| Back to Build/check report for BioC 3.15 experimental data |
|
This page was generated on 2022-02-17 08:36:51 -0500 (Thu, 17 Feb 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | R Under development (unstable) (2022-01-05 r81451) -- "Unsuffered Consequences" | 1362 |
| 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 52/406 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | ||||||||
| ChAMPdata 2.27.1 (landing page) Yuan Tian
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | ||||||||
| Package: ChAMPdata |
| Version: 2.27.1 |
| Command: /home/biocbuild/bbs-3.15-data-experiment/R/bin/R CMD check --install=check:ChAMPdata.install-out.txt --library=/home/biocbuild/bbs-3.15-data-experiment/R/library --no-vignettes --timings ChAMPdata_2.27.1.tar.gz |
| StartedAt: 2022-02-17 07:09:20 -0500 (Thu, 17 Feb 2022) |
| EndedAt: 2022-02-17 07:15:48 -0500 (Thu, 17 Feb 2022) |
| EllapsedTime: 387.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: ChAMPdata.Rcheck |
| Warnings: 0 |
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### Running command:
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### /home/biocbuild/bbs-3.15-data-experiment/R/bin/R CMD check --install=check:ChAMPdata.install-out.txt --library=/home/biocbuild/bbs-3.15-data-experiment/R/library --no-vignettes --timings ChAMPdata_2.27.1.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.15-data-experiment/meat/ChAMPdata.Rcheck’
* using R Under development (unstable) (2022-01-05 r81451)
* 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 ‘2.27.1’
* 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 730.0Mb
sub-directories of 1Mb or more:
data 606.3Mb
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 47.257 1.355 48.615
testDataSet 10.699 0.147 10.847
AnnoEPIC 7.192 0.323 7.516
EPIC.manifest.hg19 5.540 0.200 5.740
* 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-data-experiment/R/bin/R CMD INSTALL ChAMPdata ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.15-data-experiment/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 | 4.283 | 0.099 | 4.383 | |
| AnnoEPIC | 7.192 | 0.323 | 7.516 | |
| CellTypeMeans27K | 0.003 | 0.000 | 0.004 | |
| CellTypeMeans450K | 0.003 | 0.000 | 0.003 | |
| ChAMPdata-package | 47.257 | 1.355 | 48.615 | |
| ControlProbes450K | 0.001 | 0.000 | 0.001 | |
| ControlProbesEPIC | 0.001 | 0.001 | 0.001 | |
| EPIC.manifest.hg19 | 5.54 | 0.20 | 5.74 | |
| EPIC.manifest.pop.hg19 | 3.479 | 0.015 | 3.494 | |
| EPICSimData | 2.750 | 0.128 | 2.877 | |
| MatchGeneName | 0.02 | 0.00 | 0.02 | |
| PathwayList | 0.434 | 0.000 | 0.434 | |
| bloodCtl | 0.001 | 0.000 | 0.002 | |
| hm450.manifest.hg19 | 1.895 | 0.000 | 1.895 | |
| hm450.manifest.pop.hg19 | 2.325 | 0.060 | 2.384 | |
| hprdAsigH | 2.193 | 0.209 | 2.400 | |
| illumina450Gr | 3.525 | 0.007 | 3.532 | |
| illuminaEPICGr | 4.235 | 0.008 | 4.242 | |
| multi.hit | 1.364 | 0.056 | 1.420 | |
| probe.features | 0.687 | 0.004 | 0.690 | |
| probe.features.epic | 1.778 | 0.004 | 1.783 | |
| probeInfoALL.epic.lv | 0.738 | 0.000 | 0.739 | |
| probeInfoALL.lv | 0.512 | 0.000 | 0.512 | |
| snp.hit | 0.868 | 0.009 | 0.875 | |
| testDataSet | 10.699 | 0.147 | 10.847 | |