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BioC 3.2: CHECK report for PSICQUIC on moscato1

This page was generated on 2015-08-20 13:22:13 -0700 (Thu, 20 Aug 2015).

Package 786/1069HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
PSICQUIC 1.7.0
Paul Shannon
Snapshot Date: 2015-08-19 16:24:33 -0700 (Wed, 19 Aug 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/PSICQUIC
Last Changed Rev: 102594 / Revision: 107602
Last Changed Date: 2015-04-16 13:02:44 -0700 (Thu, 16 Apr 2015)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK [ OK ] OK UNNEEDED, same version exists in internal repository
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: PSICQUIC
Version: 1.7.0
Command: rm -rf PSICQUIC.buildbin-libdir PSICQUIC.Rcheck && mkdir PSICQUIC.buildbin-libdir PSICQUIC.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=PSICQUIC.buildbin-libdir PSICQUIC_1.7.0.tar.gz >PSICQUIC.Rcheck\00install.out 2>&1 && cp PSICQUIC.Rcheck\00install.out PSICQUIC-install.out && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=PSICQUIC.buildbin-libdir --install="check:PSICQUIC-install.out" --force-multiarch --no-vignettes --timings PSICQUIC_1.7.0.tar.gz
StartedAt: 2015-08-20 08:56:43 -0700 (Thu, 20 Aug 2015)
EndedAt: 2015-08-20 09:04:30 -0700 (Thu, 20 Aug 2015)
EllapsedTime: 466.3 seconds
RetCode: 0
Status:  OK  
CheckDir: PSICQUIC.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf PSICQUIC.buildbin-libdir PSICQUIC.Rcheck && mkdir PSICQUIC.buildbin-libdir PSICQUIC.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=PSICQUIC.buildbin-libdir PSICQUIC_1.7.0.tar.gz >PSICQUIC.Rcheck\00install.out 2>&1 && cp PSICQUIC.Rcheck\00install.out PSICQUIC-install.out  && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=PSICQUIC.buildbin-libdir --install="check:PSICQUIC-install.out" --force-multiarch --no-vignettes --timings PSICQUIC_1.7.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbld/bbs-3.2-bioc/meat/PSICQUIC.Rcheck'
* using R version 3.2.2 (2015-08-14)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'PSICQUIC/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'PSICQUIC' version '1.7.0'
* 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 'PSICQUIC' 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
Packages in Depends field not imported from:
  'httr' 'plyr'
  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
.loadRegistry: no visible global function definition for 'DataFrame'
.translate.uniprotkb: no visible binding for global variable 'id'
* 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' ... [65s] OK
Examples with CPU or elapsed time > 5s
               user system elapsed
PSICQUIC-class 1.31   0.02   40.21
IDMapper-class 0.71   0.04    6.52
interactions   0.59   0.00    9.93
** running examples for arch 'x64' ... [62s] OK
Examples with CPU or elapsed time > 5s
               user system elapsed
PSICQUIC-class 1.39   0.07   32.83
IDMapper-class 1.01   0.16   10.72
interactions   0.52   0.02   10.02
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'runTests.R' [69s]
 [70s] OK
** running tests for arch 'x64' ...
  Running 'runTests.R' [127s]
 [128s] 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
  'D:/biocbld/bbs-3.2-bioc/meat/PSICQUIC.Rcheck/00check.log'
for details.


PSICQUIC.Rcheck/00install.out:


install for i386

* installing *source* package 'PSICQUIC' ...
** 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 'PSICQUIC' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'PSICQUIC' as PSICQUIC_1.7.0.zip
* DONE (PSICQUIC)

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

nameusersystemelapsed
IDMapper-class0.710.046.52
PSICQUIC-class 1.31 0.0240.21
interactions0.590.009.93
providers0.010.001.31
rawQuery0.180.001.59
webBrowser-functions000

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

nameusersystemelapsed
IDMapper-class 1.01 0.1610.72
PSICQUIC-class 1.39 0.0732.83
interactions 0.52 0.0210.02
providers0.060.001.33
rawQuery0.030.001.57
webBrowser-functions000