Back to the "Multiple platform build/check report" A  B  C  D  E  F  G  H  I  J  K  L  M  N  O [P] Q  R  S  T  U  V  W  X  Y  Z 

BioC 3.0: CHECK report for pathRender on moscato1

This page was generated on 2015-04-10 09:44:04 -0700 (Fri, 10 Apr 2015).

Package 643/933HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
pathRender 1.34.0
Li Long
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/pathRender
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  WARNINGS 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK [ WARNINGS ] OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  WARNINGS  OK 
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  WARNINGS  OK 

Summary

Package: pathRender
Version: 1.34.0
Command: rm -rf pathRender.buildbin-libdir pathRender.Rcheck && mkdir pathRender.buildbin-libdir pathRender.Rcheck && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=pathRender.buildbin-libdir pathRender_1.34.0.tar.gz >pathRender.Rcheck\00install.out 2>&1 && cp pathRender.Rcheck\00install.out pathRender-install.out && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD check --library=pathRender.buildbin-libdir --install="check:pathRender-install.out" --force-multiarch --no-vignettes --timings pathRender_1.34.0.tar.gz
StartedAt: 2015-04-10 04:01:17 -0700 (Fri, 10 Apr 2015)
EndedAt: 2015-04-10 04:04:34 -0700 (Fri, 10 Apr 2015)
EllapsedTime: 196.2 seconds
RetCode: 0
Status:  WARNINGS  
CheckDir: pathRender.Rcheck
Warnings: 1

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf pathRender.buildbin-libdir pathRender.Rcheck && mkdir pathRender.buildbin-libdir pathRender.Rcheck && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=pathRender.buildbin-libdir pathRender_1.34.0.tar.gz >pathRender.Rcheck\00install.out 2>&1 && cp pathRender.Rcheck\00install.out pathRender-install.out  && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD check --library=pathRender.buildbin-libdir --install="check:pathRender-install.out" --force-multiarch --no-vignettes --timings pathRender_1.34.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbld/bbs-3.0-bioc/meat/pathRender.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 'pathRender/DESCRIPTION' ... OK
* this is package 'pathRender' version '1.34.0'
* 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 'pathRender' can be installed ... WARNING
Found the following significant warnings:
  Warning: replacing previous import by 'graphics::plot' when loading 'pathRender'
See 'D:/biocbld/bbs-3.0-bioc/meat/pathRender.Rcheck/00install.out' for details.
* 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
Packages in Depends field not imported from:
  'RColorBrewer' 'cMAP' 'methods'
  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
graphcMAP: no visible binding for global variable 'cMAPKEGGPATHWAY'
graphcMAP: no visible binding for global variable 'cMAPCARTAPATHWAY'
graphcMAP: no visible binding for global variable 'cMAPKEGGINTERACTION'
graphcMAP: no visible binding for global variable 'cMAPKEGGMOLECULE'
graphcMAP: no visible binding for global variable
  'cMAPCARTAINTERACTION'
graphcMAP: no visible binding for global variable 'cMAPCARTAMOLECULE'
plotExGraph: no visible global function definition for 'brewer.pal'
plotExGraph: no visible global function definition for 'exprs'
quantizeByRow: no visible global function definition for 'featureNames'
quantizeByRow: no visible global function definition for 'exprs<-'
quantizeByRow: no visible global function definition for 'exprs'
quantizeByRow: no visible global function definition for
  'featureNames<-'
reduceES: no visible global function definition for 'featureData<-'
reduceES: no visible global function definition for 'exprs'
reduceES: no visible global function definition for 'phenoData'
rendercMAPPathway: no visible binding for global variable
  'cMAPKEGGPATHWAY'
rendercMAPPathway: no visible binding for global variable
  'cMAPCARTAPATHWAY'
rendercMAPPathway: no visible binding for global variable
  'cMAPKEGGINTERACTION'
rendercMAPPathway: no visible binding for global variable
  'cMAPKEGGMOLECULE'
rendercMAPPathway: no visible binding for global variable
  'cMAPCARTAINTERACTION'
rendercMAPPathway: no visible binding for global variable
  'cMAPCARTAMOLECULE'
* 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' ... [15s] OK
** running examples for arch 'x64' ... [15s] 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

WARNING: There was 1 warning.
NOTE: There were 2 notes.
See
  'D:/biocbld/bbs-3.0-bioc/meat/pathRender.Rcheck/00check.log'
for details.

pathRender.Rcheck/00install.out:


install for i386

* installing *source* package 'pathRender' ...
** R
** inst
** preparing package for lazy loading
Warning: replacing previous import by 'graphics::plot' when loading 'pathRender'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Warning: replacing previous import by 'graphics::plot' when loading 'pathRender'

install for x64

* installing *source* package 'pathRender' ...
** testing if installed package can be loaded
Warning: replacing previous import by 'graphics::plot' when loading 'pathRender'
* MD5 sums
packaged installation of 'pathRender' as pathRender_1.34.0.zip
* DONE (pathRender)

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

nameusersystemelapsed
colorNodes0.30.01.0
coloredGraph-class0.100.000.11
graphcMAP0.500.000.59
plotExGraph2.730.054.98
pwayGraph-class0.130.000.12
reduceES1.730.061.79
rendercMAP0.690.000.69

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

nameusersystemelapsed
colorNodes0.360.000.36
coloredGraph-class0.130.000.28
graphcMAP0.760.000.76
plotExGraph3.630.153.79
pwayGraph-class0.120.000.12
reduceES1.990.032.01
rendercMAP0.810.000.82