Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-08-27 11:47 -0400 (Tue, 27 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" | 4415 |
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 1111/2255 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
lute 1.1.0 (landing page) Sean K Maden
| 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 lute package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/lute.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: lute |
Version: 1.1.0 |
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:lute.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings lute_1.1.0.tar.gz |
StartedAt: 2024-08-27 06:14:52 -0000 (Tue, 27 Aug 2024) |
EndedAt: 2024-08-27 06:19:13 -0000 (Tue, 27 Aug 2024) |
EllapsedTime: 260.5 seconds |
RetCode: 0 |
Status: OK |
CheckDir: lute.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD check --install=check:lute.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings lute_1.1.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/lute.Rcheck’ * using R version 4.4.1 (2024-06-14) * using platform: aarch64-unknown-linux-gnu * R was compiled by gcc (GCC) 12.2.1 20220819 (openEuler 12.2.1-14) GNU Fortran (GCC) 10.3.1 * running under: openEuler 22.03 (LTS-SP1) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘lute/DESCRIPTION’ ... OK * this is package ‘lute’ version ‘1.1.0’ * 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 ‘lute’ 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 ... NOTE The following files look like leftovers: ‘lute/NEWS.Rd’ Please remove them from your package. * 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 ... NOTE Namespace in Imports field not imported from: ‘ggplot2’ All declared Imports should be used. * 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 running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 2 NOTEs See ‘/home/biocbuild/bbs-3.20-bioc/meat/lute.Rcheck/00check.log’ for details.
lute.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL lute ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.4.1/site-library’ * installing *source* package ‘lute’ ... ** 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 (lute)
lute.Rcheck/lute-Ex.timings
name | user | system | elapsed | |
bisqueParam-class | 4.118 | 0.154 | 4.290 | |
bisqueParam | 2.228 | 0.016 | 2.248 | |
cellProportionsPredictions-class | 0.016 | 0.000 | 0.015 | |
cellProportionsPredictions | 0.001 | 0.000 | 0.000 | |
deconvolution-bisqueParam-method | 2.961 | 0.075 | 3.053 | |
deconvolution-deconvolutionParam-method | 0 | 0 | 0 | |
deconvolution-independentbulkParam-method | 0.002 | 0.000 | 0.002 | |
deconvolution-nnlsParam-method | 0.014 | 0.000 | 0.014 | |
deconvolution-referencebasedParam-method | 0.004 | 0.000 | 0.004 | |
deconvolution | 0.004 | 0.000 | 0.004 | |
deconvolutionParam-class | 0 | 0 | 0 | |
eset_to_sce | 1.505 | 0.040 | 1.547 | |
eset_to_se | 0.475 | 0.000 | 0.475 | |
findmarkersParam-class | 1.067 | 0.008 | 1.078 | |
findmarkersParam | 0.855 | 0.023 | 0.881 | |
getDeconvolutionExampleData | 0 | 0 | 0 | |
getDeconvolutionExampleDataBisque | 0.449 | 0.000 | 0.450 | |
getDeconvolutionExampleDataSCDC | 0.246 | 0.000 | 0.246 | |
get_celltypes_from_sce | 0.001 | 0.000 | 0.001 | |
get_csf_reference | 0.001 | 0.000 | 0.000 | |
get_eset_from_matrix | 0.000 | 0.001 | 0.000 | |
independentbulkParam-class | 0.000 | 0.001 | 0.001 | |
independentbulkParam | 0.000 | 0.001 | 0.001 | |
lute | 0.272 | 0.008 | 0.280 | |
luteSupportedDeconvolutionAlgorithms | 0.008 | 0.000 | 0.007 | |
new_workflow_table | 0.001 | 0.000 | 0.001 | |
nnlsParam-class | 0.007 | 0.000 | 0.006 | |
nnlsParam | 0.007 | 0.000 | 0.006 | |
parseDeconvolutionPredictionsResults | 0.001 | 0.000 | 0.001 | |
proportionsVectorsList | 0.001 | 0.000 | 0.000 | |
randomMarkersVectorsList | 0.001 | 0.000 | 0.001 | |
randomSingleCellExperiment | 0.172 | 0.004 | 0.176 | |
referenceFromSingleCellExperiment | 0.000 | 0.000 | 0.001 | |
referencebasedParam-class | 0.000 | 0.002 | 0.002 | |
referencebasedParam | 0.001 | 0.001 | 0.002 | |
rmse | 0.002 | 0.000 | 0.001 | |
rmseTest | 0.001 | 0.000 | 0.001 | |
sce_to_eset | 0.240 | 0.004 | 0.244 | |
sce_to_se | 0.194 | 0.008 | 0.202 | |
se_to_eset | 0.222 | 0.004 | 0.226 | |
se_to_sce | 0.213 | 0.008 | 0.221 | |
show-bisqueParam-method | 0.676 | 0.008 | 0.685 | |
show-cellProportionsPredictions-method | 0.000 | 0.000 | 0.001 | |
show-deconvolutionParam-method | 0.001 | 0.000 | 0.001 | |
show-findmarkersParam-method | 0.829 | 0.008 | 0.840 | |
show-independentbulkParam-method | 0.000 | 0.000 | 0.001 | |
show-nnlsParam-method | 0.002 | 0.000 | 0.002 | |
show-referencebasedParam-method | 0.001 | 0.000 | 0.001 | |
show-typemarkersParam-method | 0 | 0 | 0 | |
sub-sub-deconvolutionParam-ANY-ANY-method | 0 | 0 | 0 | |
sub-sub-typemarkersParam-ANY-ANY-method | 0.001 | 0.000 | 0.000 | |
typemarkers-findmarkersParam-method | 0.821 | 0.008 | 0.836 | |
typemarkers-typemarkersParam-method | 0 | 0 | 0 | |
typemarkers | 0 | 0 | 0 | |
typemarkersParam-class | 0 | 0 | 0 | |
typemarkersParam | 0 | 0 | 0 | |
ypb_from_sce | 0.182 | 0.000 | 0.184 | |
z_matrix_from_sce | 0.178 | 0.004 | 0.182 | |