Back to Build/check report for BioC 3.15 experimental data |
|
This page was generated on 2022-10-18 14:50:11 -0400 (Tue, 18 Oct 2022).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.1 (2022-06-23) -- "Funny-Looking Kid" | 4386 |
Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
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 52/410 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | ||||||||
ChAMPdata 2.28.0 (landing page) Yuan Tian
| nebbiolo1 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK | ||||||||
Package: ChAMPdata |
Version: 2.28.0 |
Command: /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD check --install=check:ChAMPdata.install-out.txt --library=/home/biocbuild/bbs-3.15-bioc/R/library --no-vignettes --timings ChAMPdata_2.28.0.tar.gz |
StartedAt: 2022-10-18 11:13:54 -0400 (Tue, 18 Oct 2022) |
EndedAt: 2022-10-18 11:17:57 -0400 (Tue, 18 Oct 2022) |
EllapsedTime: 242.9 seconds |
RetCode: 0 |
Status: OK |
CheckDir: ChAMPdata.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD check --install=check:ChAMPdata.install-out.txt --library=/home/biocbuild/bbs-3.15-bioc/R/library --no-vignettes --timings ChAMPdata_2.28.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.15-data-experiment/meat/ChAMPdata.Rcheck’ * using R version 4.2.1 (2022-06-23) * 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 ‘2.28.0’ * 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 730.2Mb sub-directories of 1Mb or more: data 606.3Mb extdata 123.7Mb * 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 25.969 0.80 26.770 testDataSet 8.141 0.24 8.386 * checking PDF version of manual ... OK * DONE Status: 2 NOTEs See ‘/home/biocbuild/bbs-3.15-data-experiment/meat/ChAMPdata.Rcheck/00check.log’ for details.
ChAMPdata.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD INSTALL ChAMPdata ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.15-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 | 1.808 | 0.044 | 1.852 | |
AnnoEPIC | 4.214 | 0.056 | 4.270 | |
CellTypeMeans27K | 0.001 | 0.000 | 0.001 | |
CellTypeMeans450K | 0.001 | 0.000 | 0.001 | |
ChAMPdata-package | 25.969 | 0.800 | 26.770 | |
ControlProbes450K | 0.001 | 0.000 | 0.001 | |
ControlProbesEPIC | 0.001 | 0.001 | 0.001 | |
EPIC.manifest.hg19 | 3.896 | 0.134 | 4.032 | |
EPIC.manifest.pop.hg19 | 2.523 | 0.048 | 2.571 | |
EPICSimData | 1.641 | 0.144 | 1.785 | |
MatchGeneName | 0.015 | 0.001 | 0.015 | |
PathwayList | 0.301 | 0.000 | 0.301 | |
bloodCtl | 0.001 | 0.000 | 0.002 | |
hm450.manifest.hg19 | 1.385 | 0.036 | 1.422 | |
hm450.manifest.pop.hg19 | 0.885 | 0.000 | 0.885 | |
hprdAsigH | 1.876 | 0.240 | 2.116 | |
illumina450Gr | 2.752 | 0.036 | 2.787 | |
illuminaEPICGr | 3.112 | 0.020 | 3.131 | |
multi.hit | 0.679 | 0.008 | 0.686 | |
probe.features | 0.533 | 0.008 | 0.541 | |
probe.features.epic | 1.390 | 0.008 | 1.399 | |
probeInfoALL.epic.lv | 0.621 | 0.000 | 0.621 | |
probeInfoALL.lv | 0.435 | 0.004 | 0.440 | |
snp.hit | 0.692 | 0.000 | 0.692 | |
testDataSet | 8.141 | 0.240 | 8.386 | |