Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-07-24 11:41 -0400 (Wed, 24 Jul 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" | 4688 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4284 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4455 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4404 |
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 1109/2248 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
M3Drop 1.31.0 (landing page) Tallulah Andrews
| 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 | ![]() | ||||||||
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. |
Package: M3Drop |
Version: 1.31.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:M3Drop.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings M3Drop_1.31.0.tar.gz |
StartedAt: 2024-07-23 22:14:13 -0400 (Tue, 23 Jul 2024) |
EndedAt: 2024-07-23 22:20:31 -0400 (Tue, 23 Jul 2024) |
EllapsedTime: 378.3 seconds |
RetCode: 0 |
Status: OK |
CheckDir: M3Drop.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:M3Drop.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings M3Drop_1.31.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/M3Drop.Rcheck’ * using R version 4.4.1 (2024-06-14) * using platform: x86_64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Monterey 12.7.1 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘M3Drop/DESCRIPTION’ ... OK * this is package ‘M3Drop’ version ‘1.31.0’ * 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 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 sizes of PDF files under ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed NewSimulations 124.780 1.537 127.206 Imputation 43.886 0.199 44.271 M3D_getmarkers 41.634 0.608 42.611 M3D_ConverData 6.936 0.265 7.238 * 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 ‘/Users/biocbuild/bbs-3.20-bioc/meat/M3Drop.Rcheck/00check.log’ for details.
M3Drop.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL M3Drop ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/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 | 3.722 | 0.247 | 4.026 | |
Consensus_FS | 0.331 | 0.029 | 0.361 | |
Fitting_Dropout_Models | 0.000 | 0.000 | 0.001 | |
Imputation | 43.886 | 0.199 | 44.271 | |
M3D_Clean_Data | 1.583 | 0.119 | 1.721 | |
M3D_ConverData | 6.936 | 0.265 | 7.238 | |
M3D_Differential_Expression | 1.936 | 0.079 | 2.030 | |
M3D_Dropout_Models | 1.678 | 0.088 | 1.779 | |
M3D_Expression_Heatmap | 0.606 | 0.017 | 0.629 | |
M3D_Get_Extremes | 1.605 | 0.140 | 1.761 | |
M3D_Get_Heatmap_Cell_Clusters | 0.526 | 0.011 | 0.541 | |
M3D_Simulations | 0.000 | 0.000 | 0.001 | |
M3D_Test_Shift | 1.219 | 0.076 | 1.325 | |
M3D_ThreeSet_Venn | 0.385 | 0.010 | 0.401 | |
M3D_TraditionalDE | 0.016 | 0.002 | 0.017 | |
M3D_getmarkers | 41.634 | 0.608 | 42.611 | |
M3D_horz_res | 0.000 | 0.000 | 0.001 | |
NBumi_CheckFit | 2.209 | 0.106 | 2.331 | |
NBumi_CoExpression | 0.883 | 0.060 | 0.953 | |
NBumi_CompareModels | 2.869 | 0.164 | 3.064 | |
NBumi_ConvertToInteger | 0.000 | 0.001 | 0.001 | |
NBumi_ConvrtData | 0.477 | 0.022 | 0.503 | |
NBumi_FSDrop | 1.098 | 0.046 | 1.161 | |
NBumi_FSHighVar | 0.855 | 0.076 | 0.964 | |
NBumi_FSOther | 0.016 | 0.001 | 0.017 | |
NBumi_FitDisp | 0.000 | 0.000 | 0.001 | |
NBumi_FitDispVsMean | 0.601 | 0.024 | 0.632 | |
NBumi_FitModel | 1.425 | 0.054 | 1.488 | |
NBumi_HVG | 0.890 | 0.059 | 0.967 | |
NBumi_PearsonResiduals | 0.901 | 0.067 | 0.975 | |
NBumi_TradDE | 0.001 | 0.000 | 0.000 | |
NewSimulations | 124.780 | 1.537 | 127.206 | |
Other_FS | 1.223 | 0.038 | 1.264 | |
PoissonUMIFeatureSelectionDropouts | 1.494 | 0.210 | 1.719 | |
bg__fit_gamma | 0 | 0 | 0 | |
bg__get_stats | 0.000 | 0.001 | 0.000 | |
bg__mean2disp | 0 | 0 | 0 | |
bg__shift_size | 0 | 0 | 0 | |
bg__var_vs_drop | 0 | 0 | 0 | |