Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-06-11 15:43 -0400 (Tue, 11 Jun 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 RC (2024-04-16 r86468) -- "Puppy Cup" | 4679 |
palomino4 | Windows Server 2022 Datacenter | x64 | 4.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup" | 4414 |
merida1 | macOS 12.7.4 Monterey | x86_64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4441 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4394 |
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 980/2239 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
iCheck 1.35.0 (landing page) Weiliang Qiu
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
merida1 | macOS 12.7.4 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
To the developers/maintainers of the iCheck package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/iCheck.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: iCheck |
Version: 1.35.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:iCheck.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings iCheck_1.35.0.tar.gz |
StartedAt: 2024-06-10 22:31:03 -0400 (Mon, 10 Jun 2024) |
EndedAt: 2024-06-10 22:37:19 -0400 (Mon, 10 Jun 2024) |
EllapsedTime: 376.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: iCheck.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:iCheck.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings iCheck_1.35.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/iCheck.Rcheck’ * using R version 4.4.0 Patched (2024-04-24 r86482) * using platform: aarch64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Ventura 13.6.6 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘iCheck/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘iCheck’ version ‘1.35.0’ * 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 ‘iCheck’ 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 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 ... NOTE checkRd: (-1) R2PlotFunc.Rd:74: Lost braces; missing escapes or markup? 74 | 'las' numeric in {0,1,2,3}; the style of axis labels. | ^ checkRd: (-1) genSimData.BayesNormal.Rd:93: Lost braces; missing escapes or markup? 93 | contains 2 columns: \code{arrayID} (array id) and {memSubj} (subject | ^ checkRd: (-1) lmFitWrapper.Rd:85: Lost braces 85 | code{pval} (p-values of the tests for the covariate of interest, i.e. | ^ checkRd: (-1) plotCurves.Rd:75: Lost braces; missing escapes or markup? 75 | 'las' numeric in {0,1,2,3}; the style of axis labels. | ^ checkRd: (-1) plotQCCurves.Rd:102: Lost braces; missing escapes or markup? 102 | 'las' numeric in {0,1,2,3}; the style of axis labels. | ^ checkRd: (-1) plotSamplep95p05.Rd:92: Lost braces; missing escapes or markup? 92 | 'las' numeric in {0,1,2,3}; the style of axis labels. | ^ checkRd: (-1) quantilePlot.Rd:78: Lost braces; missing escapes or markup? 78 | 'las' numeric in {0,1,2,3}; the style of axis labels. | ^ * 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 sizes of PDF files under ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * 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: 1 NOTE See ‘/Users/biocbuild/bbs-3.20-bioc/meat/iCheck.Rcheck/00check.log’ for details.
iCheck.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL iCheck ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library’ * installing *source* package ‘iCheck’ ... ** using staged installation ** R ** byte-compile and prepare package for lazy loading No methods found in package ‘RSQLite’ for request: ‘dbListFields’ when loading ‘lumi’ ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location No methods found in package ‘RSQLite’ for request: ‘dbListFields’ when loading ‘lumi’ ** testing if installed package can be loaded from final location No methods found in package ‘RSQLite’ for request: ‘dbListFields’ when loading ‘lumi’ ** testing if installed package keeps a record of temporary installation path * DONE (iCheck)
iCheck.Rcheck/iCheck-Ex.timings
name | user | system | elapsed | |
LumiBatch2Table | 0.106 | 0.004 | 0.110 | |
R2PlotFunc | 0.200 | 0.013 | 0.246 | |
boxPlots | 0.155 | 0.021 | 0.184 | |
densityPlots | 0.038 | 0.004 | 0.044 | |
genSimData.BayesNormal | 0.014 | 0.000 | 0.015 | |
getPCAFunc | 0.029 | 0.001 | 0.033 | |
glmWrapper | 0.201 | 0.006 | 0.218 | |
lkhrWrapper | 0.215 | 0.020 | 0.239 | |
lmFitPaired | 0.028 | 0.004 | 0.033 | |
lmFitWrapper | 0.043 | 0.005 | 0.048 | |
pca2DPlot | 0.113 | 0.009 | 0.127 | |
pca3DPlot | 0.049 | 0.002 | 0.052 | |
plotCurves | 0.035 | 0.001 | 0.037 | |
plotQCCurves | 0.049 | 0.003 | 0.055 | |
plotSamplep95p05 | 0.061 | 0.002 | 0.064 | |
quantilePlot | 0.060 | 0.004 | 0.064 | |
scatterPlots | 0.102 | 0.019 | 0.121 | |
sortExpressionSet | 0.047 | 0.001 | 0.048 | |