Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2022-04-13 12:05:09 -0400 (Wed, 13 Apr 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.3 (2022-03-10) -- "One Push-Up" 4324
tokay2Windows Server 2012 R2 Standardx644.1.3 (2022-03-10) -- "One Push-Up" 4077
machv2macOS 10.14.6 Mojavex86_644.1.3 (2022-03-10) -- "One Push-Up" 4137
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 nebbiolo2


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.

raw results

Package 270/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
cellmigRation 1.2.0  (landing page)
Waldir Leoncio
Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022)
git_url: https://git.bioconductor.org/packages/cellmigRation
git_branch: RELEASE_3_14
git_last_commit: 18f748f
git_last_commit_date: 2021-10-26 13:08:41 -0400 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: cellmigRation
Version: 1.2.0
Command: /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:cellmigRation.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings cellmigRation_1.2.0.tar.gz
StartedAt: 2022-04-12 06:44:36 -0400 (Tue, 12 Apr 2022)
EndedAt: 2022-04-12 06:46:16 -0400 (Tue, 12 Apr 2022)
EllapsedTime: 100.6 seconds
RetCode: 0
Status:   OK  
CheckDir: cellmigRation.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:cellmigRation.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings cellmigRation_1.2.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.14-bioc/meat/cellmigRation.Rcheck’
* using R version 4.1.3 (2022-03-10)
* using platform: x86_64-pc-linux-gnu (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 ‘1.2.0’
* 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


Installation output

cellmigRation.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD INSTALL cellmigRation
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.14-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
** 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)

Tests output

cellmigRation.Rcheck/tests/runTests.Rout


R version 4.1.3 (2022-03-10) -- "One Push-Up"
Copyright (C) 2022 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (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 -- Tue Apr 12 06:46:12 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 
  2.809   0.201   2.996 

Example timings

cellmigRation.Rcheck/cellmigRation-Ex.timings

nameusersystemelapsed
AddDimension0.0020.0000.002
CellMig-class0.0280.0040.031
CellMigPCA1.2520.0721.323
CellMigPCAclust0.0080.0000.009
CellMigPCAclustALL0.5750.0000.575
CellTracker0.020.000.02
CellTrackerMainLoop0.0050.0100.031
CentroidArray0.0180.0040.022
CentroidValidation0.4070.0160.423
ComputeTracksStats0.0210.0040.025
DetectRadii0.0020.0000.002
DiAutoCor1.180.021.20
DiRatio0.0100.0080.018
DiRatioPlot0.0310.0040.035
EstimateDiameterRange0.0120.0040.015
FMI0.4410.0120.453
FianlizeOptiParams0.0010.0000.001
FilterTrackedCells0.0020.0000.003
FinRes0.6040.0000.604
ForwardMigration0.8740.0040.878
GenAllCombos0.0030.0000.003
LinearConv20.0180.0000.018
LoadTiff0.0010.0000.001
MSD1.5960.0321.628
MakeHypercube0.0010.0000.001
MigrationStats0.0010.0000.001
NextOdd0.0010.0000.000
NonParallel4OptimizeParams0.0010.0000.000
NonParallelTrackLoop000
OptimizeParams0.0160.0000.017
OptimizeParamsMainLoop0.0040.0100.028
Parallel4OptimizeParams0.0000.0000.001
ParallelTrackLoop0.0010.0000.001
PerAndSpeed0.2640.0080.273
PlotTracksSeparately0.0090.0000.009
PostProcessTracking000
Prep4OptimizeParams0.0930.0040.098
ThreeConditions0.0090.0040.013
TrackCellsDataset0.0160.0000.017
TrajectoryDataset0.0250.0000.025
ValidateTrackingArgs0.0010.0000.000
VeAutoCor0.9170.0320.948
VisualizeCntr0.0030.0000.002
VisualizeImg0.0050.0000.005
VisualizeStackCentroids0.0640.0000.064
WSADataset0.0080.0000.007
aggregateFR0.5340.0040.538
aggregateTrackedCells0.0180.0040.021
bpass0.0530.0000.053
circshift0.0000.0000.001
cntrd0.590.000.59
fixDA000
fixExpName0.0000.0000.001
fixFM10.0010.0000.000
fixFM2000
fixFM3000
fixFM4000
fixFM50.0000.0000.001
fixFM6000
fixID1000
fixMSD0.0000.0000.001
fixPER10.0000.0010.000
fixPER2000
fixPER30.0000.0000.001
getAvailableAggrMetrics0.8020.0020.804
getCellImages0.2280.1880.417
getCellMigSlot0.2740.1120.386
getCellTrackMeta0.0090.0080.018
getCellTrackStats0.020.000.02
getCellTracks0.0180.0000.018
getCellsMeta0.0300.0040.034
getCellsStats0.0190.0000.019
getDACtable1.6880.0041.692
getDiRatio0.0170.0000.017
getFMItable0.4190.0010.420
getForMigtable0.5240.0020.525
getImageCentroids0.0230.0000.023
getImageStacks0.0660.0040.070
getMSDtable3.2840.0323.317
getOptimizedParameters0.0160.0000.016
getOptimizedParams0.0170.0000.018
getPerAndSpeed0.2720.0100.283
getPopulationStats0.0130.0060.017
getProcessedImages0.1910.2160.407
getProcessingStatus0.0160.0000.016
getResults0.5790.0080.588
getTracks0.0180.0000.018
getVACtable0.9550.0000.955
initializeTrackParams0.0000.0010.000
innerBondRaster0.0000.0010.002
internalPermutation0.0000.0000.001
matfix0.0000.0010.001
nontrivialBondTracking0.0000.0010.001
pkfnd0.6180.0060.623
plot3DAllTracks0.1380.0280.168
plot3DTracks0.0080.0000.008
plotAllTracks0.0200.0000.021
plotSampleTracks0.0150.0000.015
preProcCellMig0.0080.0000.008
rmPreProcessing0.0920.0000.093
runTrackingPermutation0.0010.0000.002
setAnalyticParams0.0090.0080.018
setCellMigSlot0.0270.0000.028
setCellTracks0.0170.0000.018
setCellsMeta0.0100.0080.018
setExpName0.0240.0040.027
setOptimizedParams0.0240.0040.028
setProcessedImages0.0130.0040.017
setProcessingStatus0.0170.0000.017
setTrackedCellsMeta0.0170.0000.017
setTrackedCentroids0.0180.0000.019
setTrackedPositions0.0120.0080.019
setTrackingStats0.0160.0040.020
sinkAway0.0000.0000.001
subNetworkTracking0.0010.0000.002
track0.0060.0040.011
trackHypercubeBuild0.0000.0000.001
trackSlideProcessing0.0000.0000.001
trackSlideWrapUp0.0000.0010.000
trivialBondRaster0.0000.0020.002
trivialBondTracking000
visualizeCellTracks0.080.000.08
visualizeTrcks0.0240.0000.024
warnMessage000
wsaPreProcessing0.0470.0000.047