Back to Multiple platform build/check report for BioC 3.19: simplified long |
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This page was generated on 2024-05-04 11:40:42 -0400 (Sat, 04 May 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 beta (2024-04-15 r86425) -- "Puppy Cup" | 4753 |
palomino3 | Windows Server 2022 Datacenter | x64 | 4.4.0 beta (2024-04-15 r86425 ucrt) -- "Puppy Cup" | 4486 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.0 beta (2024-04-14 r86421) -- "Puppy Cup" | 4519 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.0 beta (2024-04-15 r86425) -- "Puppy Cup" | 4479 |
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 1136/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
M3Drop 1.30.0 (landing page) Tallulah Andrews
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
kjohnson3 | macOS 13.6.5 Ventura / arm64 | see weekly results here | ||||||||||||
To the developers/maintainers of the M3Drop package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/M3Drop.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: M3Drop |
Version: 1.30.0 |
Command: /home/biocbuild/R/R-beta-2024-04-15_r86425/bin/R CMD check --install=check:M3Drop.install-out.txt --library=/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library --no-vignettes --timings M3Drop_1.30.0.tar.gz |
StartedAt: 2024-05-04 08:58:56 -0000 (Sat, 04 May 2024) |
EndedAt: 2024-05-04 09:06:58 -0000 (Sat, 04 May 2024) |
EllapsedTime: 481.9 seconds |
RetCode: 0 |
Status: OK |
CheckDir: M3Drop.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R-beta-2024-04-15_r86425/bin/R CMD check --install=check:M3Drop.install-out.txt --library=/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library --no-vignettes --timings M3Drop_1.30.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/M3Drop.Rcheck’ * using R version 4.4.0 beta (2024-04-15 r86425) * using platform: aarch64-unknown-linux-gnu * R was compiled by gcc (GCC) 10.3.1 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 ‘M3Drop/DESCRIPTION’ ... OK * this is package ‘M3Drop’ version ‘1.30.0’ * 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 ‘M3Drop’ 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 loading without being on the library search path ... OK * checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘scater’ 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 ... NOTE M3DropConvertData: no visible global function definition for ‘assays’ NBumiConvertData: no visible global function definition for ‘assays’ bg__filter_cells: no visible binding for global variable ‘x’ bg__get_extreme_residuals: no visible binding for global variable ‘x’ Undefined global functions or variables: assays x * checking Rd files ... NOTE prepare_Rd: NBumi_FSOther.Rd:8-10: Dropping empty section \usage prepare_Rd: NBumi_TradDE.Rd:7-8: Dropping empty section \usage * 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 Examples with CPU (user + system) or elapsed time > 5s user system elapsed NewSimulations 159.662 0.984 160.972 Imputation 79.137 0.127 79.377 M3D_getmarkers 47.762 0.212 48.075 M3D_ConverData 7.407 0.172 7.601 Brennecke_getVariableGenes 5.282 0.144 5.445 NBumi_CompareModels 5.374 0.052 5.437 * 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: 3 NOTEs See ‘/home/biocbuild/bbs-3.19-bioc/meat/M3Drop.Rcheck/00check.log’ for details.
M3Drop.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R-beta-2024-04-15_r86425/bin/R CMD INSTALL M3Drop ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-beta-2024-04-15_r86425/site-library’ * installing *source* package ‘M3Drop’ ... ** 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 (M3Drop)
M3Drop.Rcheck/M3Drop-Ex.timings
name | user | system | elapsed | |
Brennecke_getVariableGenes | 5.282 | 0.144 | 5.445 | |
Consensus_FS | 1.922 | 0.020 | 1.944 | |
Fitting_Dropout_Models | 0 | 0 | 0 | |
Imputation | 79.137 | 0.127 | 79.377 | |
M3D_Clean_Data | 2.120 | 0.076 | 2.200 | |
M3D_ConverData | 7.407 | 0.172 | 7.601 | |
M3D_Differential_Expression | 1.868 | 0.040 | 1.912 | |
M3D_Dropout_Models | 2.273 | 0.020 | 2.298 | |
M3D_Expression_Heatmap | 0.489 | 0.004 | 0.495 | |
M3D_Get_Extremes | 4.088 | 0.092 | 4.189 | |
M3D_Get_Heatmap_Cell_Clusters | 0.444 | 0.011 | 0.457 | |
M3D_Simulations | 0 | 0 | 0 | |
M3D_Test_Shift | 0.940 | 0.027 | 0.970 | |
M3D_ThreeSet_Venn | 0.266 | 0.008 | 0.275 | |
M3D_TraditionalDE | 0.014 | 0.000 | 0.014 | |
M3D_getmarkers | 47.762 | 0.212 | 48.075 | |
M3D_horz_res | 0 | 0 | 0 | |
NBumi_CheckFit | 2.600 | 0.056 | 2.661 | |
NBumi_CoExpression | 1.914 | 0.031 | 1.949 | |
NBumi_CompareModels | 5.374 | 0.052 | 5.437 | |
NBumi_ConvertToInteger | 0.000 | 0.000 | 0.001 | |
NBumi_ConvrtData | 0.450 | 0.004 | 0.456 | |
NBumi_FSDrop | 2.271 | 0.000 | 2.276 | |
NBumi_FSHighVar | 2.628 | 0.020 | 2.653 | |
NBumi_FSOther | 0.014 | 0.000 | 0.015 | |
NBumi_FitDisp | 0 | 0 | 0 | |
NBumi_FitDispVsMean | 1.441 | 0.000 | 1.444 | |
NBumi_FitModel | 1.854 | 0.008 | 1.866 | |
NBumi_HVG | 2.141 | 0.008 | 2.153 | |
NBumi_PearsonResiduals | 2.816 | 0.019 | 2.842 | |
NBumi_TradDE | 0 | 0 | 0 | |
NewSimulations | 159.662 | 0.984 | 160.972 | |
Other_FS | 3.209 | 0.084 | 3.297 | |
PoissonUMIFeatureSelectionDropouts | 1.661 | 0.056 | 1.720 | |
bg__fit_gamma | 0 | 0 | 0 | |
bg__get_stats | 0 | 0 | 0 | |
bg__mean2disp | 0 | 0 | 0 | |
bg__shift_size | 0 | 0 | 0 | |
bg__var_vs_drop | 0 | 0 | 0 | |