Back to Multiple platform build/check report for BioC 3.15
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This page was generated on 2022-01-17 11:05:26 -0500 (Mon, 17 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 20.04.4 LTS)x86_64R Under development (unstable) (2022-01-05 r81451) -- "Unsuffered Consequences" 4161
riesling1Windows Server 2019 Standardx64R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" 4056
palomino3Windows Server 2022 Datacenterx64R Under development (unstable) (2021-12-21 r81400 ucrt) -- "Unsuffered Consequences" 3998
merida1macOS 10.14.6 Mojavex86_64R Under development (unstable) (2022-01-05 r81451) -- "Unsuffered Consequences" 4115
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 nebbiolo1


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? here 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 267/2074HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
cellmigRation 1.3.0  (landing page)
Waldir Leoncio
Snapshot Date: 2022-01-16 13:55:18 -0500 (Sun, 16 Jan 2022)
git_url: https://git.bioconductor.org/packages/cellmigRation
git_branch: master
git_last_commit: 71dc596
git_last_commit_date: 2021-10-26 13:08:41 -0500 (Tue, 26 Oct 2021)
nebbiolo1Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
riesling1Windows Server 2019 Standard / x64  OK    OK    OK    OK  
palomino3Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: cellmigRation
Version: 1.3.0
Command: /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD check --install=check:cellmigRation.install-out.txt --library=/home/biocbuild/bbs-3.15-bioc/R/library --no-vignettes --timings cellmigRation_1.3.0.tar.gz
StartedAt: 2022-01-16 18:31:07 -0500 (Sun, 16 Jan 2022)
EndedAt: 2022-01-16 18:32:55 -0500 (Sun, 16 Jan 2022)
EllapsedTime: 108.1 seconds
RetCode: 0
Status:   OK  
CheckDir: cellmigRation.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD check --install=check:cellmigRation.install-out.txt --library=/home/biocbuild/bbs-3.15-bioc/R/library --no-vignettes --timings cellmigRation_1.3.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.15-bioc/meat/cellmigRation.Rcheck’
* using R Under development (unstable) (2022-01-05 r81451)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘cellmigRation/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘cellmigRation’ version ‘1.3.0’
* 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:
###
###   /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD INSTALL cellmigRation
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.15-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) (2022-01-05 r81451) -- "Unsuffered Consequences"
Copyright (C) 2022 The R Foundation for Statistical Computing
Platform: x86_64-pc-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 -- Sun Jan 16 18:32:51 2022 
*********************************************** 
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 
  2.702   0.172   2.860 

