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BioC 3.0: CHECK report for ibh on moscato1

This page was generated on 2015-04-10 09:46:59 -0700 (Fri, 10 Apr 2015).

Package 442/933HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ibh 1.14.0
Kircicegi Korkmaz
Snapshot Date: 2015-04-09 16:20:12 -0700 (Thu, 09 Apr 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/ibh
Last Changed Rev: 95439 / Revision: 102249
Last Changed Date: 2014-10-13 14:38:33 -0700 (Mon, 13 Oct 2014)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  NotNeeded  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK [ OK ] OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK  OK 
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK 

Summary

Package: ibh
Version: 1.14.0
Command: rm -rf ibh.buildbin-libdir ibh.Rcheck && mkdir ibh.buildbin-libdir ibh.Rcheck && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ibh.buildbin-libdir ibh_1.14.0.tar.gz >ibh.Rcheck\00install.out 2>&1 && cp ibh.Rcheck\00install.out ibh-install.out && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD check --library=ibh.buildbin-libdir --install="check:ibh-install.out" --force-multiarch --no-vignettes --timings ibh_1.14.0.tar.gz
StartedAt: 2015-04-10 02:17:38 -0700 (Fri, 10 Apr 2015)
EndedAt: 2015-04-10 02:18:13 -0700 (Fri, 10 Apr 2015)
EllapsedTime: 34.5 seconds
RetCode: 0
Status:  OK  
CheckDir: ibh.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf ibh.buildbin-libdir ibh.Rcheck && mkdir ibh.buildbin-libdir ibh.Rcheck && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ibh.buildbin-libdir ibh_1.14.0.tar.gz >ibh.Rcheck\00install.out 2>&1 && cp ibh.Rcheck\00install.out ibh-install.out  && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD check --library=ibh.buildbin-libdir --install="check:ibh-install.out" --force-multiarch --no-vignettes --timings ibh_1.14.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbld/bbs-3.0-bioc/meat/ibh.Rcheck'
* using R version 3.1.3 (2015-03-09)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'ibh/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'ibh' version '1.14.0'
* 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 'ibh' 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 ... NOTE
Package in Depends field not imported from: 'simpIntLists'
  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
ibhBioGRID: no visible global function definition for
  'findInteractionList'
ibhForMultipleGeneListsBioGRID: no visible global function definition
  for 'findInteractionList'
* 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... [6s] OK
** running examples for arch 'x64' ... [4s] 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

NOTE: There were 2 notes.
See
  'D:/biocbld/bbs-3.0-bioc/meat/ibh.Rcheck/00check.log'
for details.

ibh.Rcheck/00install.out:


install for i386

* installing *source* package 'ibh' ...
** R
** 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 'ibh' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'ibh' as ibh_1.14.0.zip
* DONE (ibh)

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

nameusersystemelapsed
findEntry0.030.000.08
ibh-package1.790.073.37
ibh000
ibhBioGRID0.230.020.25
ibhClusterEval0.410.010.42
ibhClusterEvalBioGRID0.810.020.83
ibhForMultipleGeneLists000
ibhForMultipleGeneListsBioGRID0.250.000.25
readDirectedInteractionsFromCsv000
readUndirectedInteractionsFromCsv000

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

nameusersystemelapsed
findEntry0.040.000.04
ibh-package2.020.032.05
ibh0.020.000.02
ibhBioGRID0.190.010.20
ibhClusterEval0.400.030.44
ibhClusterEvalBioGRID0.860.020.87
ibhForMultipleGeneLists0.000.000.01
ibhForMultipleGeneListsBioGRID0.250.000.25
readDirectedInteractionsFromCsv000
readUndirectedInteractionsFromCsv000