Back to Multiple platform build/check report for BioC 3.15
AB[C]DEFGHIJKLMNOPQRSTUVWXYZ

This page was generated on 2022-01-21 11:07:10 -0500 (Fri, 21 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 20.04.4 LTS)x86_64R Under development (unstable) (2022-01-05 r81451) -- "Unsuffered Consequences" 4163
riesling1Windows Server 2019 Standardx64R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" 4058
palomino3Windows Server 2022 Datacenterx64R Under development (unstable) (2021-12-21 r81400 ucrt) -- "Unsuffered Consequences" 4000
merida1macOS 10.14.6 Mojavex86_64R Under development (unstable) (2022-01-05 r81451) -- "Unsuffered Consequences" 4117
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

CHECK results for cellmigRation on riesling1


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? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 267/2075HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
cellmigRation 1.3.0  (landing page)
Waldir Leoncio
Snapshot Date: 2022-01-20 13:55:17 -0500 (Thu, 20 Jan 2022)
git_url: https://git.bioconductor.org/packages/cellmigRation
git_branch: master
git_last_commit: 71dc596
git_last_commit_date: 2021-10-26 13:08:41 -0500 (Tue, 26 Oct 2021)
nebbiolo1Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
riesling1Windows Server 2019 Standard / x64  OK    OK    OK    OK  
palomino3Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: cellmigRation
Version: 1.3.0
Command: D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:cellmigRation.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings cellmigRation_1.3.0.tar.gz
StartedAt: 2022-01-20 18:26:42 -0500 (Thu, 20 Jan 2022)
EndedAt: 2022-01-20 18:28:34 -0500 (Thu, 20 Jan 2022)
EllapsedTime: 112.0 seconds
RetCode: 0
Status:   OK  
CheckDir: cellmigRation.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:cellmigRation.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings cellmigRation_1.3.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbuild/bbs-3.15-bioc/meat/cellmigRation.Rcheck'
* using R Under development (unstable) (2021-11-21 r81221)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'cellmigRation/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'cellmigRation' version '1.3.0'
* 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 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


Installation output

cellmigRation.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL cellmigRation
###
##############################################################################
##############################################################################


* installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library'
* installing *source* package 'cellmigRation' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'cellmigRation'
    finding HTML links ... done
    AddDimension                            html  
    CellMig-class                           html  
    CellMigPCA                              html  
    CellMigPCAclust                         html  
    CellMigPCAclustALL                      html  
    CellTracker                             html  
    CellTrackerMainLoop                     html  
    CentroidArray                           html  
    CentroidValidation                      html  
    ComputeTracksStats                      html  
    DetectRadii                             html  
    DiAutoCor                               html  
    DiRatio                                 html  
    DiRatioPlot                             html  
    EstimateDiameterRange                   html  
    FMI                                     html  
    FianlizeOptiParams                      html  
    FilterTrackedCells                      html  
    FinRes                                  html  
    ForwardMigration                        html  
    GenAllCombos                            html  
    LinearConv2                             html  
    LoadTiff                                html  
    MSD                                     html  
    MakeHypercube                           html  
    MigrationStats                          html  
    NextOdd                                 html  
    NonParallel4OptimizeParams              html  
    NonParallelTrackLoop                    html  
    OptimizeParams                          html  
    OptimizeParamsMainLoop                  html  
    Parallel4OptimizeParams                 html  
    ParallelTrackLoop                       html  
    PerAndSpeed                             html  
    PlotTracksSeparately                    html  
    PostProcessTracking                     html  
    Prep4OptimizeParams                     html  
    ThreeConditions                         html  
    TrackCellsDataset                       html  
    TrajectoryDataset                       html  
    ValidateTrackingArgs                    html  
    VeAutoCor                               html  
    VisualizeCntr                           html  
    VisualizeImg                            html  
    VisualizeStackCentroids                 html  
    WSADataset                              html  
    aggregateFR                             html  
    aggregateTrackedCells                   html  
    bpass                                   html  
    cellmigRation-package                   html  
    circshift                               html  
    cntrd                                   html  
    fixDA                                   html  
    fixExpName                              html  
    fixFM1                                  html  
    fixFM2                                  html  
    fixFM3                                  html  
    fixFM4                                  html  
    fixFM5                                  html  
    fixFM6                                  html  
    fixID1                                  html  
    fixID2                                  html  
    fixID3                                  html  
    fixID4                                  html  
    fixID5                                  html  
    fixID6                                  html  
    fixMSD                                  html  
    fixPER1                                 html  
    fixPER2                                 html  
    fixPER3                                 html  
    getAvailableAggrMetrics                 html  
    getCellImages                           html  
    getCellMigSlot                          html  
    getCellTrackMeta                        html  
    getCellTrackStats                       html  
    getCellTracks                           html  
    getCellsMeta                            html  
    getCellsStats                           html  
    getDACtable                             html  
    getDiRatio                              html  
    getFMItable                             html  
    getForMigtable                          html  
    getImageCentroids                       html  
    getImageStacks                          html  
    getMSDtable                             html  
    getOptimizedParameters                  html  
    getOptimizedParams                      html  
    getPerAndSpeed                          html  
    getPopulationStats                      html  
    getProcessedImages                      html  
    getProcessingStatus                     html  
    getResults                              html  
    getTracks                               html  
    getVACtable                             html  
    initializeTrackParams                   html  
    innerBondRaster                         html  
    internalPermutation                     html  
    matfix                                  html  
    nontrivialBondTracking                  html  
    pkfnd                                   html  
    plot3DAllTracks                         html  
    plot3DTracks                            html  
    plotAllTracks                           html  
    plotSampleTracks                        html  
    preProcCellMig                          html  
    rmPreProcessing                         html  
    runTrackingPermutation                  html  
    setAnalyticParams                       html  
    setCellMigSlot                          html  
    setCellTracks                           html  
    setCellsMeta                            html  
    setExpName                              html  
    setOptimizedParams                      html  
    setProcessedImages                      html  
    setProcessingStatus                     html  
    setTrackedCellsMeta                     html  
    setTrackedCentroids                     html  
    setTrackedPositions                     html  
    setTrackingStats                        html  
    sinkAway                                html  
    subNetworkTracking                      html  
    track                                   html  
    trackHypercubeBuild                     html  
    trackSlideProcessing                    html  
    trackSlideWrapUp                        html  
    trackedCells-class                      html  
    trivialBondRaster                       html  
    trivialBondTracking                     html  
    visualizeCellTracks                     html  
    visualizeTrcks                          html  
    warnMessage                             html  
    wsaPreProcessing                        html  
** 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)
Making 'packages.html' ... done

