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BioC 2.12: CHECK report for Category on george2

This page was generated on 2013-10-09 09:37:16 -0700 (Wed, 09 Oct 2013).

Package 101/671HostnameOS / ArchBUILDCHECKBUILD BIN
Category 2.26.0
Bioconductor Package Maintainer
Snapshot Date: 2013-10-08 17:00:48 -0700 (Tue, 08 Oct 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_12/madman/Rpacks/Category
Last Changed Rev: 75263 / Revision: 81334
Last Changed Date: 2013-04-03 14:32:27 -0700 (Wed, 03 Apr 2013)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK [ OK ]
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK 

Summary

Package: Category
Version: 2.26.0
Command: /home/biocbuild/bbs-2.12-bioc/R/bin/R CMD check --no-vignettes --timings Category_2.26.0.tar.gz
StartedAt: 2013-10-09 00:40:54 -0700 (Wed, 09 Oct 2013)
EndedAt: 2013-10-09 00:48:41 -0700 (Wed, 09 Oct 2013)
EllapsedTime: 467.4 seconds
RetCode: 0
Status:  OK 
CheckDir: Category.Rcheck
Warnings: 0

Command output

* using log directory ‘/home/biocbuild/bbs-2.12-bioc/meat/Category.Rcheck’
* using R version 3.0.1 (2013-05-16)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Category/DESCRIPTION’ ... OK
* this is package ‘Category’ version ‘2.26.0’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘Category’ can be installed ... [24s/24s] OK
* checking installed package size ... OK
* checking package 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
* 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 for unstated dependencies in R code ... OK
* 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 installed files from ‘inst/doc’ ... OK
* checking examples ... [100s/101s] OK
Examples with CPU or elapsed time > 5s
                    user system elapsed
ChrBandTree-class 37.631  0.164  37.947
MAPAmat           22.929  0.064  23.020
makeChrBandGraph  17.706  0.108  18.559
gseattperm         6.036  0.128   6.486
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running ‘runTests.R’ [104s/113s]
 [105s/114s] 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

Category.Rcheck/00install.out:

* installing *source* package ‘Category’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (Category)

Category.Rcheck/Category-Ex.timings:

nameusersystemelapsed
ChrBandTree-class37.631 0.16437.947
ChrMapHyperGParams-class0.0080.0000.010
ChrMapHyperGResult-class0.0120.0000.009
ChrMapLinearMParams-class0.0240.0000.025
ChrMapLinearMResult-class0.0080.0000.009
DatPkg-class0.1520.0000.150
HyperGResult-accessors1.3200.0201.338
LinearMResult-class0.0120.0000.008
MAPAmat22.929 0.06423.020
applyByCategory0.0280.0000.029
cateGOryMatrix0.5800.0400.623
cb_parse_band_Hs0.0040.0000.005
cb_parse_band_Mm0.0240.0000.022
findAMstats0.0240.0000.025
getPathNames0.2160.0160.234
gseattperm6.0360.1286.486
makeChrBandGraph17.706 0.10818.559
makeEBcontr0.4200.0280.445
probes2MAP0.3920.0360.478
probes2Path0.1360.0160.172
ttperm0.1280.0040.137