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BioC 3.3: CHECK report for CountClust on moscato2

This page was generated on 2016-10-13 12:55:04 -0700 (Thu, 13 Oct 2016).

Package 252/1210HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
CountClust 1.0.2
Kushal Dey
Snapshot Date: 2016-10-12 17:20:15 -0700 (Wed, 12 Oct 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_3/madman/Rpacks/CountClust
Last Changed Rev: 117513 / Revision: 122332
Last Changed Date: 2016-05-15 13:18:19 -0700 (Sun, 15 May 2016)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK [ OK ] OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: CountClust
Version: 1.0.2
Command: rm -rf CountClust.buildbin-libdir CountClust.Rcheck && mkdir CountClust.buildbin-libdir CountClust.Rcheck && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=CountClust.buildbin-libdir CountClust_1.0.2.tar.gz >CountClust.Rcheck\00install.out 2>&1 && cp CountClust.Rcheck\00install.out CountClust-install.out && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=CountClust.buildbin-libdir --install="check:CountClust-install.out" --force-multiarch --no-vignettes --timings CountClust_1.0.2.tar.gz
StartedAt: 2016-10-13 02:39:03 -0700 (Thu, 13 Oct 2016)
EndedAt: 2016-10-13 02:42:19 -0700 (Thu, 13 Oct 2016)
EllapsedTime: 195.7 seconds
RetCode: 0
Status:  OK  
CheckDir: CountClust.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf CountClust.buildbin-libdir CountClust.Rcheck && mkdir CountClust.buildbin-libdir CountClust.Rcheck && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=CountClust.buildbin-libdir CountClust_1.0.2.tar.gz >CountClust.Rcheck\00install.out 2>&1 && cp CountClust.Rcheck\00install.out CountClust-install.out  && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=CountClust.buildbin-libdir --install="check:CountClust-install.out" --force-multiarch --no-vignettes --timings CountClust_1.0.2.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'E:/biocbld/bbs-3.3-bioc/meat/CountClust.Rcheck'
* using R version 3.3.1 (2016-06-21)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'CountClust/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'CountClust' version '1.0.2'
* 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 'CountClust' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 17.9Mb
  sub-directories of 1Mb or more:
    data  17.5Mb
* 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 ... 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
Examples with CPU or elapsed time > 5s
                   user system elapsed
ExtractTopFeatures 5.11   0.05    5.15
* 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
  'E:/biocbld/bbs-3.3-bioc/meat/CountClust.Rcheck/00check.log'
for details.


CountClust.Rcheck/00install.out:


install for i386

* installing *source* package 'CountClust' ...
** 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 'CountClust' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'CountClust' as CountClust_1.0.2.zip
* DONE (CountClust)

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

nameusersystemelapsed
BatchCorrectedCounts1.220.001.22
ExtractTopFeatures3.640.033.67
FitGoM1.040.021.06
RemoveSparseFeatures000
StructureGGplot1.440.101.54
Structure_omega000
cg_topics0.450.040.49
compare_omega0.020.000.01
handleNA000
nullmodel_GoM2.950.203.15

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

nameusersystemelapsed
BatchCorrectedCounts1.270.031.31
ExtractTopFeatures5.110.055.15
FitGoM0.740.040.79
RemoveSparseFeatures0.020.000.02
StructureGGplot1.620.071.68
Structure_omega000
cg_topics0.440.040.49
compare_omega0.020.000.01
handleNA000
nullmodel_GoM3.380.163.54