| Back to Build/check report for BioC 3.11 experimental data | 
This page was generated on 2020-10-15 20:45:45 -0400 (Thu, 15 Oct 2020).
| TO THE DEVELOPERS/MAINTAINERS OF THE ChAMPdata PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. | 
| Package 55/391 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | ||||||
| ChAMPdata 2.20.0 Yuan Tian 
 | malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | [ OK ] |  | 
| Package: ChAMPdata | 
| Version: 2.20.0 | 
| Command: /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD check --install=check:ChAMPdata.install-out.txt --library=/home/biocbuild/bbs-3.11-bioc/R/library --no-vignettes --timings ChAMPdata_2.20.0.tar.gz | 
| StartedAt: 2020-10-15 13:03:50 -0400 (Thu, 15 Oct 2020) | 
| EndedAt: 2020-10-15 13:10:56 -0400 (Thu, 15 Oct 2020) | 
| EllapsedTime: 425.0 seconds | 
| RetCode: 0 | 
| Status: OK | 
| CheckDir: ChAMPdata.Rcheck | 
| Warnings: 0 | 
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### Running command:
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###   /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD check --install=check:ChAMPdata.install-out.txt --library=/home/biocbuild/bbs-3.11-bioc/R/library --no-vignettes --timings ChAMPdata_2.20.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.11-data-experiment/meat/ChAMPdata.Rcheck’
* using R version 4.0.3 (2020-10-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ChAMPdata/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ChAMPdata’ version ‘2.20.0’
* 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 ‘ChAMPdata’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 743.0Mb
  sub-directories of 1Mb or more:
    data     619.3Mb
    extdata  123.6Mb
* 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 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 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 ... NOTE
  Error loading dataset 'bloodCtl':
   Error in h(simpleError(msg, call)) : 
    error in evaluating the argument 'x' in selecting a method for function 'nrow': no slot of name "elementMetadata" for this object of class "RGChannelSetExtended"
  
  Error loading dataset 'myLoad':
   Error in h(simpleError(msg, call)) : 
    error in evaluating the argument 'x' in selecting a method for function 'nrow': no slot of name "elementMetadata" for this object of class "MethylSet"
  
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                    user system elapsed
ChAMPdata-package 31.164  0.477  31.642
testDataSet        9.337  0.105   9.441
* checking PDF version of manual ... OK
* DONE
Status: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.11-data-experiment/meat/ChAMPdata.Rcheck/00check.log’
for details.
ChAMPdata.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD INSTALL ChAMPdata ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.11-bioc/R/library’ * installing *source* package ‘ChAMPdata’ ... ** using staged installation ** data ** inst ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (ChAMPdata)
ChAMPdata.Rcheck/ChAMPdata-Ex.timings
| name | user | system | elapsed | |
| Anno450K | 2.598 | 0.043 | 2.641 | |
| AnnoEPIC | 3.770 | 0.031 | 3.802 | |
| CellTypeMeans27K | 0.002 | 0.000 | 0.001 | |
| CellTypeMeans450K | 0.002 | 0.000 | 0.002 | |
| ChAMPdata-package | 31.164 | 0.477 | 31.642 | |
| ControlProbes450K | 0.000 | 0.001 | 0.001 | |
| ControlProbesEPIC | 0.001 | 0.000 | 0.001 | |
| EPIC.manifest.hg19 | 4.293 | 0.127 | 4.421 | |
| EPIC.manifest.pop.hg19 | 2.643 | 0.027 | 2.671 | |
| EPICSimData | 2.929 | 0.039 | 2.969 | |
| MatchGeneName | 0.019 | 0.001 | 0.019 | |
| PathwayList | 0.401 | 0.000 | 0.401 | |
| bloodCtl | 0.001 | 0.000 | 0.001 | |
| hm450.manifest.hg19 | 1.670 | 0.015 | 1.687 | |
| hm450.manifest.pop.hg19 | 1.065 | 0.000 | 1.065 | |
| hprdAsigH | 2.474 | 0.148 | 2.622 | |
| illumina450Gr | 2.106 | 0.047 | 2.153 | |
| illuminaEPICGr | 2.653 | 0.005 | 2.656 | |
| multi.hit | 0.781 | 0.000 | 0.781 | |
| probe.features | 0.627 | 0.004 | 0.631 | |
| probe.features.epic | 1.535 | 0.000 | 1.535 | |
| probeInfoALL.epic.lv | 0.702 | 0.000 | 0.702 | |
| probeInfoALL.lv | 0.476 | 0.000 | 0.476 | |
| snp.hit | 0.739 | 0.003 | 0.743 | |
| testDataSet | 9.337 | 0.105 | 9.441 | |