Back to Multiple platform build/check report for BioC 3.18: simplified long |
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This page was generated on 2024-04-17 11:37:34 -0400 (Wed, 17 Apr 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.3.3 (2024-02-29) -- "Angel Food Cake" | 4676 |
palomino4 | Windows Server 2022 Datacenter | x64 | 4.3.3 (2024-02-29 ucrt) -- "Angel Food Cake" | 4414 |
merida1 | macOS 12.7.1 Monterey | x86_64 | 4.3.3 (2024-02-29) -- "Angel Food Cake" | 4437 |
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 299/2266 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
cellmigRation 1.10.0 (landing page) Waldir Leoncio
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson1 | macOS 13.6.1 Ventura / arm64 | see weekly results here | ||||||||||||
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: 1.10.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:cellmigRation.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings cellmigRation_1.10.0.tar.gz |
StartedAt: 2024-04-16 00:27:53 -0400 (Tue, 16 Apr 2024) |
EndedAt: 2024-04-16 00:32:27 -0400 (Tue, 16 Apr 2024) |
EllapsedTime: 274.5 seconds |
RetCode: 0 |
Status: OK |
CheckDir: cellmigRation.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:cellmigRation.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings cellmigRation_1.10.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.18-bioc/meat/cellmigRation.Rcheck’ * using R version 4.3.3 (2024-02-29) * using platform: x86_64-apple-darwin20 (64-bit) * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Monterey 12.7.1 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘cellmigRation/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘cellmigRation’ version ‘1.10.0’ * 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 10.040 0.071 10.590 getDACtable 5.654 0.034 5.939 * 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
cellmigRation.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL cellmigRation ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/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 4.3.3 (2024-02-29) -- "Angel Food Cake" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-apple-darwin20 (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 -- Tue Apr 16 00:32:07 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 5.951 0.562 7.115
cellmigRation.Rcheck/cellmigRation-Ex.timings
name | user | system | elapsed | |
AddDimension | 0.003 | 0.001 | 0.004 | |
CellMig-class | 0.047 | 0.004 | 0.057 | |
CellMigPCA | 3.255 | 0.053 | 3.483 | |
CellMigPCAclust | 0.012 | 0.004 | 0.021 | |
CellMigPCAclustALL | 2.118 | 0.116 | 2.284 | |
CellTracker | 0.028 | 0.006 | 0.036 | |
CellTrackerMainLoop | 0.007 | 0.010 | 0.026 | |
CentroidArray | 0.030 | 0.004 | 0.035 | |
CentroidValidation | 1.400 | 0.042 | 1.630 | |
ComputeTracksStats | 0.048 | 0.005 | 0.055 | |
DetectRadii | 0.005 | 0.001 | 0.007 | |
DiAutoCor | 3.879 | 0.042 | 4.117 | |
DiRatio | 0.036 | 0.003 | 0.044 | |
DiRatioPlot | 0.060 | 0.021 | 0.088 | |
EstimateDiameterRange | 0.030 | 0.003 | 0.033 | |
FMI | 1.354 | 0.015 | 1.429 | |
FianlizeOptiParams | 0.001 | 0.001 | 0.001 | |
FilterTrackedCells | 0.006 | 0.001 | 0.008 | |
FinRes | 1.816 | 0.024 | 1.945 | |
ForwardMigration | 2.746 | 0.016 | 2.868 | |
GenAllCombos | 0.005 | 0.001 | 0.007 | |
LinearConv2 | 0.046 | 0.003 | 0.052 | |
LoadTiff | 0.002 | 0.000 | 0.002 | |
MSD | 4.219 | 0.051 | 4.798 | |
MakeHypercube | 0.003 | 0.002 | 0.004 | |
MigrationStats | 0.001 | 0.002 | 0.005 | |
