Back to Build/check report for BioC 3.13 experimental data |
|
This page was generated on 2021-10-16 15:58:39 -0400 (Sat, 16 Oct 2021).
To the developers/maintainers of the ChAMPdata package: Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 58/406 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | ||||||||
ChAMPdata 2.24.0 (landing page) Yuan Tian
| malbec2 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK | ||||||||
Package: ChAMPdata |
Version: 2.24.0 |
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:ChAMPdata.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings ChAMPdata_2.24.0.tar.gz |
StartedAt: 2021-10-16 12:55:47 -0400 (Sat, 16 Oct 2021) |
EndedAt: 2021-10-16 13:00:38 -0400 (Sat, 16 Oct 2021) |
EllapsedTime: 290.7 seconds |
RetCode: 0 |
Status: OK |
CheckDir: ChAMPdata.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:ChAMPdata.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings ChAMPdata_2.24.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.13-data-experiment/meat/ChAMPdata.Rcheck’ * using R version 4.1.1 (2021-08-10) * 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 ‘2.24.0’ * 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 ... NOTE Found the following hidden files and directories: .git_fetch_output.txt .git_merge_output.txt These were most likely included in error. See section ‘Package structure’ in the ‘Writing R Extensions’ manual. * 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 31.396 0.535 31.934 testDataSet 9.245 0.104 9.350 * checking PDF version of manual ... OK * DONE Status: 3 NOTEs See ‘/home/biocbuild/bbs-3.13-data-experiment/meat/ChAMPdata.Rcheck/00check.log’ for details.
ChAMPdata.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL ChAMPdata ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.13-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 | 2.739 | 0.044 | 2.784 | |
AnnoEPIC | 4.115 | 0.032 | 4.147 | |
CellTypeMeans27K | 0.002 | 0.000 | 0.002 | |
CellTypeMeans450K | 0.001 | 0.000 | 0.002 | |
ChAMPdata-package | 31.396 | 0.535 | 31.934 | |
ControlProbes450K | 0.000 | 0.000 | 0.001 | |
ControlProbesEPIC | 0.001 | 0.000 | 0.001 | |
EPIC.manifest.hg19 | 4.617 | 0.132 | 4.749 | |
EPIC.manifest.pop.hg19 | 2.624 | 0.004 | 2.629 | |
EPICSimData | 2.977 | 0.032 | 3.009 | |
MatchGeneName | 0.019 | 0.000 | 0.019 | |
PathwayList | 0.418 | 0.000 | 0.418 | |
bloodCtl | 0.001 | 0.000 | 0.001 | |
hm450.manifest.hg19 | 1.740 | 0.008 | 1.749 | |
hm450.manifest.pop.hg19 | 1.081 | 0.004 | 1.085 | |
hprdAsigH | 2.540 | 0.208 | 2.748 | |
illumina450Gr | 2.205 | 0.044 | 2.249 | |
illuminaEPICGr | 2.559 | 0.008 | 2.567 | |
multi.hit | 0.785 | 0.000 | 0.785 | |
probe.features | 0.651 | 0.004 | 0.655 | |
probe.features.epic | 1.627 | 0.004 | 1.630 | |
probeInfoALL.epic.lv | 0.687 | 0.004 | 0.690 | |
probeInfoALL.lv | 0.492 | 0.004 | 0.495 | |
snp.hit | 0.818 | 0.000 | 0.818 | |
testDataSet | 9.245 | 0.104 | 9.350 | |