Back to Multiple platform build/check report for BioC 3.17
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This page was generated on 2022-12-07 11:05:24 -0500 (Wed, 07 Dec 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.1 LTS)x86_64R Under development (unstable) (2022-11-30 r83393) -- "Unsuffered Consequences" 4423
palomino3Windows Server 2022 Datacenterx64R Under development (unstable) (2022-11-30 r83393 ucrt) -- "Unsuffered Consequences" 4193
merida1macOS 10.14.6 Mojavex86_64R Under development (unstable) (2022-11-30 r83393) -- "Unsuffered Consequences" 4236
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 nebbiolo1


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 275/2155HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
cellmigRation 1.7.0  (landing page)
Waldir Leoncio
Snapshot Date: 2022-12-06 14:00:17 -0500 (Tue, 06 Dec 2022)
git_url: https://git.bioconductor.org/packages/cellmigRation
git_branch: master
git_last_commit: 0323749
git_last_commit_date: 2022-11-01 11:24:36 -0500 (Tue, 01 Nov 2022)
nebbiolo1Linux (Ubuntu 22.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
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: 1.7.0
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:cellmigRation.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings cellmigRation_1.7.0.tar.gz
StartedAt: 2022-12-06 19:37:23 -0500 (Tue, 06 Dec 2022)
EndedAt: 2022-12-06 19:41:12 -0500 (Tue, 06 Dec 2022)
EllapsedTime: 229.4 seconds
RetCode: 0
Status:   OK  
CheckDir: cellmigRation.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:cellmigRation.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings cellmigRation_1.7.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/cellmigRation.Rcheck’
* using R Under development (unstable) (2022-11-30 r83393)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* checking for file ‘cellmigRation/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘cellmigRation’ version ‘1.7.0’
* 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 ...
  ‘cellmigRation.Rmd’ using ‘UTF-8’... OK
 NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

cellmigRation.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL cellmigRation
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.17-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 Under development (unstable) (2022-11-30 r83393) -- "Unsuffered Consequences"
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 Dec  6 19:39:14 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 
  3.232   0.213   3.431 

Example timings

cellmigRation.Rcheck/cellmigRation-Ex.timings

nameusersystemelapsed
AddDimension0.0000.0020.003
CellMig-class0.0320.0080.039
CellMigPCA1.4060.0351.443
CellMigPCAclust0.0080.0000.008
CellMigPCAclustALL0.6360.0080.645
CellTracker0.0150.0050.020
CellTrackerMainLoop0.0050.0030.026
CentroidArray0.0150.0050.020
CentroidValidation0.4590.0050.464
ComputeTracksStats0.0310.0040.035
DetectRadii0.0020.0010.002
DiAutoCor1.5430.0831.626
DiRatio0.0180.0000.018
DiRatioPlot0.0360.0000.036
EstimateDiameterRange0.0170.0000.016
FMI0.4050.0350.441
FianlizeOptiParams000
FilterTrackedCells0.0020.0010.002
FinRes0.5810.0040.585
ForwardMigration0.8460.0000.847
GenAllCombos0.0030.0000.003
LinearConv20.0190.0000.020
LoadTiff0.0020.0000.002
MSD1.4290.0511.483
MakeHypercube0.0000.0020.002
MigrationStats0.0000.0010.002
NextOdd0.0000.0000.001
NonParallel4OptimizeParams0.0010.0000.001
NonParallelTrackLoop0.0010.0000.000
OptimizeParams0.0180.0000.018
OptimizeParamsMainLoop0.0050.0010.026
Parallel4OptimizeParams0.0000.0010.000
ParallelTrackLoop0.0010.0000.001
PerAndSpeed0.2770.0000.277
PlotTracksSeparately0.0230.0000.023
PostProcessTracking000
Prep4OptimizeParams0.0760.0120.088
ThreeConditions0.0100.0040.014
TrackCellsDataset0.0090.0080.017
TrajectoryDataset0.0180.0040.022
ValidateTrackingArgs000
VeAutoCor0.9830.0241.007
VisualizeCntr0.0020.0000.003
VisualizeImg0.0020.0040.006
VisualizeStackCentroids0.0660.0000.066
WSADataset0.0070.0000.007
aggregateFR0.5820.0000.582
aggregateTrackedCells0.0190.0040.023
bpass0.0550.0000.056
circshift0.0000.0010.001
cntrd0.6410.0020.643
fixDA0.0010.0000.000
fixExpName0.0010.0000.000
fixFM10.0010.0000.000
fixFM2000
fixFM30.0000.0000.001
fixFM4000
fixFM50.0010.0000.000
fixFM6000
fixID10.0000.0000.001
fixMSD0.0000.0000.001
fixPER1000
fixPER20.0010.0000.000
fixPER30.0010.0000.000
getAvailableAggrMetrics0.9260.0400.965
getCellImages0.2621.0241.285
getCellMigSlot0.2850.6320.917
getCellTrackMeta0.0100.0080.018
getCellTrackStats0.0130.0080.021
getCellTracks0.0190.0000.019
getCellsMeta0.0180.0000.017
getCellsStats0.0160.0040.020
getDACtable1.7890.0161.804
getDiRatio0.0140.0040.019
getFMItable0.4240.0440.469
getForMigtable0.5180.0040.522
getImageCentroids0.0170.0080.023
getImageStacks0.0650.0000.065
getMSDtable3.4610.0163.477
getOptimizedParameters0.0100.0080.017
getOptimizedParams0.0190.0000.019
getPerAndSpeed0.2620.0260.288
getPopulationStats0.0130.0040.018
getProcessedImages0.2531.0441.298
getProcessingStatus0.0130.0040.017
getResults0.6100.0040.613
getTracks0.0180.0000.018
getVACtable0.9740.0361.009
initializeTrackParams0.0000.0000.001
innerBondRaster0.0010.0000.002
internalPermutation0.0010.0000.001
matfix0.0010.0000.001
nontrivialBondTracking0.0010.0000.002
pkfnd0.6600.0080.668
plot3DAllTracks0.0910.0200.112
plot3DTracks0.0050.0030.008
plotAllTracks0.0180.0000.018
plotSampleTracks0.0150.0000.015
preProcCellMig0.0070.0000.008
rmPreProcessing0.0810.0040.086
runTrackingPermutation0.0020.0000.002
setAnalyticParams0.0180.0000.018
setCellMigSlot0.0210.0040.025
setCellTracks0.0150.0040.019
setCellsMeta0.0130.0070.020
setExpName0.0200.0040.025
setOptimizedParams0.0070.0120.019
setProcessedImages0.0150.0040.020
setProcessingStatus0.0190.0000.019
setTrackedCellsMeta0.0260.0040.030
setTrackedCentroids0.0160.0000.017
setTrackedPositions0.0120.0040.017
setTrackingStats0.0160.0000.017
sinkAway0.0010.0000.001
subNetworkTracking0.0010.0000.001
track0.0060.0040.010
trackHypercubeBuild0.0010.0000.001
trackSlideProcessing0.0010.0000.000
trackSlideWrapUp0.0010.0000.000
trivialBondRaster0.0020.0000.002
trivialBondTracking0.0000.0000.001
visualizeCellTracks0.0540.0120.067
visualizeTrcks0.0200.0040.024
warnMessage0.0000.0010.001
wsaPreProcessing0.0440.0030.047