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This page was generated on 2023-02-23 01:33:49 -0000 (Thu, 23 Feb 2023).

HostnameOSArch (*)R versionInstalled pkgs
kunpeng1Linux (Ubuntu 22.04.1 LTS)aarch64R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" 4245
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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: 2023-02-21 12:29:53 -0000 (Tue, 21 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: 2023-02-22 02:03:52 -0000 (Wed, 22 Feb 2023)
EndedAt: 2023-02-22 02:09:27 -0000 (Wed, 22 Feb 2023)
EllapsedTime: 335.5 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 5.411  0.007    5.42
* 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

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##############################################################################
###
### 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 -- Wed Feb 22 02:06:11 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 
  3.614   0.205   3.804 

Example timings

cellmigRation.Rcheck/cellmigRation-Ex.timings

nameusersystemelapsed
AddDimension0.0030.0000.003
CellMig-class0.0270.0000.028
CellMigPCA1.8450.0441.889
CellMigPCAclust0.0070.0000.007
CellMigPCAclustALL1.0360.0001.036
CellTracker0.020.000.02
CellTrackerMainLoop0.0070.0000.005
CentroidArray0.0220.0000.022
CentroidValidation0.7240.0110.735
ComputeTracksStats0.0310.0000.031
DetectRadii0.0030.0000.004
DiAutoCor2.1690.0202.190
DiRatio0.0210.0000.021
DiRatioPlot0.0370.0050.041
EstimateDiameterRange0.0190.0000.018
FMI0.7420.0000.741
FianlizeOptiParams0.0010.0000.000
FilterTrackedCells0.0040.0000.003
FinRes1.0210.0041.025
ForwardMigration1.5160.0281.544
GenAllCombos0.0000.0030.004
LinearConv20.0290.0010.029
LoadTiff0.0010.0000.001
MSD2.4970.0992.599
MakeHypercube0.0020.0000.002
MigrationStats0.0010.0000.001
NextOdd0.0000.0010.001
NonParallel4OptimizeParams0.0000.0010.001
NonParallelTrackLoop000
OptimizeParams0.0180.0000.019
OptimizeParamsMainLoop0.0040.0010.005
Parallel4OptimizeParams0.0000.0010.001
ParallelTrackLoop0.0000.0010.001
PerAndSpeed0.3930.0160.413
PlotTracksSeparately0.0090.0000.009
PostProcessTracking000
Prep4OptimizeParams0.1210.0030.125
ThreeConditions0.0170.0010.017
TrackCellsDataset0.0140.0030.018
TrajectoryDataset0.0210.0010.020
ValidateTrackingArgs0.0000.0000.001
VeAutoCor1.6390.0041.643
VisualizeCntr0.0030.0000.002
VisualizeImg0.0020.0030.006
VisualizeStackCentroids0.0620.0010.062
WSADataset0.0060.0000.006
aggregateFR0.9640.0160.981
aggregateTrackedCells0.0210.0030.025
bpass0.0810.0030.085
circshift0.0000.0000.001
cntrd1.0680.0401.108
fixDA000
fixExpName0.0000.0010.001
fixFM1000
fixFM2000
fixFM3000
fixFM40.0000.0010.000
fixFM50.0000.0000.001
fixFM60.0000.0000.001
fixID10.0000.0000.001
fixMSD0.0000.0000.001
fixPER1000
fixPER2000
fixPER3000
getAvailableAggrMetrics1.4390.0011.440
getCellImages0.2370.3270.565
getCellMigSlot0.2240.2400.464
getCellTrackMeta0.0100.0080.018
getCellTrackStats0.0190.0050.022
getCellTracks0.0190.0000.019
getCellsMeta0.0180.0000.018
getCellsStats0.0130.0070.021
getDACtable2.9590.0252.982
getDiRatio0.0230.0000.022
getFMItable0.7010.0000.701
getForMigtable0.8800.0350.916
getImageCentroids0.0260.0010.025
getImageStacks0.0550.0070.063
getMSDtable5.4110.0075.420
getOptimizedParameters0.0140.0030.018
getOptimizedParams0.0160.0040.020
getPerAndSpeed0.3910.0000.391
getPopulationStats0.0150.0040.019
getProcessedImages0.2070.3400.548
getProcessingStatus0.0180.0000.017
getResults0.9730.0000.974
getTracks0.0150.0030.019
getVACtable1.6360.0041.640
initializeTrackParams0.0010.0000.000
innerBondRaster0.0020.0000.002
internalPermutation0.0020.0000.001
matfix0.0020.0000.001
nontrivialBondTracking0.0010.0000.001
pkfnd1.1000.0281.128
plot3DAllTracks0.0990.0280.127
plot3DTracks0.0080.0000.008
plotAllTracks0.0160.0040.021
plotSampleTracks0.0160.0000.016
preProcCellMig0.0070.0000.007
rmPreProcessing0.1380.0000.139
runTrackingPermutation0.0020.0010.002
setAnalyticParams0.0170.0000.017
setCellMigSlot0.0220.0000.022
setCellTracks0.0190.0000.018
setCellsMeta0.0140.0030.018
setExpName0.0210.0000.021
setOptimizedParams0.0180.0000.018
setProcessedImages0.0180.0000.018
setProcessingStatus0.0060.0110.018
setTrackedCellsMeta0.0180.0000.018
setTrackedCentroids0.0180.0010.018
setTrackedPositions0.0190.0000.018
setTrackingStats0.0180.0000.018
sinkAway0.0010.0000.001
subNetworkTracking0.0020.0000.002
track0.0080.0030.012
trackHypercubeBuild0.0010.0000.001
trackSlideProcessing0.0010.0000.001
trackSlideWrapUp000
trivialBondRaster0.0020.0000.002
trivialBondTracking000
visualizeCellTracks0.0870.0120.099
visualizeTrcks0.0280.0040.032
warnMessage000
wsaPreProcessing0.0750.0000.075