Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-12-23 12:04 -0500 (Mon, 23 Dec 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4744 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4487 |
merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4515 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4467 |
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 1125/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
lute 1.2.0 (landing page) Sean K Maden
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson1 | macOS 13.6.6 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: 1.2.0 |
Command: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:lute.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings lute_1.2.0.tar.gz |
StartedAt: 2024-12-20 01:56:51 -0500 (Fri, 20 Dec 2024) |
EndedAt: 2024-12-20 02:03:55 -0500 (Fri, 20 Dec 2024) |
EllapsedTime: 424.4 seconds |
RetCode: 0 |
Status: OK |
CheckDir: lute.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:lute.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings lute_1.2.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/lute.Rcheck’ * using R version 4.4.2 (2024-10-31) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 * running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * checking for file ‘lute/DESCRIPTION’ ... OK * this is package ‘lute’ version ‘1.2.0’ * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib: cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES' 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 re-building of vignette outputs ... OK * 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/bbs-3.20-bioc/R/bin/R CMD INSTALL lute ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.20-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 | 2.254 | 0.067 | 2.322 | |
bisqueParam | 1.500 | 0.079 | 1.579 | |
cellProportionsPredictions-class | 0.011 | 0.000 | 0.011 | |
cellProportionsPredictions | 0 | 0 | 0 | |
deconvolution-bisqueParam-method | 1.008 | 0.032 | 1.039 | |
deconvolution-deconvolutionParam-method | 0 | 0 | 0 | |
deconvolution-independentbulkParam-method | 0.000 | 0.001 | 0.001 | |
deconvolution-nnlsParam-method | 0.009 | 0.001 | 0.009 | |
deconvolution-referencebasedParam-method | 0.002 | 0.000 | 0.002 | |
deconvolution | 0.002 | 0.000 | 0.003 | |
deconvolutionParam-class | 0 | 0 | 0 | |
eset_to_sce | 0.381 | 0.001 | 0.382 | |
eset_to_se | 0.302 | 0.001 | 0.302 | |
findmarkersParam-class | 0.570 | 0.034 | 0.603 | |
findmarkersParam | 1.000 | 0.159 | 1.160 | |
getDeconvolutionExampleData | 0.001 | 0.000 | 0.000 | |
getDeconvolutionExampleDataBisque | 0.287 | 0.002 | 0.289 | |
getDeconvolutionExampleDataSCDC | 0.091 | 0.000 | 0.090 | |
get_celltypes_from_sce | 0.001 | 0.000 | 0.000 | |
get_csf_reference | 0.000 | 0.000 | 0.001 | |
get_eset_from_matrix | 0 | 0 | 0 | |
independentbulkParam-class | 0.001 | 0.000 | 0.000 | |
independentbulkParam | 0.000 | 0.000 | 0.001 | |
lute | 0.092 | 0.000 | 0.093 | |
luteSupportedDeconvolutionAlgorithms | 0.004 | 0.000 | 0.005 | |
new_workflow_table | 0.000 | 0.000 | 0.001 | |
nnlsParam-class | 0.004 | 0.000 | 0.004 | |
nnlsParam | 0.004 | 0.000 | 0.003 | |
parseDeconvolutionPredictionsResults | 0 | 0 | 0 | |
proportionsVectorsList | 0.000 | 0.000 | 0.001 | |
randomMarkersVectorsList | 0.001 | 0.000 | 0.000 | |
randomSingleCellExperiment | 0.044 | 0.000 | 0.043 | |
referenceFromSingleCellExperiment | 0 | 0 | 0 | |
referencebasedParam-class | 0.001 | 0.000 | 0.001 | |
referencebasedParam | 0.001 | 0.000 | 0.001 | |
rmse | 0.000 | 0.000 | 0.001 | |
rmseTest | 0 | 0 | 0 | |
sce_to_eset | 0.071 | 0.000 | 0.071 | |
sce_to_se | 0.059 | 0.000 | 0.059 | |
se_to_eset | 0.079 | 0.000 | 0.078 | |
se_to_sce | 0.069 | 0.000 | 0.069 | |
show-bisqueParam-method | 0.360 | 0.010 | 0.371 | |
show-cellProportionsPredictions-method | 0 | 0 | 0 | |
show-deconvolutionParam-method | 0 | 0 | 0 | |
show-findmarkersParam-method | 0.463 | 0.044 | 0.508 | |
show-independentbulkParam-method | 0.000 | 0.000 | 0.001 | |
show-nnlsParam-method | 0.001 | 0.000 | 0.001 | |
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 | 0 | 0 | |
typemarkers-findmarkersParam-method | 0.437 | 0.000 | 0.437 | |
typemarkers-typemarkersParam-method | 0.000 | 0.000 | 0.001 | |
typemarkers | 0.001 | 0.000 | 0.000 | |
typemarkersParam-class | 0 | 0 | 0 | |
typemarkersParam | 0 | 0 | 0 | |
ypb_from_sce | 0.063 | 0.000 | 0.063 | |
z_matrix_from_sce | 0.056 | 0.000 | 0.058 | |