Back to Build/check report for BioC 3.21 experimental data |
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This page was generated on 2024-11-21 15:01 -0500 (Thu, 21 Nov 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4742 |
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 |
Package 53/429 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | ||||||||
ChAMPdata 2.39.0 (landing page) Yuan Tian
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | WARNINGS | ||||||||
To the developers/maintainers of the ChAMPdata package: - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
Package: ChAMPdata |
Version: 2.39.0 |
Command: /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:ChAMPdata.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings ChAMPdata_2.39.0.tar.gz |
StartedAt: 2024-11-21 11:58:13 -0500 (Thu, 21 Nov 2024) |
EndedAt: 2024-11-21 12:06:16 -0500 (Thu, 21 Nov 2024) |
EllapsedTime: 483.0 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: ChAMPdata.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:ChAMPdata.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings ChAMPdata_2.39.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.21-data-experiment/meat/ChAMPdata.Rcheck’ * using R Under development (unstable) (2024-10-21 r87258) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 * running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * checking for file ‘ChAMPdata/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘ChAMPdata’ version ‘2.39.0’ * checking package namespace information ... OK * checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib: cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES' 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 ... INFO 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 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 ... WARNING Failed with error: 'there is no package called 'minfi'' Error loading dataset 'bloodCtl': Error in .requirePackage(package) : unable to load required package 'minfi' Failed with error: 'there is no package called 'minfi'' Error loading dataset 'myLoad': Error in .requirePackage(package) : unable to load required package 'minfi' The dataset(s) may use package(s) not declared in Depends/Imports. * 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 30.776 0.803 31.584 testDataSet 8.742 0.209 8.952 * checking PDF version of manual ... OK * DONE Status: 1 WARNING See ‘/home/biocbuild/bbs-3.21-data-experiment/meat/ChAMPdata.Rcheck/00check.log’ for details.
ChAMPdata.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD INSTALL ChAMPdata ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.21-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 | 2.528 | 0.068 | 2.596 | |
AnnoEPIC | 3.647 | 0.071 | 3.718 | |
CellTypeMeans27K | 0.002 | 0.000 | 0.002 | |
CellTypeMeans450K | 0.000 | 0.002 | 0.002 | |
ChAMPdata-package | 30.776 | 0.803 | 31.584 | |
ControlProbes450K | 0.001 | 0.000 | 0.001 | |
ControlProbesEPIC | 0.001 | 0.000 | 0.001 | |
EPIC.manifest.hg19 | 4.093 | 0.195 | 4.288 | |
EPIC.manifest.pop.hg19 | 2.204 | 0.020 | 2.224 | |
EPICSimData | 2.682 | 0.064 | 2.762 | |
MatchGeneName | 0.016 | 0.002 | 0.018 | |
PathwayList | 0.363 | 0.007 | 0.371 | |
bloodCtl | 0.000 | 0.001 | 0.002 | |
hm450.manifest.hg19 | 1.575 | 0.017 | 1.593 | |
hm450.manifest.pop.hg19 | 0.858 | 0.006 | 0.865 | |
hprdAsigH | 1.927 | 0.260 | 2.188 | |
illumina450Gr | 3.139 | 0.061 | 3.201 | |
illuminaEPICGr | 3.743 | 0.014 | 3.759 | |
multi.hit | 0.739 | 0.004 | 0.744 | |
probe.features | 0.600 | 0.010 | 0.611 | |
probe.features.epic | 1.470 | 0.006 | 1.477 | |
probeInfoALL.epic.lv | 0.636 | 0.001 | 0.638 | |
probeInfoALL.lv | 0.451 | 0.002 | 0.454 | |
snp.hit | 0.747 | 0.005 | 0.753 | |
testDataSet | 8.742 | 0.209 | 8.952 | |