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BioC 3.2: CHECK report for RNAinteract on windows1.bioconductor.org

This page was generated on 2015-10-27 17:29:24 -0400 (Tue, 27 Oct 2015).

Package 893/1104HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
RNAinteract 1.18.0
Bernd Fischer
Snapshot Date: 2015-10-26 19:24:07 -0400 (Mon, 26 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/RNAinteract
Last Changed Rev: 109589 / Revision: 109947
Last Changed Date: 2015-10-13 15:36:05 -0400 (Tue, 13 Oct 2015)
linux1.bioconductor.org Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
windows1.bioconductor.org Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK [ OK ] OK UNNEEDED, same version exists in internal repository
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  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: RNAinteract
Version: 1.18.0
Command: rm -rf RNAinteract.buildbin-libdir RNAinteract.Rcheck && mkdir RNAinteract.buildbin-libdir RNAinteract.Rcheck && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=RNAinteract.buildbin-libdir RNAinteract_1.18.0.tar.gz >RNAinteract.Rcheck\00install.out 2>&1 && cp RNAinteract.Rcheck\00install.out RNAinteract-install.out && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=RNAinteract.buildbin-libdir --install="check:RNAinteract-install.out" --force-multiarch --no-vignettes --timings RNAinteract_1.18.0.tar.gz
StartedAt: 2015-10-27 05:09:45 -0400 (Tue, 27 Oct 2015)
EndedAt: 2015-10-27 05:13:03 -0400 (Tue, 27 Oct 2015)
EllapsedTime: 198.2 seconds
RetCode: 0
Status:  OK  
CheckDir: RNAinteract.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf RNAinteract.buildbin-libdir RNAinteract.Rcheck && mkdir RNAinteract.buildbin-libdir RNAinteract.Rcheck && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=RNAinteract.buildbin-libdir RNAinteract_1.18.0.tar.gz >RNAinteract.Rcheck\00install.out 2>&1 && cp RNAinteract.Rcheck\00install.out RNAinteract-install.out  && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=RNAinteract.buildbin-libdir --install="check:RNAinteract-install.out" --force-multiarch --no-vignettes --timings RNAinteract_1.18.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/biocbld/bbs-3.2-bioc/meat/RNAinteract.Rcheck'
* using R version 3.2.2 Patched (2015-08-16 r69094)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'RNAinteract/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'RNAinteract' version '1.18.0'
* 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 'RNAinteract' 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 ... NOTE
Namespace in Imports field not imported from: 'ICS'
  All declared Imports should be used.
Packages in Depends field not imported from:
  'Biobase' 'abind' 'locfit'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
bindscreens: no visible global function definition for 'abind'
createCellHTSFromFiles: no visible binding for global variable
  'assayDataNew'
normalizePlateEffect: no visible global function definition for
  'locfit'
normalizePlateEffect: no visible binding for global variable
  'locfit.robust'
* 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' ... [8s] OK
** running examples for arch 'x64' ... [9s] 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: 2 NOTEs
See
  'C:/biocbld/bbs-3.2-bioc/meat/RNAinteract.Rcheck/00check.log'
for details.


RNAinteract.Rcheck/00install.out:


install for i386

* installing *source* package 'RNAinteract' ...
** 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 'RNAinteract' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'RNAinteract' as RNAinteract_1.18.0.zip
* DONE (RNAinteract)

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

nameusersystemelapsed
RNAinteract-class000
bindsamples0.140.020.15
computePI0.010.000.02
computePValues0.100.030.12
embedPCA0.010.000.02
estimateMainEffect0.810.010.83
getData0.130.000.12
getMain000
getReplicateData0.010.000.01
getSampleNames000
getScale0.020.000.02
grid.sgiHeatmap0.060.000.06
normalizeMainEffectQuery0.050.000.05
normalizeMainEffectTemplate0.040.000.04
normalizePlateEffect0.800.020.82
plotDoublePerturbation0.050.000.04
plotHeatmap0.040.000.05
reportAnnotation0.020.000.02
sgi0.000.010.01
sgisubset0.010.000.02
startReport0.020.000.01
summarizeSamples0.090.000.10

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

nameusersystemelapsed
RNAinteract-class000
bindsamples0.140.000.15
computePI0.010.000.01
computePValues0.150.000.14
embedPCA0.010.000.02
estimateMainEffect1.000.021.02
getData0.110.000.10
getMain0.020.000.02
getReplicateData0.010.000.02
getSampleNames000
getScale000
grid.sgiHeatmap0.080.000.07
normalizeMainEffectQuery0.050.000.05
normalizeMainEffectTemplate0.060.000.06
normalizePlateEffect1.030.031.07
plotDoublePerturbation0.060.000.06
plotHeatmap0.050.000.05
reportAnnotation0.030.000.03
sgi000
sgisubset0.000.010.01
startReport0.020.000.02
summarizeSamples0.110.000.11