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This page was generated on 2023-02-03 02:35:47 -0000 (Fri, 03 Feb 2023).

HostnameOSArch (*)R versionInstalled pkgs
kunpeng1Linux (Ubuntu 22.04.1 LTS)aarch64R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" 4039
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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: 2023-02-01 03:13:00 -0000 (Wed, 01 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: 2023-02-02 02:59:58 -0000 (Thu, 02 Feb 2023)
EndedAt: 2023-02-02 03:06:10 -0000 (Thu, 02 Feb 2023)
EllapsedTime: 371.5 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 5.531  0.001   5.797
* 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 -- Thu Feb  2 03:02:31 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 
  3.686   0.150   3.833 

Example timings

cellmigRation.Rcheck/cellmigRation-Ex.timings

nameusersystemelapsed
AddDimension0.0030.0000.003
CellMig-class0.0270.0000.028
CellMigPCA1.9010.0202.098
CellMigPCAclust0.0080.0000.008
CellMigPCAclustALL1.0370.0041.055
CellTracker0.0200.0000.021
CellTrackerMainLoop0.0040.0010.009
CentroidArray0.0170.0030.022
CentroidValidation0.7250.0080.744
ComputeTracksStats0.0300.0000.031
DetectRadii0.0000.0030.003
DiAutoCor2.2330.0042.320
DiRatio0.0210.0000.020
DiRatioPlot0.0380.0040.074
EstimateDiameterRange0.0180.0020.047
FMI0.7510.0060.775
FianlizeOptiParams0.0010.0000.001
FilterTrackedCells0.0030.0000.004
FinRes1.0500.0001.157
ForwardMigration1.5660.0001.653
GenAllCombos0.0040.0000.004
LinearConv20.0270.0010.027
LoadTiff0.0010.0000.001
MSD2.5910.0352.784
MakeHypercube0.0020.0000.001
MigrationStats0.0010.0000.001
NextOdd0.0010.0000.000
NonParallel4OptimizeParams0.0010.0000.001
NonParallelTrackLoop000
OptimizeParams0.0110.0080.021
OptimizeParamsMainLoop0.0060.0000.031
Parallel4OptimizeParams0.0010.0000.001
ParallelTrackLoop0.0000.0010.000
PerAndSpeed0.3790.0100.397
PlotTracksSeparately0.0050.0040.009
PostProcessTracking000
Prep4OptimizeParams0.1320.0000.152
ThreeConditions0.0090.0080.017
TrackCellsDataset0.0130.0040.018
TrajectoryDataset0.0200.0000.021
ValidateTrackingArgs000
VeAutoCor1.6470.0101.838
VisualizeCntr0.0020.0000.002
VisualizeImg0.0060.0000.022
VisualizeStackCentroids0.0620.0000.102
WSADataset0.0030.0040.006
aggregateFR0.9820.0001.131
aggregateTrackedCells0.0210.0040.025
bpass0.0800.0040.084
circshift0.0010.0000.001
cntrd1.0970.0081.331
fixDA0.0000.0000.001
fixExpName000
fixFM1000
fixFM2000
fixFM30.0000.0010.001
fixFM4000
fixFM5000
fixFM6000
fixID1000
fixMSD000
fixPER1000
fixPER2000
fixPER3000
getAvailableAggrMetrics1.4580.0001.517
getCellImages0.2020.3470.561
getCellMigSlot0.2480.1990.472
getCellTrackMeta0.0110.0080.018
getCellTrackStats0.0190.0040.022
getCellTracks0.0150.0040.019
getCellsMeta0.0190.0000.018
getCellsStats0.0210.0000.021
getDACtable3.0210.0003.629
getDiRatio0.0230.0000.023
getFMItable0.7190.0000.835
getForMigtable0.8920.0030.989
getImageCentroids0.0250.0000.025
getImageStacks0.0530.0080.061
getMSDtable5.5310.0015.797
getOptimizedParameters0.0140.0040.017
getOptimizedParams0.0160.0040.021
getPerAndSpeed0.3630.0190.384
getPopulationStats0.0110.0080.018
getProcessedImages0.1910.3420.586
getProcessingStatus0.0170.0000.017
getResults0.9750.0041.060
getTracks0.0190.0000.019
getVACtable1.6730.0011.747
initializeTrackParams0.0010.0000.001
innerBondRaster0.0020.0000.002
internalPermutation0.0020.0000.001
matfix0.0020.0000.002
nontrivialBondTracking0.0020.0000.002
pkfnd1.0800.0081.168
plot3DAllTracks0.0950.0280.236
plot3DTracks0.0080.0000.008
plotAllTracks0.0180.0040.042
plotSampleTracks0.0160.0000.028
preProcCellMig0.0070.0000.023
rmPreProcessing0.1450.0000.193
runTrackingPermutation0.0020.0000.001
setAnalyticParams0.0050.0120.017
setCellMigSlot0.0190.0030.021
setCellTracks0.0140.0040.018
setCellsMeta0.0180.0000.018
setExpName0.0180.0040.021
setOptimizedParams0.0140.0040.018
setProcessedImages0.0150.0040.017
setProcessingStatus0.0180.0000.018
setTrackedCellsMeta0.0060.0120.018
setTrackedCentroids0.0180.0000.018
setTrackedPositions0.0190.0000.019
setTrackingStats0.0170.0000.019
sinkAway0.0000.0010.001
subNetworkTracking0.0000.0020.001
track0.0080.0040.011
trackHypercubeBuild0.0010.0000.001
trackSlideProcessing0.0010.0000.000
trackSlideWrapUp0.0010.0000.000
trivialBondRaster0.0020.0000.002
trivialBondTracking000
visualizeCellTracks0.0940.0030.152
visualizeTrcks0.0330.0000.060
warnMessage0.0010.0000.000
wsaPreProcessing0.0730.0040.145