Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-08-21 11:39 -0400 (Wed, 21 Aug 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4703 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4440 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4472 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4421 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4414 |
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 6/2255 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
a4Reporting 1.53.0 (landing page) Laure Cougnaud
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the a4Reporting package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/a4Reporting.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. |
Package: a4Reporting |
Version: 1.53.0 |
Command: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:a4Reporting.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings a4Reporting_1.53.0.tar.gz |
StartedAt: 2024-08-20 20:31:38 -0400 (Tue, 20 Aug 2024) |
EndedAt: 2024-08-20 20:31:57 -0400 (Tue, 20 Aug 2024) |
EllapsedTime: 19.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: a4Reporting.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:a4Reporting.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings a4Reporting_1.53.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/a4Reporting.Rcheck’ * using R version 4.4.1 (2024-06-14) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 * running under: Ubuntu 22.04.4 LTS * using session charset: UTF-8 * checking for file ‘a4Reporting/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘a4Reporting’ version ‘1.53.0’ * 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 ‘a4Reporting’ can be installed ... OK * checking installed package size ... OK * 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 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 ‘tests’ ... OK * checking tests ... Running ‘test.annotationTable.R’ 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: OK
a4Reporting.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD INSTALL a4Reporting ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.20-bioc/R/site-library’ * installing *source* package ‘a4Reporting’ ... ** using staged installation ** R ** 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 (a4Reporting)
a4Reporting.Rcheck/tests/test.annotationTable.Rout
R version 4.4.1 (2024-06-14) -- "Race for Your Life" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > # test annotationTable functionality > > library(a4Reporting) > > ## some dummy data > set.seed(123) > dData <- data.frame(someSymbol = LETTERS[1:5], + accessionNumber = + c("X83928", "V00540", "U21090", "L38487", "M34057"), + floats = rnorm(5)) > > at <- annotationTable(displayData = dData, + displayCols = list(accessionNumber = "EntrezId")) > > at annotationTable with hyperlink annotation for columns: someSymbol, accessionNumber, floats someSymbol accessionNumber floats 1 A X83928 -0.56047565 2 B V00540 -0.23017749 3 C U21090 1.55870831 4 D L38487 0.07050839 5 E M34057 0.12928774 > > xat <- xtable(at, caption = "Example LaTeX table with Hyperlinks", digits = 3) > > print(xat, include.rownames = FALSE) # OK % latex table generated in R 4.4.1 by xtable 1.8-4 package % Tue Aug 20 20:31:52 2024 \begin{table}[ht] \centering \begin{tabular}{llr} \hline someSymbol & accessionNumber & floats \\ \hline A & \href{http://www.ncbi.nlm.nih.gov/gene/X83928}{X83928} & -0.560 \\ B & \href{http://www.ncbi.nlm.nih.gov/gene/V00540}{V00540} & -0.230 \\ C & \href{http://www.ncbi.nlm.nih.gov/gene/U21090}{U21090} & 1.559 \\ D & \href{http://www.ncbi.nlm.nih.gov/gene/L38487}{L38487} & 0.071 \\ E & \href{http://www.ncbi.nlm.nih.gov/gene/M34057}{M34057} & 0.129 \\ \hline \end{tabular} \caption{Example LaTeX table with Hyperlinks} \end{table} > > > proc.time() user system elapsed 0.224 0.052 0.266
a4Reporting.Rcheck/a4Reporting-Ex.timings
name | user | system | elapsed | |
annotationTable-class | 0.000 | 0.001 | 0.001 | |
annotationTable | 0.004 | 0.000 | 0.004 | |
generateEntrezIdLinks | 0 | 0 | 0 | |
xtable-methods | 0.009 | 0.000 | 0.009 | |