Back to Multiple platform build/check report for BioC 3.16: simplified long |
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This page was generated on 2023-04-12 11:06:13 -0400 (Wed, 12 Apr 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4502 |
palomino4 | Windows Server 2022 Datacenter | x64 | 4.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" | 4282 |
lconway | macOS 12.5.1 Monterey | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4310 |
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 M3Drop package: - Please 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 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 1068/2183 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
M3Drop 1.24.0 (landing page) Tallulah Andrews
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | WARNINGS | |||||||||
palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | |||||||||
lconway | macOS 12.5.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | |||||||||
Package: M3Drop |
Version: 1.24.0 |
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_1.24.0.tar.gz |
StartedAt: 2023-04-10 20:57:17 -0400 (Mon, 10 Apr 2023) |
EndedAt: 2023-04-10 21:02:32 -0400 (Mon, 10 Apr 2023) |
EllapsedTime: 314.9 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: M3Drop.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### 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_1.24.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.16-bioc/meat/M3Drop.Rcheck’ * using R version 4.2.3 (2023-03-15) * using platform: x86_64-apple-darwin17.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘M3Drop/DESCRIPTION’ ... OK * this is package ‘M3Drop’ version ‘1.24.0’ * 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 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 ... WARNING Package in Depends field not imported from: ‘numDeriv’ These packages need to be imported from (in the NAMESPACE file) for when this namespace is loaded but not attached. Missing or unexported object: ‘scater::exprs’ * 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 112.033 9.908 122.356 Imputation 38.752 0.147 38.986 M3D_getmarkers 28.867 0.641 29.607 * 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: 1 WARNING, 2 NOTEs See ‘/Users/biocbuild/bbs-3.16-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/4.2/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 | 2.906 | 0.203 | 3.118 | |
Consensus_FS | 0.251 | 0.023 | 0.275 | |
Fitting_Dropout_Models | 0.000 | 0.000 | 0.001 | |
Imputation | 38.752 | 0.147 | 38.986 | |
M3D_Clean_Data | 1.638 | 0.124 | 1.768 | |
M3D_ConverData | 4.341 | 0.191 | 4.561 | |
M3D_Differential_Expression | 1.166 | 0.055 | 1.225 | |
M3D_Dropout_Models | 1.382 | 0.072 | 1.458 | |
M3D_Expression_Heatmap | 0.523 | 0.011 | 0.537 | |
M3D_Get_Extremes | 1.405 | 0.134 | 1.544 | |
M3D_Get_Heatmap_Cell_Clusters | 0.437 | 0.009 | 0.447 | |
M3D_Simulations | 0.000 | 0.000 | 0.001 | |
M3D_Test_Shift | 0.446 | 0.039 | 0.487 | |
M3D_ThreeSet_Venn | 0.335 | 0.008 | 0.344 | |
M3D_TraditionalDE | 0.014 | 0.000 | 0.014 | |
M3D_getmarkers | 28.867 | 0.641 | 29.607 | |
M3D_horz_res | 0 | 0 | 0 | |
NBumi_CheckFit | 1.777 | 0.132 | 1.915 | |
NBumi_CoExpression | 0.618 | 0.108 | 0.725 | |
NBumi_CompareModels | 2.284 | 0.171 | 2.463 | |
NBumi_ConvertToInteger | 0.001 | 0.000 | 0.001 | |
NBumi_ConvrtData | 0.343 | 0.014 | 0.358 | |
NBumi_FSDrop | 1.382 | 0.094 | 1.479 | |
NBumi_FSHighVar | 0.661 | 0.090 | 0.781 | |
NBumi_FSOther | 0.013 | 0.001 | 0.014 | |
NBumi_FitDisp | 0.000 | 0.001 | 0.001 | |
NBumi_FitDispVsMean | 0.449 | 0.014 | 0.465 | |
NBumi_FitModel | 1.171 | 0.082 | 1.260 | |
NBumi_HVG | 0.771 | 0.081 | 0.855 | |
NBumi_TradDE | 0.000 | 0.001 | 0.000 | |
NewSimulations | 112.033 | 9.908 | 122.356 | |
Other_FS | 1.065 | 0.016 | 1.084 | |
PoissonUMIFeatureSelectionDropouts | 0.558 | 0.011 | 0.571 | |
bg__fit_gamma | 0 | 0 | 0 | |
bg__get_stats | 0 | 0 | 0 | |
bg__mean2disp | 0 | 0 | 0 | |
bg__shift_size | 0.000 | 0.001 | 0.000 | |
bg__var_vs_drop | 0 | 0 | 0 | |