Back to Multiple platform build/check report for BioC 3.19: simplified long |
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This page was generated on 2024-05-31 17:03:03 -0400 (Fri, 31 May 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4753 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.0 (2024-04-24) -- "Puppy Cup" | 4464 |
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 1133/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
lute 1.0.0 (landing page) Sean K Maden
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | 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. |
Package: lute |
Version: 1.0.0 |
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:lute.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings lute_1.0.0.tar.gz |
StartedAt: 2024-05-31 05:05:47 -0400 (Fri, 31 May 2024) |
EndedAt: 2024-05-31 05:09:56 -0400 (Fri, 31 May 2024) |
EllapsedTime: 248.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: lute.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:lute.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings lute_1.0.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/lute.Rcheck’ * using R version 4.4.0 (2024-04-24) * 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 ‘lute/DESCRIPTION’ ... OK * this is package ‘lute’ version ‘1.0.0’ * 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’ ... NOTE The following files look like leftovers/mistakes: ‘lute_algorithm_classes.log’ Please remove them from your package. * 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: 3 NOTEs See ‘/home/biocbuild/bbs-3.19-bioc/meat/lute.Rcheck/00check.log’ for details.
lute.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL lute ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/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 | 2.772 | 0.164 | 2.936 | |
bisqueParam | 1.713 | 0.076 | 1.789 | |
cellProportionsPredictions-class | 0.013 | 0.000 | 0.013 | |
cellProportionsPredictions | 0 | 0 | 0 | |
deconvolution-bisqueParam-method | 1.869 | 0.020 | 1.890 | |
deconvolution-deconvolutionParam-method | 0.001 | 0.000 | 0.001 | |
deconvolution-independentbulkParam-method | 0.002 | 0.000 | 0.002 | |
deconvolution-nnlsParam-method | 0.01 | 0.00 | 0.01 | |
deconvolution-referencebasedParam-method | 0.002 | 0.000 | 0.002 | |
deconvolution | 0.003 | 0.000 | 0.003 | |
deconvolutionParam-class | 0.001 | 0.000 | 0.001 | |
eset_to_sce | 0.565 | 0.012 | 0.577 | |
eset_to_se | 0.362 | 0.004 | 0.366 | |
findmarkersParam-class | 0.728 | 0.020 | 0.749 | |
findmarkersParam | 0.569 | 0.028 | 0.597 | |
getDeconvolutionExampleData | 0 | 0 | 0 | |
getDeconvolutionExampleDataBisque | 0.346 | 0.008 | 0.354 | |
getDeconvolutionExampleDataSCDC | 0.16 | 0.00 | 0.16 | |
get_celltypes_from_sce | 0.000 | 0.000 | 0.001 | |
get_csf_reference | 0.001 | 0.000 | 0.001 | |
get_eset_from_matrix | 0.001 | 0.000 | 0.001 | |
independentbulkParam-class | 0.001 | 0.000 | 0.001 | |
independentbulkParam | 0.001 | 0.000 | 0.001 | |
lute | 0.193 | 0.000 | 0.192 | |
luteSupportedDeconvolutionAlgorithms | 0.014 | 0.000 | 0.014 | |
new_workflow_table | 0.001 | 0.000 | 0.001 | |
nnlsParam-class | 0.005 | 0.000 | 0.005 | |
nnlsParam | 0.005 | 0.000 | 0.004 | |
parseDeconvolutionPredictionsResults | 0.001 | 0.000 | 0.000 | |
proportionsVectorsList | 0.001 | 0.000 | 0.000 | |
randomMarkersVectorsList | 0.000 | 0.001 | 0.000 | |
randomSingleCellExperiment | 0.099 | 0.002 | 0.102 | |
referenceFromSingleCellExperiment | 0.000 | 0.000 | 0.001 | |
referencebasedParam-class | 0.001 | 0.000 | 0.002 | |
referencebasedParam | 0.000 | 0.002 | 0.002 | |
rmse | 0.000 | 0.001 | 0.001 | |
rmseTest | 0 | 0 | 0 | |
sce_to_eset | 0.135 | 0.000 | 0.134 | |
sce_to_se | 0.126 | 0.000 | 0.126 | |
se_to_eset | 0.152 | 0.000 | 0.152 | |
se_to_sce | 0.153 | 0.016 | 0.169 | |
show-bisqueParam-method | 0.502 | 0.004 | 0.506 | |
show-cellProportionsPredictions-method | 0 | 0 | 0 | |
show-deconvolutionParam-method | 0 | 0 | 0 | |
show-findmarkersParam-method | 0.593 | 0.012 | 0.604 | |
show-independentbulkParam-method | 0.000 | 0.000 | 0.001 | |
show-nnlsParam-method | 0.002 | 0.000 | 0.002 | |
show-referencebasedParam-method | 0.002 | 0.000 | 0.001 | |
show-typemarkersParam-method | 0.001 | 0.000 | 0.000 | |
sub-sub-deconvolutionParam-ANY-ANY-method | 0 | 0 | 0 | |
sub-sub-typemarkersParam-ANY-ANY-method | 0.000 | 0.000 | 0.001 | |
typemarkers-findmarkersParam-method | 0.537 | 0.008 | 0.546 | |
typemarkers-typemarkersParam-method | 0.000 | 0.000 | 0.001 | |
typemarkers | 0.000 | 0.000 | 0.001 | |
typemarkersParam-class | 0.000 | 0.000 | 0.001 | |
typemarkersParam | 0 | 0 | 0 | |
ypb_from_sce | 0.129 | 0.000 | 0.128 | |
z_matrix_from_sce | 0.130 | 0.000 | 0.129 | |