Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-12-23 12:04 -0500 (Mon, 23 Dec 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4744 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4487 |
merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4515 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4467 |
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 |
Package 303/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
cellmigRation 1.14.0 (landing page) Waldir Leoncio
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | |||||||||
To the developers/maintainers of the cellmigRation package: - 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 Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
Package: cellmigRation |
Version: 1.14.0 |
Command: F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:cellmigRation.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings cellmigRation_1.14.0.tar.gz |
StartedAt: 2024-12-19 23:51:47 -0500 (Thu, 19 Dec 2024) |
EndedAt: 2024-12-19 23:54:23 -0500 (Thu, 19 Dec 2024) |
EllapsedTime: 156.5 seconds |
RetCode: 0 |
Status: OK |
CheckDir: cellmigRation.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:cellmigRation.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings cellmigRation_1.14.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'F:/biocbuild/bbs-3.20-bioc/meat/cellmigRation.Rcheck' * using R version 4.4.2 (2024-10-31 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 13.3.0 GNU Fortran (GCC) 13.3.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * using option '--no-vignettes' * checking for file 'cellmigRation/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'cellmigRation' version '1.14.0' * 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 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 code 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 ... NOTE Documented arguments not in \usage in Rd file 'fixDA.Rd': 'object' Documented arguments not in \usage in Rd file 'fixFM1.Rd': 'object' Documented arguments not in \usage in Rd file 'fixFM2.Rd': 'object' Documented arguments not in \usage in Rd file 'fixFM3.Rd': 'object' Documented arguments not in \usage in Rd file 'fixFM4.Rd': 'object' Documented arguments not in \usage in Rd file 'fixFM5.Rd': 'object' Documented arguments not in \usage in Rd file 'fixFM6.Rd': 'object' Documented arguments not in \usage in Rd file 'fixID2.Rd': 'TimeInterval' Documented arguments not in \usage in Rd file 'fixID3.Rd': 'TimeInterval' Documented arguments not in \usage in Rd file 'fixID4.Rd': 'TimeInterval' Documented arguments not in \usage in Rd file 'fixMSD.Rd': 'object' Documented arguments not in \usage in Rd file 'fixPER1.Rd': 'x' Documented arguments not in \usage in Rd file 'fixPER2.Rd': 'x' Documented arguments not in \usage in Rd file 'innerBondRaster.Rd': 'i' Functions with \usage entries need to have the appropriate \alias entries, and all their arguments documented. The \usage entries must correspond to syntactically valid R code. See chapter 'Writing R documentation files' in the 'Writing R Extensions' manual. * 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 ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 1 NOTE See 'F:/biocbuild/bbs-3.20-bioc/meat/cellmigRation.Rcheck/00check.log' for details.
cellmigRation.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL cellmigRation ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.20-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)
cellmigRation.Rcheck/tests/runTests.Rout
R version 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-w64-mingw32/x64 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 Dec 19 23:54:05 2024 *********************************************** 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 3.39 0.46 3.84
cellmigRation.Rcheck/cellmigRation-Ex.timings
name | user | system | elapsed | |
AddDimension | 0 | 0 | 0 | |
CellMig-class | 0.01 | 0.00 | 0.01 | |
CellMigPCA | 1.62 | 0.04 | 1.67 | |
CellMigPCAclust | 0.02 | 0.00 | 0.01 | |
CellMigPCAclustALL | 1.12 | 0.06 | 1.19 | |
CellTracker | 0.02 | 0.02 | 0.03 | |
CellTrackerMainLoop | 0 | 0 | 0 | |
CentroidArray | 0.01 | 0.02 | 0.03 | |
CentroidValidation | 0.53 | 0.01 | 0.55 | |
