| Back to Build/check report for BioC 3.16 experimental data |
|
This page was generated on 2023-04-11 14:50:26 -0400 (Tue, 11 Apr 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4502 |
| 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 53/416 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | ||||||||
| ChAMPdata 2.30.0 (landing page) Yuan Tian
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK | ||||||||
| Package: ChAMPdata |
| Version: 2.30.0 |
| Command: /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:ChAMPdata.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/site-library --timings ChAMPdata_2.30.0.tar.gz |
| StartedAt: 2023-04-11 11:32:49 -0400 (Tue, 11 Apr 2023) |
| EndedAt: 2023-04-11 11:36:52 -0400 (Tue, 11 Apr 2023) |
| EllapsedTime: 242.3 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: ChAMPdata.Rcheck |
| Warnings: 0 |
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### Running command:
###
### /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:ChAMPdata.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/site-library --timings ChAMPdata_2.30.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.16-data-experiment/meat/ChAMPdata.Rcheck’
* using R version 4.2.3 (2023-03-15)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* checking for file ‘ChAMPdata/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ChAMPdata’ version ‘2.30.0’
* 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 730.0Mb
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 loading without being on the library search path ... 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 25.337 0.658 25.997
testDataSet 7.790 0.171 7.962
* checking PDF version of manual ... OK
* DONE
Status: 2 NOTEs
See
‘/home/biocbuild/bbs-3.16-data-experiment/meat/ChAMPdata.Rcheck/00check.log’
for details.
ChAMPdata.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD INSTALL ChAMPdata ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.16-bioc/R/site-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 | 1.887 | 0.036 | 1.923 | |
| AnnoEPIC | 4.242 | 0.048 | 4.290 | |
| CellTypeMeans27K | 0.001 | 0.000 | 0.001 | |
| CellTypeMeans450K | 0.001 | 0.000 | 0.001 | |
| ChAMPdata-package | 25.337 | 0.658 | 25.997 | |
| ControlProbes450K | 0.000 | 0.000 | 0.001 | |
| ControlProbesEPIC | 0.001 | 0.000 | 0.001 | |
| EPIC.manifest.hg19 | 3.653 | 0.179 | 3.833 | |
| EPIC.manifest.pop.hg19 | 2.375 | 0.052 | 2.427 | |
| EPICSimData | 1.589 | 0.048 | 1.636 | |
| MatchGeneName | 0.014 | 0.000 | 0.014 | |
| PathwayList | 0.287 | 0.001 | 0.287 | |
| bloodCtl | 0.001 | 0.000 | 0.001 | |
| hm450.manifest.hg19 | 1.358 | 0.019 | 1.378 | |
| hm450.manifest.pop.hg19 | 0.854 | 0.013 | 0.866 | |
| hprdAsigH | 1.854 | 0.211 | 2.066 | |
| illumina450Gr | 2.688 | 0.056 | 2.744 | |
| illuminaEPICGr | 3.102 | 0.024 | 3.126 | |
| multi.hit | 0.667 | 0.000 | 0.668 | |
| probe.features | 0.534 | 0.013 | 0.547 | |
| probe.features.epic | 1.270 | 0.015 | 1.287 | |
| probeInfoALL.epic.lv | 0.568 | 0.000 | 0.568 | |
| probeInfoALL.lv | 0.399 | 0.015 | 0.414 | |
| snp.hit | 0.657 | 0.001 | 0.657 | |
| testDataSet | 7.790 | 0.171 | 7.962 | |