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This page was generated on 2024-04-17 11:35:50 -0400 (Wed, 17 Apr 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.3.3 (2024-02-29) -- "Angel Food Cake" 4676
palomino4Windows Server 2022 Datacenterx644.3.3 (2024-02-29 ucrt) -- "Angel Food Cake" 4414
merida1macOS 12.7.1 Montereyx86_644.3.3 (2024-02-29) -- "Angel Food Cake" 4437
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

Package 299/2266HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
cellmigRation 1.10.0  (landing page)
Waldir Leoncio
Snapshot Date: 2024-04-15 14:05:01 -0400 (Mon, 15 Apr 2024)
git_url: https://git.bioconductor.org/packages/cellmigRation
git_branch: RELEASE_3_18
git_last_commit: b06828e
git_last_commit_date: 2023-10-24 11:31:56 -0400 (Tue, 24 Oct 2023)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.1 Ventura / arm64see weekly results here

CHECK results for cellmigRation on nebbiolo2


To the developers/maintainers of the cellmigRation package:
- 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 Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: cellmigRation
Version: 1.10.0
Command: /home/biocbuild/bbs-3.18-bioc/R/bin/R CMD check --install=check:cellmigRation.install-out.txt --library=/home/biocbuild/bbs-3.18-bioc/R/site-library --timings cellmigRation_1.10.0.tar.gz
StartedAt: 2024-04-15 21:01:06 -0400 (Mon, 15 Apr 2024)
EndedAt: 2024-04-15 21:06:35 -0400 (Mon, 15 Apr 2024)
EllapsedTime: 328.4 seconds
RetCode: 0
Status:   OK  
CheckDir: cellmigRation.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.18-bioc/R/bin/R CMD check --install=check:cellmigRation.install-out.txt --library=/home/biocbuild/bbs-3.18-bioc/R/site-library --timings cellmigRation_1.10.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.18-bioc/meat/cellmigRation.Rcheck’
* using R version 4.3.3 (2024-02-29)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
    gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
    GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
* running under: Ubuntu 22.04.4 LTS
* using session charset: UTF-8
* checking for file ‘cellmigRation/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘cellmigRation’ version ‘1.10.0’
* 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 loading without being on the library search path ... 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
 OK
* 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-3.18-bioc/R/bin/R CMD INSTALL cellmigRation
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.18-bioc/R/site-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 4.3.3 (2024-02-29) -- "Angel Food Cake"
Copyright (C) 2024 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 -- Mon Apr 15 21:02:47 2024 
*********************************************** 
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 
  2.551   0.164   2.704 

