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BioC 2.13: CHECK report for rTRM on moscato1

This page was generated on 2014-04-05 09:51:24 -0700 (Sat, 05 Apr 2014).

Package 636/750HostnameOS / ArchBUILDCHECKBUILD BIN
rTRM 1.0.5
Diego Diez
Snapshot Date: 2014-04-04 16:20:29 -0700 (Fri, 04 Apr 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_13/madman/Rpacks/rTRM
Last Changed Rev: 86449 / Revision: 88450
Last Changed Date: 2014-02-13 20:31:47 -0800 (Thu, 13 Feb 2014)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK [ OK ] OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK 

Summary

Package: rTRM
Version: 1.0.5
Command: rm -rf rTRM.buildbin-libdir && mkdir rTRM.buildbin-libdir && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=rTRM.buildbin-libdir rTRM_1.0.5.tar.gz >rTRM-install.out 2>&1 && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD check --library=rTRM.buildbin-libdir --install="check:rTRM-install.out" --force-multiarch --no-vignettes --timings rTRM_1.0.5.tar.gz && mv rTRM.buildbin-libdir/* rTRM.Rcheck/ && rmdir rTRM.buildbin-libdir
StartedAt: 2014-04-05 06:36:51 -0700 (Sat, 05 Apr 2014)
EndedAt: 2014-04-05 06:39:29 -0700 (Sat, 05 Apr 2014)
EllapsedTime: 158.2 seconds
RetCode: 0
Status:  OK  
CheckDir: rTRM.Rcheck
Warnings: 0

Command output

* using log directory 'D:/biocbld/bbs-2.13-bioc/meat/rTRM.Rcheck'
* using R version 3.0.3 (2014-03-06)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'rTRM/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'rTRM' version '1.0.5'
* 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 'rTRM' 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:
  'RSQLite' 'annotate' 'igraph'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
See the information on DESCRIPTION files in the chapter 'Creating R
packages' of the 'Writing R Extensions' manual.
* 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' ... [8s] OK
** running examples for arch 'x64' ... [12s] OK
Examples with CPU or elapsed time > 5s
            user system elapsed
getMatrices 6.14      0    6.15
* checking for unstated dependencies in tests ... OK
* checking tests ...
** running tests for arch 'i386'
  Running 'runTests.R' [5s]
 [5s] OK
** running tests for arch 'x64'
  Running 'runTests.R' [6s]
 [7s] 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

NOTE: There was 1 note.
See
  'D:/biocbld/bbs-2.13-bioc/meat/rTRM.Rcheck/00check.log'
for details.

rTRM.Rcheck/00install.out:


install for i386

* installing *source* package 'rTRM' ...
** R
** data
** inst
** byte-compile and prepare 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 'rTRM' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'rTRM' as rTRM_1.0.5.zip
* DONE (rTRM)

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

nameusersystemelapsed
findTRM0.200.000.21
getAnnotations0.010.000.02
getMaps0.060.000.06
getMatrices2.70.02.7
getOrthologs0.010.020.03
rTRM-package0.070.000.07

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

nameusersystemelapsed
findTRM0.250.000.25
getAnnotations0.030.000.03
getMaps0.050.020.07
getMatrices6.140.006.15
getOrthologs0.020.010.03
rTRM-package0.060.000.07