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This page was generated on 2024-03-29 11:35:50 -0400 (Fri, 29 Mar 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.3.3 (2024-02-29) -- "Angel Food Cake" 4669
palomino4Windows Server 2022 Datacenterx644.3.3 (2024-02-29 ucrt) -- "Angel Food Cake" 4404
merida1macOS 12.7.1 Montereyx86_644.3.3 (2024-02-29) -- "Angel Food Cake" 4427
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: 2024-03-27 14:05:05 -0400 (Wed, 27 Mar 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: 2024-03-27 21:02:31 -0400 (Wed, 27 Mar 2024)
EndedAt: 2024-03-27 21:06:10 -0400 (Wed, 27 Mar 2024)
EllapsedTime: 218.3 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
 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-3.18-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 -- Wed Mar 27 21:04:09 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 
  2.870   0.202   3.058 

Example timings

cellmigRation.Rcheck/cellmigRation-Ex.timings

nameusersystemelapsed
AddDimension0.0010.0000.001
CellMig-class0.0270.0000.028
CellMigPCA1.2620.0721.334
CellMigPCAclust0.0070.0000.007
CellMigPCAclustALL0.5830.0040.587
CellTracker0.0190.0000.019
CellTrackerMainLoop0.0090.0000.027
CentroidArray0.0280.0000.029
CentroidValidation0.4580.0200.478
ComputeTracksStats0.0250.0000.025
DetectRadii0.0020.0000.002
DiAutoCor1.2250.0401.265
DiRatio0.0160.0000.016
DiRatioPlot0.0360.0040.041
EstimateDiameterRange0.0130.0000.014
FMI0.4210.0000.421
FianlizeOptiParams0.0010.0000.000
FilterTrackedCells0.0030.0000.002
FinRes0.5810.0040.586
ForwardMigration0.8590.0120.871
GenAllCombos0.0000.0020.002
LinearConv20.0170.0010.019
LoadTiff0.0010.0000.001
MSD1.4110.0121.424
MakeHypercube0.0010.0000.001
MigrationStats0.0010.0000.001
NextOdd0.0010.0000.001
NonParallel4OptimizeParams0.0010.0000.001
NonParallelTrackLoop000
OptimizeParams0.0080.0080.016
OptimizeParamsMainLoop0.0070.0000.022
Parallel4OptimizeParams0.0010.0000.000
ParallelTrackLoop0.0010.0000.000
PerAndSpeed0.2780.0000.280
PlotTracksSeparately0.0090.0000.009
PostProcessTracking0.0010.0000.000
Prep4OptimizeParams0.0870.0030.092
ThreeConditions0.0090.0040.013
TrackCellsDataset0.0160.0000.016
TrajectoryDataset0.0220.0000.022
ValidateTrackingArgs0.0000.0000.001
VeAutoCor0.9950.0321.027
VisualizeCntr0.0020.0000.002
VisualizeImg0.0050.0000.005
VisualizeStackCentroids0.0660.0000.066
WSADataset0.0070.0000.007
aggregateFR0.5960.0000.596
aggregateTrackedCells0.0220.0000.022
bpass0.0540.0040.058
circshift0.0010.0000.000
cntrd0.6920.0000.692
fixDA000
fixExpName000
fixFM1000
fixFM2000
fixFM3000
fixFM4000
fixFM50.0010.0000.000
fixFM6000
fixID10.0010.0000.000
fixMSD0.0000.0000.001
fixPER1000
fixPER20.0000.0000.001
fixPER3000
getAvailableAggrMetrics0.8770.0040.880
getCellImages0.1970.2350.433
getCellMigSlot0.2610.1440.406
getCellTrackMeta0.0190.0000.019
getCellTrackStats0.0280.0000.029
getCellTracks0.0250.0000.025
getCellsMeta0.0160.0080.024
getCellsStats0.0130.0080.022
getDACtable2.0490.0162.066
getDiRatio0.0180.0000.018
getFMItable0.4320.0200.452
getForMigtable0.5030.0000.503
getImageCentroids0.0210.0000.022
getImageStacks0.0570.0080.065
getMSDtable3.2210.0243.244
getOptimizedParameters0.0160.0000.017
getOptimizedParams0.0170.0000.018
getPerAndSpeed0.2540.0000.255
getPopulationStats0.0050.0120.018
getProcessedImages0.2250.1920.417
getProcessingStatus0.0170.0000.016
getResults0.5710.0000.570
getTracks0.0130.0040.017
getVACtable0.9870.0000.988
initializeTrackParams000
innerBondRaster0.0020.0000.001
internalPermutation0.0010.0000.001
matfix0.0010.0000.001
nontrivialBondTracking0.0010.0000.001
pkfnd0.6540.0000.654
plot3DAllTracks0.0910.0120.103
plot3DTracks0.0080.0000.009
plotAllTracks0.0190.0000.019
plotSampleTracks0.0150.0000.015
preProcCellMig0.0070.0000.007
rmPreProcessing0.0750.0040.079
runTrackingPermutation0.0010.0000.002
setAnalyticParams0.0080.0080.016
setCellMigSlot0.0190.0040.022
setCellTracks0.0120.0040.016
setCellsMeta0.0170.0000.016
setExpName0.0220.0000.023
setOptimizedParams0.0160.0000.016
setProcessedImages0.0160.0000.016
setProcessingStatus0.0120.0040.017
setTrackedCellsMeta0.0170.0000.017
setTrackedCentroids0.0130.0040.016
setTrackedPositions0.0130.0040.017
setTrackingStats0.0170.0000.017
sinkAway000
subNetworkTracking0.0010.0000.001
track0.0090.0000.009
trackHypercubeBuild0.0010.0000.001
trackSlideProcessing0.0010.0000.001
trackSlideWrapUp0.0000.0000.001
trivialBondRaster0.0000.0020.002
trivialBondTracking0.0000.0010.000
visualizeCellTracks0.0670.0080.076
visualizeTrcks0.0250.0000.025
warnMessage0.0000.0000.001
wsaPreProcessing0.0470.0000.047