| Back to Multiple platform build/check report for BioC 3.15 |
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This page was generated on 2022-10-19 13:21:21 -0400 (Wed, 19 Oct 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.1 (2022-06-23) -- "Funny-Looking Kid" | 4386 |
| palomino3 | Windows Server 2022 Datacenter | x64 | 4.2.1 (2022-06-23 ucrt) -- "Funny-Looking Kid" | 4138 |
| merida1 | macOS 10.14.6 Mojave | x86_64 | 4.2.1 (2022-06-23) -- "Funny-Looking Kid" | 4205 |
| 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 | ||||
|
To the developers/maintainers of the CyTOFpower package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/CyTOFpower.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 456/2140 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| CyTOFpower 1.2.0 (landing page) Anne-Maud Ferreira
| nebbiolo1 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK |  | ||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK |  | ||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: CyTOFpower |
| Version: 1.2.0 |
| Command: F:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:CyTOFpower.install-out.txt --library=F:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings CyTOFpower_1.2.0.tar.gz |
| StartedAt: 2022-10-18 23:22:41 -0400 (Tue, 18 Oct 2022) |
| EndedAt: 2022-10-18 23:24:11 -0400 (Tue, 18 Oct 2022) |
| EllapsedTime: 90.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: CyTOFpower.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:CyTOFpower.install-out.txt --library=F:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings CyTOFpower_1.2.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'F:/biocbuild/bbs-3.15-bioc/meat/CyTOFpower.Rcheck' * using R version 4.2.1 (2022-06-23 ucrt) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: UTF-8 * using option '--no-vignettes' * checking for file 'CyTOFpower/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'CyTOFpower' version '1.2.0' * 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 whether package 'CyTOFpower' 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 R 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 ... 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 'testthat.R' OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes in 'inst/doc' ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: OK
CyTOFpower.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL CyTOFpower ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.15-bioc/R/library' * installing *source* package 'CyTOFpower' ... ** 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 (CyTOFpower)
CyTOFpower.Rcheck/tests/testthat.Rout
R version 4.2.1 (2022-06-23 ucrt) -- "Funny-Looking Kid"
Copyright (C) 2022 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)
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.
> library(testthat)
> library(CyTOFpower)
>
> test_check("CyTOFpower")
[[1]]
marker_name nb_donor rho subject_effect mu0 dispersion nb_cell_per_sample
1 m1 3 1 0.1 10 3 1
[[2]]
marker_name nb_donor rho subject_effect mu0 dispersion nb_cell_per_sample
1 m2 3 1.1 0.1 10 3 1
marker_name nb_donor rho subject_effect mu0 dispersion nb_cell_per_sample
1 m1 3 1.0 0.1 10 3 3
2 m2 3 1.1 0.1 10 3 3
3 m3 3 1.0 0.1 10 3 3
marker_name nb_donor rho subject_effect mu0 dispersion nb_cell_per_sample
1 m1 3 1.0 0.1 10 3 3
2 m2 3 1.1 0.1 10 3 3
3 m3 3 1.0 0.1 10 3 3
marker_name nb_donor rho subject_effect mu0 dispersion nb_cell_per_sample
1 m1 3 1.0 0.1 10 3 3
2 m2 3 1.1 0.1 10 3 3
3 m3 3 1.0 0.1 10 3 3
[[1]]
marker_name nb_donor rho subject_effect mu0 dispersion nb_cell_per_sample
1 m1 3 1 0.1 10 3 3
[[2]]
marker_name nb_donor rho subject_effect mu0 dispersion nb_cell_per_sample
1 m2 3 1.1 0.1 10 3 3
[[3]]
marker_name nb_donor rho subject_effect mu0 dispersion nb_cell_per_sample
1 m3 3 1 0.1 10 3 3
[[1]]
marker_name nb_donor rho subject_effect mu0 dispersion nb_cell_per_sample
1 m1 3 1 0.1 10 3 3
[[2]]
marker_name nb_donor rho subject_effect mu0 dispersion nb_cell_per_sample
1 m2 3 1.1 0.1 10 3 3
[[3]]
marker_name nb_donor rho subject_effect mu0 dispersion nb_cell_per_sample
1 m3 3 1 0.1 10 3 3
[[1]]
marker_name nb_donor rho subject_effect mu0 dispersion nb_cell_per_sample
1 m1 3 1 0.1 10 3 3
[[2]]
marker_name nb_donor rho subject_effect mu0 dispersion nb_cell_per_sample
1 m2 3 1.1 0.1 10 3 3
[[3]]
marker_name nb_donor rho subject_effect mu0 dispersion nb_cell_per_sample
1 m3 3 1 0.1 10 3 3
Joining, by = "markers"
Joining, by = "markers"
boundary (singular) fit: see help('isSingular')
Fitting linear models with random effects term for 'block_id'.
boundary (singular) fit: see help('isSingular')
Run the limma model with random effect
Fitting linear models with random effects term for 'block_id'.
Run the limma model with fixed effect
Run the LMM model with random effect
boundary (singular) fit: see help('isSingular')
marker_name nb_donor rho subject_effect mu0 dispersion nb_cell_per_sample
1 m1 3 1.0 0.1 10 3 3
2 m2 3 1.1 0.1 10 3 3
3 m3 3 1.0 0.1 10 3 3
marker_name nb_donor rho subject_effect mu0 dispersion nb_cell_per_sample
1 m1 3 1.0 0.1 10 3 3
2 m2 3 1.1 0.1 10 3 3
3 m3 3 1.0 0.1 10 3 3
Run the limma model with random effect
Fitting linear models with random effects term for 'block_id'.
marker_name nb_donor rho subject_effect mu0 dispersion nb_cell_per_sample
1 m1 3 1.0 0.1 10 3 3
2 m2 3 1.1 0.1 10 3 3
3 m3 3 1.0 0.1 10 3 3
Run the limma model with fixed effect
marker_name nb_donor rho subject_effect mu0 dispersion nb_cell_per_sample
1 m1 3 1.0 0.1 10 3 3
2 m2 3 1.1 0.1 10 3 3
3 m3 3 1.0 0.1 10 3 3
Run the LMM model with random effect
boundary (singular) fit: see help('isSingular')
Run the LMM model with random effect
boundary (singular) fit: see help('isSingular')
[ FAIL 0 | WARN 30 | SKIP 0 | PASS 69 ]
[ FAIL 0 | WARN 30 | SKIP 0 | PASS 69 ]
>
> proc.time()
user system elapsed
20.25 1.92 27.14
CyTOFpower.Rcheck/CyTOFpower-Ex.timings
| name | user | system | elapsed | |
| CyTOFpower | 0 | 0 | 0 | |