Back to Build/check report for BioC 3.17:   simplified   long
AB[C]DEFGHIJKLMNOPQRSTUVWXYZ

This page was generated on 2023-02-27 02:34:30 -0000 (Mon, 27 Feb 2023).

HostnameOSArch (*)R versionInstalled pkgs
kunpeng1Linux (Ubuntu 22.04.1 LTS)aarch64R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" 4259
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

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 276/2169HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
cellmigRation 1.7.0  (landing page)
Waldir Leoncio
Snapshot Date: 2023-02-23 09:40:21 -0000 (Thu, 23 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: 2023-02-24 08:33:03 -0000 (Fri, 24 Feb 2023)
EndedAt: 2023-02-24 08:39:03 -0000 (Fri, 24 Feb 2023)
EllapsedTime: 360.0 seconds
RetCode: 0
Status:   OK  
CheckDir: cellmigRation.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### 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 5.457  0.096   5.554
* 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 -- Fri Feb 24 08:35:44 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 
  3.630   0.268   3.887 

Example timings

cellmigRation.Rcheck/cellmigRation-Ex.timings

nameusersystemelapsed
AddDimension0.0030.0000.003
CellMig-class0.0270.0000.027
CellMigPCA1.8710.0081.883
CellMigPCAclust0.0080.0000.008
CellMigPCAclustALL1.0370.0001.037
CellTracker0.0140.0070.020
CellTrackerMainLoop0.0040.0030.006
CentroidArray0.0210.0080.030
CentroidValidation0.7480.0400.788
ComputeTracksStats0.0310.0000.030
DetectRadii0.0030.0000.003
DiAutoCor2.1640.0082.171
DiRatio0.0210.0000.021
DiRatioPlot0.0330.0080.041
EstimateDiameterRange0.0190.0000.018
FMI0.7420.0000.743
FianlizeOptiParams0.0000.0000.001
FilterTrackedCells0.0010.0020.004
FinRes1.0010.0441.045
ForwardMigration1.5180.0001.518
GenAllCombos0.0030.0000.004
LinearConv20.0260.0000.027
LoadTiff0.0010.0000.001
MSD2.4500.1682.620
MakeHypercube0.0020.0000.002
MigrationStats0.0010.0000.001
NextOdd0.0010.0000.000
NonParallel4OptimizeParams0.0010.0000.001
NonParallelTrackLoop0.0000.0000.001
OptimizeParams0.0060.0120.019
OptimizeParamsMainLoop0.0030.0020.004
Parallel4OptimizeParams0.0000.0000.001
ParallelTrackLoop0.0010.0000.000
PerAndSpeed0.3880.0080.399
PlotTracksSeparately0.0100.0000.009
PostProcessTracking0.0010.0000.001
Prep4OptimizeParams0.1180.0080.126
ThreeConditions0.0140.0040.018
TrackCellsDataset0.0180.0000.018
TrajectoryDataset0.0200.0000.021
ValidateTrackingArgs0.0010.0000.001
VeAutoCor1.6540.0081.662
VisualizeCntr0.0020.0000.003
VisualizeImg0.0060.0000.006
VisualizeStackCentroids0.0580.0040.062
WSADataset0.0060.0000.007
aggregateFR0.9850.0080.993
aggregateTrackedCells0.0240.0000.024
bpass0.0840.0000.084
circshift0.0000.0000.001
cntrd1.1230.0041.127
fixDA0.0010.0000.000
fixExpName000
fixFM1000
fixFM2000
fixFM30.0000.0000.001
fixFM40.0000.0000.001
fixFM5000
fixFM6000
fixID10.0010.0000.000
fixMSD000
fixPER10.0010.0000.000
fixPER20.0010.0000.000
fixPER30.0010.0000.000
getAvailableAggrMetrics1.4510.0081.458
getCellImages0.2450.4080.652
getCellMigSlot0.2380.2760.513
getCellTrackMeta0.0110.0080.019
getCellTrackStats0.0190.0040.023
getCellTracks0.0140.0050.019
getCellsMeta0.0130.0060.019
getCellsStats0.0220.0000.021
getDACtable3.0710.0203.091
getDiRatio0.0200.0040.023
getFMItable0.7150.0000.715
getForMigtable0.8950.0080.902
getImageCentroids0.0260.0000.025
getImageStacks0.0580.0040.062
getMSDtable5.4570.0965.554
getOptimizedParameters0.0170.0000.017
getOptimizedParams0.0120.0080.020
getPerAndSpeed0.3780.0080.386
getPopulationStats0.0190.0000.019
getProcessedImages0.2320.4040.636
getProcessingStatus0.0140.0040.017
getResults0.9510.0040.955
getTracks0.0120.0070.019
getVACtable1.6280.0001.628
initializeTrackParams0.0010.0000.000
innerBondRaster0.0020.0000.001
internalPermutation0.0010.0000.001
matfix0.0010.0000.001
nontrivialBondTracking0.0020.0000.001
pkfnd1.0990.0001.099
plot3DAllTracks0.1160.1100.648
plot3DTracks0.0070.0030.011
plotAllTracks0.0230.0000.023
plotSampleTracks0.0170.0000.016
preProcCellMig0.0070.0000.007
rmPreProcessing0.1510.0110.162
runTrackingPermutation0.0020.0000.002
setAnalyticParams0.0180.0000.018
setCellMigSlot0.0210.0000.022
setCellTracks0.0150.0030.018
setCellsMeta0.0060.0120.019
setExpName0.0180.0050.021
setOptimizedParams0.0150.0040.019
setProcessedImages0.0190.0000.019
setProcessingStatus0.0180.0030.022
setTrackedCellsMeta0.0110.0080.019
setTrackedCentroids0.0150.0040.019
setTrackedPositions0.0100.0090.019
setTrackingStats0.0150.0040.019
sinkAway0.0010.0000.001
subNetworkTracking0.0020.0000.001
track0.0100.0030.013
trackHypercubeBuild0.0010.0010.001
trackSlideProcessing0.0010.0000.000
trackSlideWrapUp0.0010.0000.001
trivialBondRaster0.0020.0000.003
trivialBondTracking0.0000.0000.001
visualizeCellTracks0.0950.0230.118
visualizeTrcks0.0330.0000.033
warnMessage0.0000.0000.001
wsaPreProcessing0.0740.0030.076