| 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 11:06:02 -0400 (Wed, 12 Apr 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs | 
|---|---|---|---|---|
| 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 cellmigRation package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/cellmigRation.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 280/2183 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| cellmigRation 1.6.0  (landing page) Waldir Leoncio 
  | nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK | |||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
| lconway | macOS 12.5.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
| Package: cellmigRation | 
| Version: 1.6.0 | 
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:cellmigRation.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings cellmigRation_1.6.0.tar.gz | 
| StartedAt: 2023-04-10 19:17:13 -0400 (Mon, 10 Apr 2023) | 
| EndedAt: 2023-04-10 19:19:12 -0400 (Mon, 10 Apr 2023) | 
| EllapsedTime: 118.4 seconds | 
| RetCode: 0 | 
| Status: OK | 
| CheckDir: cellmigRation.Rcheck | 
| Warnings: 0 | 
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:cellmigRation.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings cellmigRation_1.6.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.16-bioc/meat/cellmigRation.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 ‘cellmigRation/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘cellmigRation’ version ‘1.6.0’ * 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 for sufficient/correct file permissions ... OK * checking whether package ‘cellmigRation’ 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking data for ASCII and uncompressed saves ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘runTests.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
cellmigRation.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL cellmigRation ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.2/Resources/library’ * installing *source* package ‘cellmigRation’ ... ** using staged installation ** R ** data ** 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 (cellmigRation)
cellmigRation.Rcheck/tests/runTests.Rout
R version 4.2.3 (2023-03-15) -- "Shortstop Beagle"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin17.0 (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.
> BiocGenerics:::testPackage("cellmigRation")
RUNIT TEST PROTOCOL -- Mon Apr 10 19:19:02 2023 
*********************************************** 
Number of test functions: 7 
Number of errors: 0 
Number of failures: 0 
 
1 Test Suite : 
cellmigRation RUnit Tests - 7 test functions, 0 errors, 0 failures
Number of test functions: 7 
Number of errors: 0 
Number of failures: 0 
> 
> proc.time()
   user  system elapsed 
  2.866   0.281   3.163 
cellmigRation.Rcheck/cellmigRation-Ex.timings
| name | user | system | elapsed | |
| AddDimension | 0.002 | 0.001 | 0.003 | |
| CellMig-class | 0.022 | 0.002 | 0.025 | |
| CellMigPCA | 1.385 | 0.026 | 1.416 | |
| CellMigPCAclust | 0.006 | 0.001 | 0.007 | |
| CellMigPCAclustALL | 0.562 | 0.041 | 0.605 | |
| CellTracker | 0.018 | 0.004 | 0.022 | |
| CellTrackerMainLoop | 0.005 | 0.006 | 0.020 | |
| CentroidArray | 0.016 | 0.002 | 0.019 | |
| CentroidValidation | 0.366 | 0.013 | 0.379 | |
| ComputeTracksStats | 0.023 | 0.002 | 0.026 | |
| DetectRadii | 0.002 | 0.000 | 0.004 | |
| DiAutoCor | 1.172 | 0.016 | 1.195 | |
| DiRatio | 0.013 | 0.001 | 0.014 | |
| DiRatioPlot | 0.033 | 0.013 | 0.049 | |
| EstimateDiameterRange | 0.013 | 0.002 | 0.015 | |
| FMI | 0.386 | 0.006 | 0.393 | |
| FianlizeOptiParams | 0.000 | 0.000 | 0.001 | |
| FilterTrackedCells | 0.001 | 0.001 | 0.002 | |
| FinRes | 0.480 | 0.011 | 0.494 | |
| ForwardMigration | 0.769 | 0.009 | 0.781 | |
| GenAllCombos | 0.003 | 0.000 | 0.003 | |
| LinearConv2 | 0.016 | 0.001 | 0.018 | |
| LoadTiff | 0.001 | 0.000 | 0.001 | |
| MSD | 1.196 | 0.025 | 1.227 | |
| MakeHypercube | 0.001 | 0.000 | 0.001 | |
| MigrationStats | 0.001 | 0.001 | 0.001 | |
| NextOdd | 0 | 0 | 0 | |
| NonParallel4OptimizeParams | 0.000 | 0.001 | 0.001 | |
| NonParallelTrackLoop | 0.000 | 0.000 | 0.001 | |
