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This page was generated on 2024-03-04 11:37:12 -0500 (Mon, 04 Mar 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.3.2 Patched (2023-11-13 r85521) -- "Eye Holes" 4692
palomino4Windows Server 2022 Datacenterx644.3.2 (2023-10-31 ucrt) -- "Eye Holes" 4445
lconwaymacOS 12.7.1 Montereyx86_644.3.2 Patched (2023-11-01 r85457) -- "Eye Holes" 4466
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: 2024-03-03 14:05:05 -0500 (Sun, 03 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 -0500 (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
lconwaymacOS 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 lconway


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: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:cellmigRation.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings cellmigRation_1.10.0.tar.gz
StartedAt: 2024-03-03 19:30:22 -0500 (Sun, 03 Mar 2024)
EndedAt: 2024-03-03 19:32:48 -0500 (Sun, 03 Mar 2024)
EllapsedTime: 145.6 seconds
RetCode: 0
Status:   OK  
CheckDir: cellmigRation.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:cellmigRation.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings cellmigRation_1.10.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.18-bioc/meat/cellmigRation.Rcheck’
* using R version 4.3.2 Patched (2023-11-01 r85457)
* using platform: x86_64-apple-darwin20 (64-bit)
* R was compiled by
    Apple clang version 14.0.3 (clang-1403.0.22.14.1)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘cellmigRation/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘cellmigRation’ version ‘1.10.0’
* 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 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:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL cellmigRation
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/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 4.3.2 Patched (2023-11-01 r85457) -- "Eye Holes"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20 (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 -- Sun Mar  3 19:32:35 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 
  3.398   0.393   3.822 

Example timings

cellmigRation.Rcheck/cellmigRation-Ex.timings

nameusersystemelapsed
AddDimension0.0020.0010.003
CellMig-class0.0300.0040.035
CellMigPCA1.4950.0381.547
CellMigPCAclust0.0060.0010.008
CellMigPCAclustALL0.9540.0531.017
CellTracker0.0180.0030.022
CellTrackerMainLoop0.0050.0090.027
CentroidArray0.0160.0030.020
CentroidValidation0.5270.0240.557
ComputeTracksStats0.0290.0040.034
DetectRadii0.0030.0010.003
DiAutoCor1.4410.0301.499
DiRatio0.0150.0010.017
DiRatioPlot0.0360.0140.054
EstimateDiameterRange0.0140.0020.017
FMI0.5190.0080.533
FianlizeOptiParams0.0010.0000.001
FilterTrackedCells0.0030.0000.004
FinRes0.6980.0180.726
ForwardMigration1.0420.0131.063
GenAllCombos0.0030.0000.003
LinearConv20.0180.0010.020
LoadTiff0.0010.0000.001
MSD1.7300.0381.839
MakeHypercube0.0020.0010.002
MigrationStats0.0010.0010.002
NextOdd000
NonParallel4OptimizeParams0.0010.0000.001
NonParallelTrackLoop0.0010.0010.000
OptimizeParams0.0170.0020.019
OptimizeParamsMainLoop0.0040.0110.024
Parallel4OptimizeParams0.0000.0000.001
ParallelTrackLoop0.0000.0000.001
PerAndSpeed0.3170.0320.360
PlotTracksSeparately0.0100.0020.012
PostProcessTracking0.0000.0000.001
Prep4OptimizeParams0.1090.0090.120
ThreeConditions0.0110.0030.014
TrackCellsDataset0.0260.0040.032
TrajectoryDataset0.0250.0020.028
ValidateTrackingArgs0.0010.0000.000
VeAutoCor1.2480.0201.280
VisualizeCntr0.0020.0010.003
VisualizeImg0.0050.0010.007
VisualizeStackCentroids0.0610.0090.071
WSADataset0.0070.0020.009
aggregateFR0.7500.0120.768
aggregateTrackedCells0.0210.0050.027
bpass0.0650.0020.068
circshift0.0010.0000.001
cntrd0.8130.0160.834
fixDA0.0000.0000.001
fixExpName0.0000.0000.001
fixFM10.0000.0000.001
fixFM2000
fixFM3000
fixFM40.0000.0000.001
fixFM50.0010.0000.000
fixFM6000
fixID10.0010.0000.001
fixMSD000
fixPER1000
fixPER20.0010.0000.000
fixPER30.0000.0000.001
getAvailableAggrMetrics1.0750.0121.097
getCellImages0.2940.9471.256
getCellMigSlot0.3840.5820.978
getCellTrackMeta0.0160.0030.019
getCellTrackStats0.0170.0030.019
getCellTracks0.0150.0040.019
getCellsMeta0.0150.0020.017
getCellsStats0.0180.0020.020
getDACtable2.1870.0312.238
getDiRatio0.0190.0010.020
getFMItable0.5370.0100.552
getForMigtable0.9420.0140.965
getImageCentroids0.0230.0030.027
getImageStacks0.0560.0080.065
getMSDtable4.2890.0694.401
getOptimizedParameters0.0160.0020.018
getOptimizedParams0.0180.0030.020
getPerAndSpeed0.3100.0290.353
getPopulationStats0.0180.0030.021
getProcessedImages0.2810.9381.237
getProcessingStatus0.0170.0020.019
getResults0.7160.0180.744
getTracks0.0180.0020.020
getVACtable1.2320.0181.268
initializeTrackParams0.0010.0000.000
innerBondRaster0.0020.0000.001
internalPermutation0.0020.0000.002
matfix0.0010.0000.001
nontrivialBondTracking0.0020.0000.001
pkfnd0.7910.0160.818
plot3DAllTracks000
plot3DTracks0.0000.0000.001
plotAllTracks0.0190.0040.023
plotSampleTracks0.0150.0030.018
preProcCellMig0.0060.0010.008
rmPreProcessing0.0860.0020.088
runTrackingPermutation0.0010.0000.001
setAnalyticParams0.0160.0030.019
setCellMigSlot0.0230.0020.026
setCellTracks0.0160.0020.019
setCellsMeta0.0160.0010.017
setExpName0.0230.0020.025
setOptimizedParams0.0150.0020.017
setProcessedImages0.0170.0020.020
setProcessingStatus0.0150.0020.019
setTrackedCellsMeta0.0450.0100.057
setTrackedCentroids0.0160.0020.019
setTrackedPositions0.0160.0030.019
setTrackingStats0.0160.0030.020
sinkAway0.0010.0000.001
subNetworkTracking0.0010.0000.001
track0.0090.0010.010
trackHypercubeBuild0.0010.0000.002
trackSlideProcessing0.0010.0010.001
trackSlideWrapUp0.0010.0000.001
trivialBondRaster0.0030.0000.003
trivialBondTracking0.0010.0000.001
visualizeCellTracks0.0580.0090.067
visualizeTrcks0.0290.0030.033
warnMessage0.0000.0010.001
wsaPreProcessing0.0570.0020.060