Back to Build/check report for BioC 3.20 experimental data |
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This page was generated on 2024-12-19 15:42 -0500 (Thu, 19 Dec 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4743 |
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 240/431 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | ||||||||
methylclockData 1.14.0 (landing page) Dolors Pelegri-Siso
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | ||||||||
To the developers/maintainers of the methylclockData 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: methylclockData |
Version: 1.14.0 |
Command: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:methylclockData.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings methylclockData_1.14.0.tar.gz |
StartedAt: 2024-12-19 13:10:30 -0500 (Thu, 19 Dec 2024) |
EndedAt: 2024-12-19 13:19:09 -0500 (Thu, 19 Dec 2024) |
EllapsedTime: 518.8 seconds |
RetCode: 0 |
Status: OK |
CheckDir: methylclockData.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:methylclockData.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings methylclockData_1.14.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.20-data-experiment/meat/methylclockData.Rcheck’ * using R version 4.4.2 (2024-10-31) * 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 ‘methylclockData/DESCRIPTION’ ... OK * this is package ‘methylclockData’ version ‘1.14.0’ * package encoding: UTF-8 * 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 ‘methylclockData’ can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... NOTE Malformed Description field: should contain one or more complete sentences. License stub is invalid DCF. * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... 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 dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... 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 files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: 1 NOTE See ‘/home/biocbuild/bbs-3.20-data-experiment/meat/methylclockData.Rcheck/00check.log’ for details.
methylclockData.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD INSTALL methylclockData ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.20-bioc/R/site-library’ * installing *source* package ‘methylclockData’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading Warning: replacing previous import ‘utils::findMatches’ by ‘S4Vectors::findMatches’ when loading ‘ExperimentHubData’ ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location Warning: replacing previous import ‘utils::findMatches’ by ‘S4Vectors::findMatches’ when loading ‘ExperimentHubData’ ** testing if installed package can be loaded from final location Warning: replacing previous import ‘utils::findMatches’ by ‘S4Vectors::findMatches’ when loading ‘ExperimentHubData’ ** testing if installed package keeps a record of temporary installation path * DONE (methylclockData)
methylclockData.Rcheck/methylclockData-Ex.timings
name | user | system | elapsed | |
get_MethylationDataExample | 1.692 | 0.112 | 2.626 | |
get_TestDataset | 1.128 | 0.050 | 1.749 | |
get_coefBLUP | 1.768 | 0.071 | 2.219 | |
get_coefBohlin | 1.857 | 0.110 | 3.391 | |
get_coefEN | 1.180 | 0.085 | 1.580 | |
get_coefEPIC | 1.273 | 0.134 | 1.788 | |
get_coefHannum | 1.158 | 0.110 | 1.595 | |
get_coefHorvath | 1.264 | 0.126 | 1.751 | |
get_coefKnightGA | 1.129 | 0.071 | 1.551 | |
get_coefLeeGA | 1.227 | 0.040 | 1.584 | |
get_coefLevine | 1.109 | 0.045 | 1.511 | |
get_coefMayneGA | 1.190 | 0.073 | 1.667 | |
get_coefPedBE | 1.200 | 0.121 | 2.012 | |
get_coefSkin | 1.197 | 0.106 | 1.741 | |
get_coefTL | 1.216 | 0.116 | 1.931 | |
get_coefWu | 1.157 | 0.118 | 1.864 | |
get_cpgs_bn | 1.192 | 0.121 | 1.671 | |
get_probeAnnotation21kdatMethUsed | 1.193 | 0.120 | 1.910 | |
get_references | 1.344 | 0.129 | 1.818 | |