Back to Multiple platform build/check report for BioC 3.22: simplified long |
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This page was generated on 2025-09-01 12:08 -0400 (Mon, 01 Sep 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4824 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4615 |
kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4562 |
taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4541 |
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 2164/2320 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
TFEA.ChIP 1.29.2 (landing page) Yosra Berrouayel
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the TFEA.ChIP package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/TFEA.ChIP.git to reflect on this report. See Troubleshooting Build Report for more information. - 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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
Package: TFEA.ChIP |
Version: 1.29.2 |
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:TFEA.ChIP.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings TFEA.ChIP_1.29.2.tar.gz |
StartedAt: 2025-08-29 12:18:21 -0000 (Fri, 29 Aug 2025) |
EndedAt: 2025-08-29 12:25:06 -0000 (Fri, 29 Aug 2025) |
EllapsedTime: 404.4 seconds |
RetCode: 0 |
Status: OK |
CheckDir: TFEA.ChIP.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD check --install=check:TFEA.ChIP.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings TFEA.ChIP_1.29.2.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/TFEA.ChIP.Rcheck’ * using R version 4.5.0 (2025-04-11) * using platform: aarch64-unknown-linux-gnu * R was compiled by aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0 GNU Fortran (GCC) 14.2.0 * running under: openEuler 24.03 (LTS) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘TFEA.ChIP/DESCRIPTION’ ... OK * this is package ‘TFEA.ChIP’ version ‘1.29.2’ * package encoding: UTF-8 * 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 ‘TFEA.ChIP’ can be installed ... OK * checking installed package size ... INFO installed size is 5.5Mb sub-directories of 1Mb or more: data 5.3Mb * checking package directory ... OK * checking ‘build’ 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 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 whether startup messages can be suppressed ... 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking LazyData ... OK * checking data for ASCII and uncompressed saves ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed rankTFs 17.188 0.191 17.426 GSEA_run 13.650 0.112 13.801 getCMstats 5.266 0.024 5.302 * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: OK
TFEA.ChIP.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL TFEA.ChIP ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.5.0/site-library’ * installing *source* package ‘TFEA.ChIP’ ... ** this is package ‘TFEA.ChIP’ version ‘1.29.2’ ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** 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 (TFEA.ChIP)
TFEA.ChIP.Rcheck/TFEA.ChIP-Ex.timings
name | user | system | elapsed | |
GSEA_ESpermutations | 0.001 | 0.000 | 0.001 | |
GSEA_EnrichmentScore | 0 | 0 | 0 | |
GSEA_run | 13.650 | 0.112 | 13.801 | |
GeneID2entrez | 0.616 | 0.008 | 0.626 | |
Select_genes | 0.095 | 0.008 | 0.103 | |
analysis_from_table | 4.740 | 0.040 | 4.791 | |
contingency_matrix | 3.004 | 0.012 | 3.023 | |
getCMstats | 5.266 | 0.024 | 5.302 | |
get_chip_index | 0.028 | 0.008 | 0.037 | |
makeChIPGeneDB | 0.131 | 0.004 | 0.135 | |
matrixDB_to_listDB | 0.000 | 0.001 | 0.000 | |
metaanalysis_fx | 0.827 | 0.082 | 0.926 | |
plot_RES | 4.753 | 0.116 | 4.878 | |
preprocessInputData | 1.256 | 0.052 | 1.311 | |
rankTFs | 17.188 | 0.191 | 17.426 | |
set_user_data | 0.405 | 0.004 | 0.410 | |
txt2GR | 0.036 | 0.000 | 0.037 | |