Example timings

cellmigRation.Rcheck/cellmigRation-Ex.timings

nameusersystemelapsed
AddDimension0.0000.0010.001
CellMig-class0.0270.0010.028
CellMigPCA1.3070.0641.371
CellMigPCAclust0.0070.0010.007
CellMigPCAclustALL0.5890.0000.589
CellTracker0.0150.0040.019
CellTrackerMainLoop0.0060.0010.024
CentroidArray0.0160.0040.020
CentroidValidation0.4310.0040.435
ComputeTracksStats0.0250.0000.025
DetectRadii0.0000.0020.002
DiAutoCor1.2390.0331.272
DiRatio0.0160.0000.016
DiRatioPlot0.0380.0040.043
EstimateDiameterRange0.0140.0000.014
FMI0.4290.0000.429
FianlizeOptiParams0.0010.0000.001
FilterTrackedCells0.0030.0000.002
FinRes0.5970.0000.597
ForwardMigration0.8760.0150.892
GenAllCombos0.0020.0010.002
LinearConv20.020.000.02
LoadTiff000
MSD1.4170.0041.422
MakeHypercube0.0020.0000.001
MigrationStats0.0010.0000.000
NextOdd000
NonParallel4OptimizeParams0.0000.0000.001
NonParallelTrackLoop0.0000.0000.001
OptimizeParams0.0170.0000.016
OptimizeParamsMainLoop0.0030.0040.029
Parallel4OptimizeParams0.0010.0000.000
ParallelTrackLoop0.0010.0000.000
PerAndSpeed0.3000.0110.312
PlotTracksSeparately0.0090.0000.009
PostProcessTracking0.0010.0000.000
Prep4OptimizeParams0.1040.0030.108
ThreeConditions0.0090.0050.014
TrackCellsDataset0.0130.0030.017
TrajectoryDataset0.0220.0010.022
ValidateTrackingArgs000
VeAutoCor1.0190.0511.070
VisualizeCntr0.0000.0030.003
VisualizeImg0.0010.0040.006
VisualizeStackCentroids0.0630.0040.068
WSADataset0.0070.0000.007
aggregateFR0.5890.0330.621
aggregateTrackedCells0.0180.0040.022
bpass0.0560.0040.060
circshift0.0010.0000.001
cntrd0.6670.0000.667
fixDA0.0000.0000.001
fixExpName0.0010.0000.001
fixFM1000
fixFM20.0000.0000.001
fixFM3000
fixFM40.0010.0000.001
fixFM50.0010.0000.001
fixFM60.0010.0000.001
fixID10.0010.0000.000
fixMSD000
fixPER10.0000.0000.001
fixPER2000
fixPER30.0000.0000.001
getAvailableAggrMetrics0.8780.0270.906
getCellImages0.2140.2150.431
getCellMigSlot0.4950.1400.635
getCellTrackMeta0.0160.0000.016
getCellTrackStats0.0120.0070.019
getCellTracks0.0120.0050.016
getCellsMeta0.0160.0000.016
getCellsStats0.0180.0000.018
getDACtable1.6990.0191.719
getDiRatio0.0180.0010.018
getFMItable0.6250.0310.657
getForMigtable0.5250.0320.558
getImageCentroids0.0130.0080.022
getImageStacks0.0660.0000.065
getMSDtable3.3080.0283.337
getOptimizedParameters0.0170.0000.017
getOptimizedParams0.0180.0000.018
getPerAndSpeed0.2660.0000.266
getPopulationStats0.0170.0000.017
getProcessedImages0.2160.2040.419
getProcessingStatus0.0170.0000.016
getResults0.5720.0040.576
getTracks0.0160.0000.017
getVACtable0.9690.0160.985
initializeTrackParams0.0010.0000.000
innerBondRaster0.0010.0000.001
internalPermutation0.0010.0000.001
matfix0.0010.0000.001
nontrivialBondTracking0.0010.0000.001
pkfnd0.6440.0000.644
plot3DAllTracks0.0740.0200.094
plot3DTracks0.0070.0000.008
plotAllTracks0.0140.0040.018
plotSampleTracks0.0140.0000.014
preProcCellMig0.0070.0000.008
rmPreProcessing0.0790.0000.080
runTrackingPermutation0.0010.0000.002
setAnalyticParams0.0130.0040.017
setCellMigSlot0.0190.0040.022
setCellTracks0.0130.0040.017
setCellsMeta0.0130.0040.017
setExpName0.0230.0000.022
setOptimizedParams0.0170.0000.017
setProcessedImages0.0170.0000.017
setProcessingStatus0.0170.0000.017
setTrackedCellsMeta0.0170.0000.017
setTrackedCentroids0.0170.0000.016
setTrackedPositions0.0130.0040.017
setTrackingStats0.0130.0040.017
sinkAway0.0010.0000.000
subNetworkTracking0.0080.0040.012
track0.0090.0000.009
trackHypercubeBuild0.0000.0000.001
trackSlideProcessing0.0000.0000.001
trackSlideWrapUp000
trivialBondRaster0.0000.0020.001
trivialBondTracking0.0000.0010.000
visualizeCellTracks0.0660.0010.068
visualizeTrcks0.0200.0040.025
warnMessage000
wsaPreProcessing0.0470.0000.046