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This page was generated on 2023-02-08 01:14:55 -0000 (Wed, 08 Feb 2023).

HostnameOSArch (*)R versionInstalled pkgs
kunpeng1Linux (Ubuntu 22.04.1 LTS)aarch64R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" 4164
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CHECK results for cellmigRation on kunpeng1


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 276/2164HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
cellmigRation 1.7.0  (landing page)
Waldir Leoncio
Snapshot Date: 2023-02-06 00:12:45 -0000 (Mon, 06 Feb 2023)
git_url: https://git.bioconductor.org/packages/cellmigRation
git_branch: master
git_last_commit: 0323749
git_last_commit_date: 2022-11-01 15:24:36 -0000 (Tue, 01 Nov 2022)
kunpeng1Linux (Ubuntu 22.04.1 LTS) / aarch64  OK    OK    OK  

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: 2023-02-06 20:26:27 -0000 (Mon, 06 Feb 2023)
EndedAt: 2023-02-06 20:31:52 -0000 (Mon, 06 Feb 2023)
EllapsedTime: 325.4 seconds
RetCode: 0
Status:   OK  
CheckDir: cellmigRation.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### 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) (2023-01-14 r83615)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
    gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
    GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
* running under: Ubuntu 22.04.1 LTS
* 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
Examples with CPU (user + system) or elapsed time > 5s
             user system elapsed
getMSDtable 5.328  0.004   5.333
* 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) (2023-01-14 r83615) -- "Unsuffered Consequences"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-unknown-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 Feb  6 20:28:44 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 
  3.618   0.136   3.745 

Example timings

cellmigRation.Rcheck/cellmigRation-Ex.timings

nameusersystemelapsed
AddDimension0.0020.0000.002
CellMig-class0.0270.0000.027
CellMigPCA1.8250.0111.839
CellMigPCAclust0.0070.0000.008
CellMigPCAclustALL1.0140.0041.019
CellTracker0.0200.0000.021
CellTrackerMainLoop0.0060.0000.005
CentroidArray0.0210.0000.022
CentroidValidation0.7420.0040.746
ComputeTracksStats0.0310.0000.031
DetectRadii0.0040.0000.004
DiAutoCor2.1850.0002.185
DiRatio0.0200.0000.021
DiRatioPlot0.0350.0040.040
EstimateDiameterRange0.0180.0000.019
FMI0.7360.0080.744
FianlizeOptiParams0.0000.0000.001
FilterTrackedCells0.0030.0000.003
FinRes1.0200.0081.028
ForwardMigration1.5040.0001.504
GenAllCombos0.0030.0000.004
LinearConv20.0260.0000.026
LoadTiff0.0010.0000.000
MSD2.5300.0482.581
MakeHypercube0.0020.0000.001
MigrationStats0.0000.0010.001
NextOdd000
NonParallel4OptimizeParams0.0000.0010.001
NonParallelTrackLoop000
OptimizeParams0.0140.0040.018
OptimizeParamsMainLoop0.0050.0000.004
Parallel4OptimizeParams0.0000.0000.001
ParallelTrackLoop0.0010.0000.001
PerAndSpeed0.3770.0080.387
PlotTracksSeparately0.0090.0000.009
PostProcessTracking0.0000.0000.001
Prep4OptimizeParams0.1250.0040.130
ThreeConditions0.0170.0000.018
TrackCellsDataset0.0180.0000.018
TrajectoryDataset0.0210.0000.020
ValidateTrackingArgs0.0000.0000.001
VeAutoCor1.6390.0041.644
VisualizeCntr0.0030.0000.003
VisualizeImg0.0030.0040.006
VisualizeStackCentroids0.0620.0000.062
WSADataset0.0060.0000.006
aggregateFR0.9570.0040.961
aggregateTrackedCells0.0200.0040.024
bpass0.0830.0000.083
circshift0.0010.0000.001
cntrd1.0830.0041.088
fixDA0.0000.0000.001
fixExpName0.0000.0000.001
fixFM1000
fixFM2000
fixFM3000
fixFM40.0010.0000.001
fixFM50.0000.0000.001
fixFM6000
fixID1000
fixMSD0.0000.0010.000
fixPER10.0000.0010.000
fixPER2000
fixPER30.0000.0000.001
getAvailableAggrMetrics1.3820.0041.387
getCellImages0.2270.3280.554
getCellMigSlot0.2570.1960.453
getCellTrackMeta0.0180.0000.018
getCellTrackStats0.0220.0000.022
getCellTracks0.0180.0000.018
getCellsMeta0.0180.0000.018
getCellsStats0.0210.0000.020
getDACtable2.9580.0042.963
getDiRatio0.0230.0000.022
getFMItable0.6990.0000.699
getForMigtable0.8750.0000.876
getImageCentroids0.0250.0000.025
getImageStacks0.0490.0120.062
getMSDtable5.3280.0045.333
getOptimizedParameters0.0130.0040.017
getOptimizedParams0.0190.0000.019
getPerAndSpeed0.3740.0000.375
getPopulationStats0.0100.0080.019
getProcessedImages0.1880.3520.539
getProcessingStatus0.0090.0080.017
getResults0.9570.0000.956
getTracks0.0150.0040.019
getVACtable1.6270.0001.627
initializeTrackParams000
innerBondRaster0.0010.0000.001
internalPermutation0.0010.0000.001
matfix0.0000.0010.001
nontrivialBondTracking0.0000.0010.002
pkfnd1.0840.0011.085
plot3DAllTracks0.1030.0280.133
plot3DTracks0.0080.0000.008
plotAllTracks0.0210.0000.020
plotSampleTracks0.0150.0000.016
preProcCellMig0.0030.0040.007
rmPreProcessing0.1360.0040.139
runTrackingPermutation0.0020.0000.002
setAnalyticParams0.0170.0000.018
setCellMigSlot0.0130.0080.022
setCellTracks0.0180.0000.018
setCellsMeta0.0180.0000.018
setExpName0.0170.0040.021
setOptimizedParams0.0150.0040.018
setProcessedImages0.0140.0040.018
setProcessingStatus0.0180.0000.018
setTrackedCellsMeta0.0180.0000.018
setTrackedCentroids0.0180.0000.018
setTrackedPositions0.0180.0000.019
setTrackingStats0.0100.0080.019
sinkAway0.0000.0000.001
subNetworkTracking0.0020.0000.001
track0.0120.0000.012
trackHypercubeBuild0.0010.0000.001
trackSlideProcessing0.0010.0000.000
trackSlideWrapUp0.0010.0000.001
trivialBondRaster0.0020.0000.002
trivialBondTracking0.0010.0000.000
visualizeCellTracks0.0980.0000.098
visualizeTrcks0.0320.0000.032
warnMessage0.0000.0000.001
wsaPreProcessing0.0720.0020.075