Back to Multiple platform build/check report for BioC 3.17:   simplified   long
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This page was generated on 2023-10-16 11:35:59 -0400 (Mon, 16 Oct 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.2 LTS)x86_644.3.1 (2023-06-16) -- "Beagle Scouts" 4626
palomino3Windows Server 2022 Datacenterx644.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" 4379
merida1macOS 12.6.4 Montereyx86_644.3.1 (2023-06-16) -- "Beagle Scouts" 4395
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 294/2230HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
cellmigRation 1.8.0  (landing page)
Waldir Leoncio
Snapshot Date: 2023-10-15 14:00:13 -0400 (Sun, 15 Oct 2023)
git_url: https://git.bioconductor.org/packages/cellmigRation
git_branch: RELEASE_3_17
git_last_commit: 42363ab
git_last_commit_date: 2023-04-25 11:28:31 -0400 (Tue, 25 Apr 2023)
nebbiolo1Linux (Ubuntu 22.04.2 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 12.6.4 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson2macOS 12.6.1 Monterey / arm64see weekly results here

CHECK results for cellmigRation on palomino3


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: 1.8.0
Command: F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:cellmigRation.install-out.txt --library=F:\biocbuild\bbs-3.17-bioc\R\library --no-vignettes --timings cellmigRation_1.8.0.tar.gz
StartedAt: 2023-10-16 00:24:47 -0400 (Mon, 16 Oct 2023)
EndedAt: 2023-10-16 00:26:51 -0400 (Mon, 16 Oct 2023)
EllapsedTime: 124.4 seconds
RetCode: 0
Status:   OK  
CheckDir: cellmigRation.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:cellmigRation.install-out.txt --library=F:\biocbuild\bbs-3.17-bioc\R\library --no-vignettes --timings cellmigRation_1.8.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.17-bioc/meat/cellmigRation.Rcheck'
* using R version 4.3.1 (2023-06-16 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* R was compiled by
    gcc.exe (GCC) 12.2.0
    GNU Fortran (GCC) 12.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'cellmigRation/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'cellmigRation' version '1.8.0'
* 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:
###
###   F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD INSTALL cellmigRation
###
##############################################################################
##############################################################################


* installing to library 'F:/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 version 4.3.1 (2023-06-16 ucrt) -- "Beagle Scouts"
Copyright (C) 2023 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")
The legacy packages maptools, rgdal, and rgeos, underpinning the sp package,
which was just loaded, were retired in October 2023.
Please refer to R-spatial evolution reports for details, especially
https://r-spatial.org/r/2023/05/15/evolution4.html.
It may be desirable to make the sf package available;
package maintainers should consider adding sf to Suggests:.


RUNIT TEST PROTOCOL -- Mon Oct 16 00:26:39 2023 
*********************************************** 
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 
   2.67    0.32    3.00 

Example timings

cellmigRation.Rcheck/cellmigRation-Ex.timings

nameusersystemelapsed
AddDimension000
CellMig-class0.020.010.03
CellMigPCA1.250.021.26
CellMigPCAclust000
CellMigPCAclustALL0.560.020.58
CellTracker0.000.010.01
CellTrackerMainLoop000
CentroidArray0.020.000.01
CentroidValidation0.420.020.44
ComputeTracksStats0.030.000.03
DetectRadii000
DiAutoCor1.360.091.45
DiRatio0.020.000.02
DiRatioPlot0.050.010.14
EstimateDiameterRange0.010.000.01
FMI0.440.000.44
FianlizeOptiParams000
FilterTrackedCells000
FinRes0.480.030.52
ForwardMigration0.770.000.77
GenAllCombos000
LinearConv20.010.000.01
LoadTiff000
MSD1.290.061.39
MakeHypercube000
MigrationStats000
NextOdd000
NonParallel4OptimizeParams000
NonParallelTrackLoop000
OptimizeParams0.010.000.01
OptimizeParamsMainLoop000
Parallel4OptimizeParams000
ParallelTrackLoop000
PerAndSpeed0.280.020.33
PlotTracksSeparately000
PostProcessTracking0.010.000.01
Prep4OptimizeParams0.10.00.1
ThreeConditions0.010.000.01
TrackCellsDataset0.000.010.02
TrajectoryDataset0.030.000.03
ValidateTrackingArgs000
VeAutoCor0.880.000.88
VisualizeCntr000
VisualizeImg0.010.000.01
VisualizeStackCentroids0.070.000.06
WSADataset0.010.000.02
aggregateFR0.580.000.58
aggregateTrackedCells0.020.000.01
bpass0.060.000.07
circshift000
cntrd0.590.000.59
fixDA000
fixExpName000
fixFM1000
fixFM2000
fixFM3000
fixFM40.020.000.01
fixFM5000
fixFM6000
fixID1000
fixMSD000
fixPER1000
fixPER2000
fixPER3000
getAvailableAggrMetrics0.840.000.85
getCellImages0.470.350.81
getCellMigSlot0.520.320.84
getCellTrackMeta0.030.000.04
getCellTrackStats0.010.000.01
getCellTracks0.020.000.02
getCellsMeta0.010.000.01
getCellsStats0.020.020.03
getDACtable1.630.001.63
getDiRatio0.010.000.01
getFMItable0.380.000.38
getForMigtable0.50.00.5
getImageCentroids0.030.000.03
getImageStacks0.080.000.07
getMSDtable3.230.073.32
getOptimizedParameters0.030.000.03
getOptimizedParams0.000.020.01
getPerAndSpeed0.240.050.29
getPopulationStats0.010.000.01
getProcessedImages0.530.420.95
getProcessingStatus0.020.000.02
getResults0.610.000.61
getTracks0.010.010.03
getVACtable0.920.000.92
initializeTrackParams000
innerBondRaster000
internalPermutation000
matfix000
nontrivialBondTracking000
pkfnd0.630.020.64
plot3DAllTracks0.070.020.09
plot3DTracks000
plotAllTracks0.010.000.01
plotSampleTracks0.020.000.02
preProcCellMig0.020.000.01
rmPreProcessing0.060.000.07
runTrackingPermutation000
setAnalyticParams0.020.000.02
setCellMigSlot0.020.000.01
setCellTracks0.010.000.02
setCellsMeta0.020.000.02
setExpName0.010.010.03
setOptimizedParams0.020.000.01
setProcessedImages0.010.000.02
setProcessingStatus0.020.020.03
setTrackedCellsMeta0.010.000.01
setTrackedCentroids0.000.010.02
setTrackedPositions0.020.000.02
setTrackingStats0.000.020.01
sinkAway000
subNetworkTracking0.020.000.02
track000
trackHypercubeBuild000
trackSlideProcessing000
trackSlideWrapUp000
trivialBondRaster000
trivialBondTracking000
visualizeCellTracks0.050.000.05
visualizeTrcks0.020.000.01
warnMessage000
wsaPreProcessing0.050.000.05