Example timings

cellmigRation.Rcheck/cellmigRation-Ex.timings

nameusersystemelapsed
AddDimension0.0030.0000.003
CellMig-class0.0270.0000.028
CellMigPCA1.3710.0471.419
CellMigPCAclust0.0080.0010.008
CellMigPCAclustALL0.6090.0030.614
CellTracker0.0160.0040.020
CellTrackerMainLoop0.0090.0070.033
CentroidArray0.0250.0000.025
CentroidValidation0.4520.0080.460
ComputeTracksStats0.0220.0040.027
DetectRadii0.0020.0000.003
DiAutoCor1.2480.0081.256
DiRatio0.0170.0000.016
DiRatioPlot0.0300.0040.034
EstimateDiameterRange0.0140.0000.013
FMI0.4480.0000.448
FianlizeOptiParams0.0000.0000.001
FilterTrackedCells0.0030.0000.003
FinRes0.6870.1600.847
ForwardMigration0.8660.0000.866
GenAllCombos0.0030.0000.003
LinearConv20.020.000.02
LoadTiff0.0010.0000.001
MSD1.3790.0731.453
MakeHypercube0.0020.0000.001
MigrationStats0.0000.0010.002
NextOdd0.0000.0000.001
NonParallel4OptimizeParams0.0000.0010.002
NonParallelTrackLoop0.0000.0000.001
OptimizeParams0.0160.0040.020
OptimizeParamsMainLoop0.0120.0020.030
Parallel4OptimizeParams0.0000.0010.001
ParallelTrackLoop0.0000.0010.002
PerAndSpeed0.2890.0120.302
PlotTracksSeparately0.0090.0000.009
PostProcessTracking0.0010.0000.001
Prep4OptimizeParams0.0940.0000.094
ThreeConditions0.0070.0080.015
TrackCellsDataset0.0100.0080.017
TrajectoryDataset0.0220.0000.022
ValidateTrackingArgs0.0010.0000.001
VeAutoCor0.9780.0120.990
VisualizeCntr0.0020.0000.002
VisualizeImg0.0050.0000.005
VisualizeStackCentroids0.0570.0070.064
WSADataset0.0070.0000.007
aggregateFR0.5920.0000.592
aggregateTrackedCells0.0210.0040.025
bpass0.0560.0000.056
circshift0.0010.0000.001
cntrd0.6490.0000.650
fixDA0.0000.0010.000
fixExpName0.0000.0010.000
fixFM10.0000.0010.000
fixFM2000
fixFM3000
fixFM4000
fixFM50.0000.0000.001
fixFM60.0000.0000.001
fixID10.0010.0000.001
fixMSD0.0000.0000.001
fixPER10.0000.0000.001
fixPER20.0010.0000.000
fixPER30.0010.0000.001
getAvailableAggrMetrics0.850.000.85
getCellImages0.3141.1801.493
getCellMigSlot0.2960.7401.036
getCellTrackMeta0.0120.0040.017
getCellTrackStats0.0180.0040.021
getCellTracks0.0130.0060.019
getCellsMeta0.0120.0050.017
getCellsStats0.0160.0040.019
getDACtable2.0020.0812.085
getDiRatio0.0170.0020.019
getFMItable0.4020.0000.402
getForMigtable0.4870.0040.491
getImageCentroids0.0250.0000.024
getImageStacks0.0640.0000.063
getMSDtable3.2900.0053.295
getOptimizedParameters0.0120.0050.017
getOptimizedParams0.0150.0040.019
getPerAndSpeed0.3220.0030.326
getPopulationStats0.0190.0000.019
getProcessedImages0.2741.2881.562
getProcessingStatus0.0090.0070.017
getResults0.6370.0060.643
getTracks0.0150.0030.020
getVACtable1.0240.0011.025
initializeTrackParams0.0010.0000.000
innerBondRaster0.0020.0000.001
internalPermutation0.0020.0000.001
matfix0.0000.0010.001
nontrivialBondTracking0.0000.0010.001
pkfnd0.6330.0080.641
plot3DAllTracks0.1470.0180.169
plot3DTracks0.0090.0000.008
plotAllTracks0.0180.0000.018
plotSampleTracks0.0140.0000.015
preProcCellMig0.0070.0000.007
rmPreProcessing0.0790.0000.079
runTrackingPermutation0.0020.0000.002
setAnalyticParams0.0090.0080.017
setCellMigSlot0.0220.0000.022
setCellTracks0.0160.0000.017
setCellsMeta0.0170.0000.017
setExpName0.0220.0000.022
setOptimizedParams0.0170.0000.017
setProcessedImages0.0160.0010.016
setProcessingStatus0.0220.0060.029
setTrackedCellsMeta0.0130.0040.017
setTrackedCentroids0.0160.0000.016
setTrackedPositions0.0170.0000.017
setTrackingStats0.0130.0040.016
sinkAway0.0010.0000.001
subNetworkTracking0.0020.0000.002
track0.0100.0000.009
trackHypercubeBuild0.0010.0000.001
trackSlideProcessing0.0010.0000.001
trackSlideWrapUp0.0010.0000.001
trivialBondRaster0.0020.0000.002
trivialBondTracking000
visualizeCellTracks0.0600.0060.066
visualizeTrcks0.0240.0000.024
warnMessage0.0000.0000.001
wsaPreProcessing0.0470.0000.047