Back to the "Build/check report"

BioC experimental data: CHECK report for QDNAseq.hg19 on malbec2

This page was generated on 2017-08-15 15:07:59 -0400 (Tue, 15 Aug 2017).

Package 239/316HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
QDNAseq.hg19 1.6.0
Daoud Sie
Snapshot Date: 2017-08-15 09:00:06 -0400 (Tue, 15 Aug 2017)
URL: https://hedgehog.fhcrc.org/bioc-data/branches/RELEASE_3_5/experiment/pkgs/QDNAseq.hg19
Last Changed Rev: 4155 / Revision: 4227
Last Changed Date: 2017-04-24 16:09:26 -0400 (Mon, 24 Apr 2017)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: QDNAseq.hg19
Version: 1.6.0
Command: /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD check --no-vignettes --timings QDNAseq.hg19_1.6.0.tar.gz
StartedAt: 2017-08-15 11:00:50 -0400 (Tue, 15 Aug 2017)
EndedAt: 2017-08-15 11:03:16 -0400 (Tue, 15 Aug 2017)
EllapsedTime: 146.0 seconds
RetCode: 0
Status:  OK 
CheckDir: QDNAseq.hg19.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD check --no-vignettes --timings QDNAseq.hg19_1.6.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.5-data-experiment/meat/QDNAseq.hg19.Rcheck’
* using R version 3.4.1 (2017-06-30)
* using platform: x86_64-pc-linux-gnu (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 ‘1.6.0’
* 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 ... 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 ... OK
Examples with CPU or elapsed time > 5s
                user system elapsed
hg19.1kbp.SR50 19.24   0.84  20.089
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.5-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-package0.9280.0480.978
hg19.1000kbp.SR500.0520.0080.060
hg19.100kbp.SR500.3880.0200.407
hg19.10kbp.SR502.6240.0802.705
hg19.15kbp.SR501.1520.0641.216
hg19.1kbp.SR5019.240 0.84020.089
hg19.30kbp.SR500.4960.0560.553
hg19.500kbp.SR500.0480.0000.048
hg19.50kbp.SR500.2760.0320.311
hg19.5kbp.SR504.3160.2764.593