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BioC experimental data: CHECK report for QDNAseq.hg19 on morelia

This page was generated on 2015-11-25 16:26:45 -0800 (Wed, 25 Nov 2015).

Package 197/258HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
QDNAseq.hg19 1.1.0
Daoud Sie
Snapshot Date: 2015-11-25 07:17:28 -0800 (Wed, 25 Nov 2015)
URL: https://hedgehog.fhcrc.org/bioc-data/trunk/experiment/pkgs/QDNAseq.hg19
Last Changed Rev: 3462 / Revision: 3504
Last Changed Date: 2015-10-13 13:20:35 -0700 (Tue, 13 Oct 2015)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK  OK  OK 
morelia Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK [ OK ] OK 

Summary

Package: QDNAseq.hg19
Version: 1.1.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings QDNAseq.hg19_1.1.0.tar.gz
StartedAt: 2015-11-25 11:05:20 -0800 (Wed, 25 Nov 2015)
EndedAt: 2015-11-25 11:08:35 -0800 (Wed, 25 Nov 2015)
EllapsedTime: 194.9 seconds
RetCode: 0
Status:  OK 
CheckDir: QDNAseq.hg19.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings QDNAseq.hg19_1.1.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.3-data-experiment/meat/QDNAseq.hg19.Rcheck’
* using R Under development (unstable) (2015-11-08 r69614)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘QDNAseq.hg19/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘QDNAseq.hg19’ version ‘1.1.0’
* 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 ‘QDNAseq.hg19’ can be installed ... [11s/12s] OK
* checking installed package size ... NOTE
  installed size is 35.4Mb
  sub-directories of 1Mb or more:
    data  35.3Mb
* 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 loading without being on the library search path ... OK
* checking 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... [42s/43s] OK
Examples with CPU or elapsed time > 5s
                 user system elapsed
hg19.1kbp.SR50 23.038  0.509  23.656
hg19.5kbp.SR50  4.938  0.229   5.206
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.3-data-experiment/meat/QDNAseq.hg19.Rcheck/00check.log’
for details.


QDNAseq.hg19.Rcheck/00install.out:

* installing *source* package ‘QDNAseq.hg19’ ...
** R
** data
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded
* DONE (QDNAseq.hg19)

QDNAseq.hg19.Rcheck/QDNAseq.hg19-Ex.timings:

nameusersystemelapsed
QDNAseq.hg19-package1.1020.0571.511
hg19.1000kbp.SR500.0400.0250.080
hg19.100kbp.SR500.4080.0260.434
hg19.10kbp.SR503.0230.0893.119
hg19.15kbp.SR501.4850.0531.590
hg19.1kbp.SR5023.038 0.50923.656
hg19.30kbp.SR500.6780.0730.753
hg19.500kbp.SR500.0610.0570.138
hg19.50kbp.SR500.4170.0700.488
hg19.5kbp.SR504.9380.2295.206