| OptimizeParams | 0.014 | 0.002 | 0.015 | |
| OptimizeParamsMainLoop | 0.004 | 0.005 | 0.022 | |
| Parallel4OptimizeParams | 0.001 | 0.000 | 0.001 | |
| ParallelTrackLoop | 0.000 | 0.000 | 0.001 | |
| PerAndSpeed | 0.248 | 0.023 | 0.277 | |
| PlotTracksSeparately | 0.008 | 0.001 | 0.010 | |
| PostProcessTracking | 0.001 | 0.001 | 0.000 | |
| Prep4OptimizeParams | 0.074 | 0.005 | 0.079 | |
| ThreeConditions | 0.010 | 0.003 | 0.012 | |
| TrackCellsDataset | 0.013 | 0.002 | 0.015 | |
| TrajectoryDataset | 0.028 | 0.004 | 0.033 | |
| ValidateTrackingArgs | 0 | 0 | 0 | |
| VeAutoCor | 0.829 | 0.013 | 0.843 | |
| VisualizeCntr | 0.002 | 0.001 | 0.002 | |
| VisualizeImg | 0.005 | 0.001 | 0.006 | |
| VisualizeStackCentroids | 0.043 | 0.006 | 0.048 | |
| WSADataset | 0.007 | 0.001 | 0.009 | |
| aggregateFR | 0.625 | 0.006 | 0.633 | |
| aggregateTrackedCells | 0.019 | 0.004 | 0.022 | |
| bpass | 0.063 | 0.002 | 0.066 | |
| circshift | 0.001 | 0.000 | 0.001 | |
| cntrd | 0.608 | 0.013 | 0.624 | |
| fixDA | 0.001 | 0.000 | 0.001 | |
| fixExpName | 0.001 | 0.000 | 0.001 | |
| fixFM1 | 0.000 | 0.001 | 0.000 | |
| fixFM2 | 0 | 0 | 0 | |
| fixFM3 | 0.001 | 0.001 | 0.001 | |
| fixFM4 | 0 | 0 | 0 | |
| fixFM5 | 0.000 | 0.001 | 0.000 | |
| fixFM6 | 0 | 0 | 0 | |
| fixID1 | 0 | 0 | 0 | |
| fixMSD | 0.000 | 0.000 | 0.001 | |
| fixPER1 | 0 | 0 | 0 | |
| fixPER2 | 0.001 | 0.001 | 0.000 | |
| fixPER3 | 0 | 0 | 0 | |
| getAvailableAggrMetrics | 0.777 | 0.008 | 0.786 | |
| getCellImages | 0.244 | 0.842 | 1.095 | |
| getCellMigSlot | 0.313 | 0.492 | 0.811 | |
| getCellTrackMeta | 0.012 | 0.002 | 0.014 | |
| getCellTrackStats | 0.017 | 0.003 | 0.020 | |
| getCellTracks | 0.028 | 0.004 | 0.032 | |
| getCellsMeta | 0.014 | 0.002 | 0.016 | |
| getCellsStats | 0.014 | 0.002 | 0.016 | |
| getDACtable | 1.543 | 0.013 | 1.558 | |
| getDiRatio | 0.013 | 0.001 | 0.015 | |
| getFMItable | 0.393 | 0.004 | 0.398 | |
| getForMigtable | 0.685 | 0.006 | 0.692 | |
| getImageCentroids | 0.019 | 0.003 | 0.021 | |
| getImageStacks | 0.041 | 0.007 | 0.049 | |
| getMSDtable | 2.948 | 0.030 | 2.990 | |
| getOptimizedParameters | 0.012 | 0.002 | 0.014 | |
| getOptimizedParams | 0.014 | 0.001 | 0.015 | |
| getPerAndSpeed | 0.263 | 0.025 | 0.295 | |
| getPopulationStats | 0.016 | 0.001 | 0.018 | |
| getProcessedImages | 0.223 | 0.792 | 1.022 | |
| getProcessingStatus | 0.012 | 0.001 | 0.013 | |
| getResults | 0.510 | 0.015 | 0.530 | |
| getTracks | 0.016 | 0.002 | 0.019 | |
| getVACtable | 0.865 | 0.007 | 0.875 | |
| initializeTrackParams | 0.000 | 0.000 | 0.001 | |
| innerBondRaster | 0.001 | 0.000 | 0.002 | |
| internalPermutation | 0.000 | 0.000 | 0.001 | |
| matfix | 0.000 | 0.000 | 0.001 | |
| nontrivialBondTracking | 0.001 | 0.000 | 0.001 | |
| pkfnd | 0.590 | 0.013 | 0.607 | |
| plot3DAllTracks | 0.001 | 0.000 | 0.001 | |
| plot3DTracks | 0 | 0 | 0 | |
| plotAllTracks | 0.017 | 0.003 | 0.020 | |
| plotSampleTracks | 0.014 | 0.003 | 0.017 | |
| preProcCellMig | 0.008 | 0.001 | 0.009 | |
| rmPreProcessing | 0.091 | 0.004 | 0.095 | |
| runTrackingPermutation | 0.001 | 0.000 | 0.001 | |
| setAnalyticParams | 0.011 | 0.001 | 0.013 | |
| setCellMigSlot | 0.017 | 0.001 | 0.018 | |
| setCellTracks | 0.012 | 0.002 | 0.015 | |
| setCellsMeta | 0.012 | 0.001 | 0.014 | |
| setExpName | 0.018 | 0.001 | 0.019 | |
| setOptimizedParams | 0.012 | 0.002 | 0.014 | |
| setProcessedImages | 0.012 | 0.002 | 0.014 | |
| setProcessingStatus | 0.013 | 0.002 | 0.014 | |
| setTrackedCellsMeta | 0.012 | 0.002 | 0.014 | |
| setTrackedCentroids | 0.012 | 0.002 | 0.014 | |
| setTrackedPositions | 0.012 | 0.002 | 0.014 | |
| setTrackingStats | 0.012 | 0.002 | 0.014 | |
| sinkAway | 0.000 | 0.000 | 0.001 | |
| subNetworkTracking | 0.001 | 0.000 | 0.001 | |
| track | 0.008 | 0.001 | 0.007 | |
| trackHypercubeBuild | 0.001 | 0.000 | 0.001 | |
| trackSlideProcessing | 0.001 | 0.000 | 0.000 | |
| trackSlideWrapUp | 0.000 | 0.000 | 0.001 | |
| trivialBondRaster | 0.001 | 0.001 | 0.002 | |
| trivialBondTracking | 0.001 | 0.000 | 0.000 | |
| visualizeCellTracks | 0.054 | 0.015 | 0.069 | |
| visualizeTrcks | 0.024 | 0.002 | 0.027 | |
| warnMessage | 0.001 | 0.000 | 0.001 | |
| wsaPreProcessing | 0.049 | 0.001 | 0.050 | |