Tests output

cellmigRation.Rcheck/tests/runTests.Rout


R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (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 -- Thu Jan 20 18:28:21 2022 
*********************************************** 
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 
   3.35    0.48    3.82 

Example timings

cellmigRation.Rcheck/cellmigRation-Ex.timings

nameusersystemelapsed
AddDimension0.020.000.02
CellMig-class0.010.000.01
CellMigPCA1.130.081.20
CellMigPCAclust0.010.000.02
CellMigPCAclustALL0.470.000.47
CellTracker0.020.010.03
CellTrackerMainLoop000
CentroidArray0.010.000.01
CentroidValidation0.310.040.35
ComputeTracksStats0.020.010.03
DetectRadii000
DiAutoCor0.980.021.00
DiRatio0.000.010.01
DiRatioPlot0.030.020.11
EstimateDiameterRange0.020.000.02
FMI0.440.010.45
FianlizeOptiParams000
FilterTrackedCells000
FinRes0.470.040.50
ForwardMigration0.900.010.92
GenAllCombos000
LinearConv20.020.000.02
LoadTiff000
MSD1.090.001.09
MakeHypercube000
MigrationStats000
NextOdd000
NonParallel4OptimizeParams000
NonParallelTrackLoop000
OptimizeParams0.000.020.02
OptimizeParamsMainLoop000
Parallel4OptimizeParams000
ParallelTrackLoop000
PerAndSpeed0.250.030.28
PlotTracksSeparately0.020.000.02
PostProcessTracking000
Prep4OptimizeParams0.080.000.07
ThreeConditions0.000.010.02
TrackCellsDataset0.000.020.02
TrajectoryDataset0.010.000.02
ValidateTrackingArgs000
VeAutoCor0.940.020.95
VisualizeCntr0.010.000.02
VisualizeImg000
VisualizeStackCentroids0.080.000.07
WSADataset0.000.020.02
aggregateFR0.50.00.5
aggregateTrackedCells0.030.000.03
bpass0.080.000.08
circshift000
cntrd0.560.040.61
fixDA000
fixExpName000
fixFM1000
fixFM2000
fixFM3000
fixFM4000
fixFM5000
fixFM6000
fixID1000
fixMSD000
fixPER1000
fixPER2000
fixPER3000
getAvailableAggrMetrics0.720.020.73
getCellImages0.270.360.99
getCellMigSlot0.300.250.67
getCellTrackMeta0.010.000.01
getCellTrackStats0.020.000.02
getCellTracks0.000.030.03
getCellsMeta0.010.000.02
getCellsStats0.020.010.03
getDACtable1.470.001.47
getDiRatio0.010.000.01
getFMItable0.320.000.31
getForMigtable0.370.000.38
getImageCentroids0.030.000.03
getImageStacks0.060.020.08
getMSDtable2.570.022.58
getOptimizedParameters0.010.000.01
getOptimizedParams0.020.000.02
getPerAndSpeed0.150.070.23
getPopulationStats0.020.000.02
getProcessedImages0.250.430.67
getProcessingStatus0.020.000.02
getResults0.450.000.45
getTracks0.010.000.01
getVACtable0.710.010.72
initializeTrackParams000
innerBondRaster000
internalPermutation000
matfix000
nontrivialBondTracking000
pkfnd0.510.000.52
plot3DAllTracks0.100.020.11
plot3DTracks000
plotAllTracks0.010.010.03
plotSampleTracks0.020.000.02
preProcCellMig000
rmPreProcessing0.060.020.07
runTrackingPermutation000
setAnalyticParams0.020.000.02
setCellMigSlot0.010.000.01
setCellTracks0.020.000.02
setCellsMeta0.020.000.01
setExpName0.010.000.02
setOptimizedParams0.020.000.01
setProcessedImages0.000.010.02
setProcessingStatus0.020.000.01
setTrackedCellsMeta0.000.020.02
setTrackedCentroids0.000.030.03
setTrackedPositions0.010.000.02
setTrackingStats0.000.020.01
sinkAway0.020.000.02
subNetworkTracking000
track000
trackHypercubeBuild000
trackSlideProcessing000
trackSlideWrapUp000
trivialBondRaster000
trivialBondTracking000
visualizeCellTracks0.040.030.08
visualizeTrcks0.020.000.01
warnMessage000
wsaPreProcessing0.040.000.03