Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-10-03 11:49 -0400 (Thu, 03 Oct 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
teran2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4461 |
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4716 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4466 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4498 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4446 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4445 |
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 1119/2266 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
M3Drop 1.31.0 (landing page) Tallulah Andrews
| teran2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
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 | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | 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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
Package: M3Drop |
Version: 1.31.0 |
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:M3Drop.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings M3Drop_1.31.0.tar.gz |
StartedAt: 2024-10-03 06:31:10 -0000 (Thu, 03 Oct 2024) |
EndedAt: 2024-10-03 06:39:05 -0000 (Thu, 03 Oct 2024) |
EllapsedTime: 474.9 seconds |
RetCode: 0 |
Status: OK |
CheckDir: M3Drop.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD check --install=check:M3Drop.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings M3Drop_1.31.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/M3Drop.Rcheck’ * using R version 4.4.1 (2024-06-14) * using platform: aarch64-unknown-linux-gnu * R was compiled by gcc (GCC) 12.2.1 20220819 (openEuler 12.2.1-14) 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 ‘1.31.0’ * 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 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 155.011 0.647 156.008 Imputation 79.003 0.155 79.278 M3D_getmarkers 48.689 0.147 48.953 M3D_ConverData 7.895 0.136 8.049 NBumi_CompareModels 5.311 0.044 5.364 * 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-3.20-bioc/meat/M3Drop.Rcheck/00check.log’ for details.
M3Drop.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL M3Drop ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.4.1/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 | 4.856 | 0.108 | 4.989 | |
Consensus_FS | 1.890 | 0.004 | 1.897 | |
Fitting_Dropout_Models | 0 | 0 | 0 | |
Imputation | 79.003 | 0.155 | 79.278 | |
M3D_Clean_Data | 2.604 | 0.063 | 2.674 | |
M3D_ConverData | 7.895 | 0.136 | 8.049 | |
M3D_Differential_Expression | 2.608 | 0.032 | 2.646 | |
M3D_Dropout_Models | 1.460 | 0.036 | 1.500 | |
M3D_Expression_Heatmap | 0.451 | 0.008 | 0.461 | |
M3D_Get_Extremes | 4.041 | 0.036 | 4.085 | |
M3D_Get_Heatmap_Cell_Clusters | 0.443 | 0.004 | 0.448 | |
M3D_Simulations | 0 | 0 | 0 | |
M3D_Test_Shift | 0.933 | 0.008 | 0.943 | |
M3D_ThreeSet_Venn | 0.266 | 0.000 | 0.267 | |
M3D_TraditionalDE | 0.012 | 0.000 | 0.012 | |
M3D_getmarkers | 48.689 | 0.147 | 48.953 | |
M3D_horz_res | 0 | 0 | 0 | |
NBumi_CheckFit | 3.262 | 0.092 | 3.359 | |
NBumi_CoExpression | 1.793 | 0.008 | 1.804 | |
NBumi_CompareModels | 5.311 | 0.044 | 5.364 | |
NBumi_ConvertToInteger | 0.001 | 0.000 | 0.000 | |
NBumi_ConvrtData | 0.426 | 0.000 | 0.427 | |
NBumi_FSDrop | 2.140 | 0.024 | 2.168 | |
NBumi_FSHighVar | 2.497 | 0.004 | 2.506 | |
NBumi_FSOther | 0.012 | 0.000 | 0.011 | |
NBumi_FitDisp | 0 | 0 | 0 | |
NBumi_FitDispVsMean | 1.410 | 0.004 | 1.416 | |
NBumi_FitModel | 1.754 | 0.004 | 1.761 | |
NBumi_HVG | 2.025 | 0.000 | 2.029 | |
NBumi_PearsonResiduals | 2.742 | 0.028 | 2.776 | |
NBumi_TradDE | 0 | 0 | 0 | |
NewSimulations | 155.011 | 0.647 | 156.008 | |
Other_FS | 3.128 | 0.040 | 3.173 | |
PoissonUMIFeatureSelectionDropouts | 1.622 | 0.004 | 1.629 | |
bg__fit_gamma | 0.000 | 0.000 | 0.001 | |
bg__get_stats | 0 | 0 | 0 | |
bg__mean2disp | 0 | 0 | 0 | |
bg__shift_size | 0 | 0 | 0 | |
bg__var_vs_drop | 0 | 0 | 0 | |