ComputeTracksStats | 0.02 | 0.02 | 0.03 | |
DetectRadii | 0 | 0 | 0 | |
DiAutoCor | 1.45 | 0.04 | 1.50 | |
DiRatio | 0.02 | 0.00 | 0.02 | |
DiRatioPlot | 0.06 | 0.02 | 0.12 | |
EstimateDiameterRange | 0.03 | 0.00 | 0.03 | |
FMI | 0.46 | 0.02 | 0.47 | |
FianlizeOptiParams | 0 | 0 | 0 | |
FilterTrackedCells | 0 | 0 | 0 | |
FinRes | 0.81 | 0.01 | 0.83 | |
ForwardMigration | 1.33 | 0.05 | 1.38 | |
GenAllCombos | 0 | 0 | 0 | |
LinearConv2 | 0.03 | 0.00 | 0.03 | |
LoadTiff | 0 | 0 | 0 | |
MSD | 1.90 | 0.03 | 1.97 | |
MakeHypercube | 0 | 0 | 0 | |
MigrationStats | 0 | 0 | 0 | |
NextOdd | 0 | 0 | 0 | |
NonParallel4OptimizeParams | 0 | 0 | 0 | |
NonParallelTrackLoop | 0 | 0 | 0 | |
OptimizeParams | 0.00 | 0.01 | 0.02 | |
OptimizeParamsMainLoop | 0.02 | 0.00 | 0.01 | |
Parallel4OptimizeParams | 0 | 0 | 0 | |
ParallelTrackLoop | 0 | 0 | 0 | |
PerAndSpeed | 0.41 | 0.05 | 0.47 | |
PlotTracksSeparately | 0.00 | 0.02 | 0.02 | |
PostProcessTracking | 0 | 0 | 0 | |
Prep4OptimizeParams | 0.14 | 0.01 | 0.15 | |
ThreeConditions | 0.00 | 0.03 | 0.03 | |
TrackCellsDataset | 0.01 | 0.00 | 0.02 | |
TrajectoryDataset | 0.02 | 0.00 | 0.02 | |
ValidateTrackingArgs | 0 | 0 | 0 | |
VeAutoCor | 1.32 | 0.07 | 1.38 | |
VisualizeCntr | 0.00 | 0.01 | 0.01 | |
VisualizeImg | 0 | 0 | 0 | |
VisualizeStackCentroids | 0.06 | 0.02 | 0.08 | |
WSADataset | 0.00 | 0.01 | 0.02 | |
aggregateFR | 0.90 | 0.03 | 0.93 | |
aggregateTrackedCells | 0.00 | 0.04 | 0.03 | |
bpass | 0.07 | 0.00 | 0.07 | |
circshift | 0 | 0 | 0 | |
cntrd | 1.00 | 0.01 | 1.02 | |
fixDA | 0 | 0 | 0 | |
fixExpName | 0 | 0 | 0 | |
fixFM1 | 0 | 0 | 0 | |
fixFM2 | 0 | 0 | 0 | |
fixFM3 | 0 | 0 | 0 | |
fixFM4 | 0 | 0 | 0 | |
fixFM5 | 0 | 0 | 0 | |
fixFM6 | 0 | 0 | 0 | |
fixID1 | 0 | 0 | 0 | |
fixMSD | 0 | 0 | 0 | |
fixPER1 | 0 | 0 | 0 | |
fixPER2 | 0.00 | 0.02 | 0.02 | |
fixPER3 | 0 | 0 | 0 | |
getAvailableAggrMetrics | 0.98 | 0.01 | 1.02 | |
getCellImages | 0.67 | 0.50 | 1.17 | |
getCellMigSlot | 0.57 | 0.44 | 1.00 | |
getCellTrackMeta | 0.00 | 0.03 | 0.03 | |
getCellTrackStats | 0.01 | 0.00 | 0.01 | |
getCellTracks | 0.03 | 0.00 | 0.04 | |
getCellsMeta | 0.02 | 0.00 | 0.01 | |
getCellsStats | 0.03 | 0.00 | 0.03 | |
getDACtable | 2.27 | 0.03 | 2.29 | |
getDiRatio | 0.03 | 0.00 | 0.04 | |
getFMItable | 0.9 | 0.0 | 0.9 | |
getForMigtable | 0.71 | 0.01 | 0.72 | |
getImageCentroids | 0.03 | 0.00 | 0.03 | |
getImageStacks | 0.06 | 0.00 | 0.06 | |
getMSDtable | 4.34 | 0.07 | 4.41 | |
getOptimizedParameters | 0.04 | 0.00 | 0.03 | |
getOptimizedParams | 0.01 | 0.00 | 0.02 | |
getPerAndSpeed | 0.30 | 0.03 | 0.33 | |
getPopulationStats | 0.01 | 0.00 | 0.01 | |
getProcessedImages | 0.74 | 0.56 | 1.30 | |
getProcessingStatus | 0.01 | 0.00 | 0.01 | |
getResults | 0.83 | 0.00 | 0.83 | |
getTracks | 0.02 | 0.00 | 0.02 | |
getVACtable | 1.20 | 0.03 | 1.23 | |
initializeTrackParams | 0 | 0 | 0 | |
innerBondRaster | 0 | 0 | 0 | |
internalPermutation | 0 | 0 | 0 | |
matfix | 0 | 0 | 0 | |
nontrivialBondTracking | 0 | 0 | 0 | |
pkfnd | 0.86 | 0.08 | 0.96 | |
plot3DAllTracks | 0.09 | 0.02 | 0.10 | |
plot3DTracks | 0.02 | 0.00 | 0.02 | |
plotAllTracks | 0.03 | 0.00 | 0.03 | |
plotSampleTracks | 0.00 | 0.01 | 0.02 | |
preProcCellMig | 0.00 | 0.02 | 0.01 | |
rmPreProcessing | 0.06 | 0.01 | 0.08 | |
runTrackingPermutation | 0.02 | 0.00 | 0.02 | |
setAnalyticParams | 0.01 | 0.00 | 0.01 | |
setCellMigSlot | 0.02 | 0.02 | 0.03 | |
setCellTracks | 0.02 | 0.00 | 0.02 | |
setCellsMeta | 0.01 | 0.00 | 0.01 | |
setExpName | 0.02 | 0.01 | 0.04 | |
setOptimizedParams | 0.01 | 0.00 | 0.01 | |
setProcessedImages | 0.02 | 0.02 | 0.03 | |
setProcessingStatus | 0.03 | 0.00 | 0.03 | |
setTrackedCellsMeta | 0.02 | 0.00 | 0.02 | |
setTrackedCentroids | 0.00 | 0.03 | 0.03 | |
setTrackedPositions | 0.01 | 0.02 | 0.03 | |
setTrackingStats | 0.00 | 0.01 | 0.02 | |
sinkAway | 0 | 0 | 0 | |
subNetworkTracking | 0.02 | 0.00 | 0.01 | |
track | 0 | 0 | 0 | |
trackHypercubeBuild | 0 | 0 | 0 | |
trackSlideProcessing | 0 | 0 | 0 | |
trackSlideWrapUp | 0 | 0 | 0 | |
trivialBondRaster | 0.01 | 0.02 | 0.03 | |
trivialBondTracking | 0 | 0 | 0 | |
visualizeCellTracks | 0.08 | 0.01 | 0.10 | |
visualizeTrcks | 0.03 | 0.00 | 0.03 | |
warnMessage | 0 | 0 | 0 | |
wsaPreProcessing | 0.06 | 0.02 | 0.08 | |