccdashboard.Rcheck\00install.out 2>&1 && cp erccdashboard.Rcheck\00install.out erccdashboard-install.out  && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD check --library=erccdashboard.buildbin-libdir --install="check:erccdashboard-install.out" --force-multiarch --no-vignettes --timings erccdashboard_1.8.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.4-bioc/meat/erccdashboard.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 'erccdashboard/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'erccdashboard' version '1.8.0'
* 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 'erccdashboard' 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
** checking loading without being on the library search path ... 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 loading without being on the library search path ... 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 ... NOTE
dynRangePlot: no visible binding for global variable 'value'
dynRangePlot: no visible binding for global variable 'Rep'
Undefined global functions or variables:
  Rep value
* 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
Examples with CPU or elapsed time > 5s
        user system elapsed
estLODR 7.78      0    7.78
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
         user system elapsed
estLODR 10.52   0.01   10.53
* 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: 1 NOTE
See
  'C:/Users/biocbuild/bbs-3.4-bioc/meat/erccdashboard.Rcheck/00check.log'
for details.


erccdashboard.Rcheck/00install.out:


install for i386

* installing *source* package 'erccdashboard' ...
** R
** data
*** moving datasets to lazyload DB
** 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 'erccdashboard' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'erccdashboard' as erccdashboard_1.8.0.zip
* DONE (erccdashboard)

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

nameusersystemelapsed
ERCC000
SEQC.Example000
annotLODR2.220.072.30
dynRangePlot1.090.001.09
erccROC2.190.012.21
estLODR7.780.007.78
est_r_m0.890.000.89
geneExprTest0.970.020.98
initDat0.160.000.16
maSignal2.730.002.73
runDashboard000
saveERCCPlots000

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

nameusersystemelapsed
ERCC0.000.020.02
SEQC.Example000
annotLODR2.090.092.18
dynRangePlot1.970.021.99
erccROC1.690.031.72
estLODR10.52 0.0110.53
est_r_m1.000.021.01
geneExprTest1.060.001.07
initDat0.150.000.15
maSignal4.040.014.05
runDashboard000
saveERCCPlots000