NextOdd | 0.001 | 0.000 | 0.001 | |
NonParallel4OptimizeParams | 0.001 | 0.000 | 0.002 | |
NonParallelTrackLoop | 0.000 | 0.000 | 0.001 | |
OptimizeParams | 0.024 | 0.003 | 0.030 | |
OptimizeParamsMainLoop | 0.007 | 0.009 | 0.022 | |
Parallel4OptimizeParams | 0.001 | 0.001 | 0.001 | |
ParallelTrackLoop | 0.001 | 0.001 | 0.002 | |
PerAndSpeed | 0.640 | 0.045 | 0.816 | |
PlotTracksSeparately | 0.015 | 0.003 | 0.020 | |
PostProcessTracking | 0.001 | 0.000 | 0.001 | |
Prep4OptimizeParams | 0.222 | 0.016 | 0.279 | |
ThreeConditions | 0.018 | 0.004 | 0.027 | |
TrackCellsDataset | 0.036 | 0.004 | 0.047 | |
TrajectoryDataset | 0.035 | 0.003 | 0.042 | |
ValidateTrackingArgs | 0.001 | 0.001 | 0.002 | |
VeAutoCor | 3.142 | 0.025 | 3.671 | |
VisualizeCntr | 0.004 | 0.002 | 0.007 | |
VisualizeImg | 0.009 | 0.002 | 0.013 | |
VisualizeStackCentroids | 0.089 | 0.015 | 0.114 | |
WSADataset | 0.010 | 0.002 | 0.014 | |
aggregateFR | 1.891 | 0.013 | 2.161 | |
aggregateTrackedCells | 0.035 | 0.010 | 0.049 | |
bpass | 0.147 | 0.005 | 0.179 | |
circshift | 0.001 | 0.001 | 0.002 | |
cntrd | 2.160 | 0.023 | 2.217 | |
fixDA | 0.001 | 0.001 | 0.001 | |
fixExpName | 0.000 | 0.001 | 0.001 | |
fixFM1 | 0.001 | 0.001 | 0.002 | |
fixFM2 | 0.001 | 0.001 | 0.001 | |
fixFM3 | 0.000 | 0.000 | 0.001 | |
fixFM4 | 0.001 | 0.000 | 0.001 | |
fixFM5 | 0.000 | 0.000 | 0.001 | |
fixFM6 | 0.000 | 0.000 | 0.001 | |
fixID1 | 0.001 | 0.000 | 0.002 | |
fixMSD | 0.001 | 0.000 | 0.001 | |
fixPER1 | 0.001 | 0.000 | 0.001 | |
fixPER2 | 0.000 | 0.000 | 0.001 | |
fixPER3 | 0.001 | 0.001 | 0.002 | |
getAvailableAggrMetrics | 2.728 | 0.018 | 2.839 | |
getCellImages | 0.801 | 2.455 | 3.389 | |
getCellMigSlot | 0.873 | 1.587 | 2.625 | |
getCellTrackMeta | 0.022 | 0.004 | 0.027 | |
getCellTrackStats | 0.030 | 0.006 | 0.037 | |
getCellTracks | 0.024 | 0.007 | 0.033 | |
getCellsMeta | 0.022 | 0.003 | 0.026 | |
getCellsStats | 0.028 | 0.006 | 0.037 | |
getDACtable | 5.654 | 0.034 | 5.939 | |
getDiRatio | 0.041 | 0.004 | 0.046 | |
getFMItable | 1.368 | 0.010 | 1.443 | |
getForMigtable | 1.902 | 0.012 | 1.980 | |
getImageCentroids | 0.036 | 0.007 | 0.045 | |
getImageStacks | 0.090 | 0.013 | 0.110 | |
getMSDtable | 10.040 | 0.071 | 10.590 | |
getOptimizedParameters | 0.022 | 0.004 | 0.026 | |
getOptimizedParams | 0.026 | 0.005 | 0.035 | |
getPerAndSpeed | 0.614 | 0.041 | 0.740 | |
getPopulationStats | 0.025 | 0.004 | 0.030 | |
getProcessedImages | 0.833 | 3.364 | 4.374 | |
getProcessingStatus | 0.023 | 0.003 | 0.025 | |
getResults | 1.800 | 0.024 | 1.905 | |
getTracks | 0.026 | 0.004 | 0.032 | |
getVACtable | 3.069 | 0.017 | 3.342 | |
initializeTrackParams | 0.000 | 0.000 | 0.001 | |
innerBondRaster | 0.003 | 0.001 | 0.004 | |
internalPermutation | 0.002 | 0.001 | 0.002 | |
matfix | 0.002 | 0.000 | 0.003 | |
nontrivialBondTracking | 0.002 | 0.000 | 0.003 | |
pkfnd | 2.096 | 0.016 | 2.275 | |
plot3DAllTracks | 0.000 | 0.001 | 0.001 | |
plot3DTracks | 0.001 | 0.001 | 0.000 | |
plotAllTracks | 0.032 | 0.006 | 0.041 | |
plotSampleTracks | 0.025 | 0.005 | 0.034 | |
preProcCellMig | 0.011 | 0.002 | 0.015 | |
rmPreProcessing | 0.223 | 0.004 | 0.246 | |
runTrackingPermutation | 0.003 | 0.001 | 0.005 | |
setAnalyticParams | 0.062 | 0.005 | 0.073 | |
setCellMigSlot | 0.037 | 0.003 | 0.048 | |
setCellTracks | 0.022 | 0.003 | 0.027 | |
setCellsMeta | 0.023 | 0.003 | 0.027 | |
setExpName | 0.036 | 0.003 | 0.041 | |
setOptimizedParams | 0.024 | 0.004 | 0.029 | |
setProcessedImages | 0.023 | 0.003 | 0.028 | |
setProcessingStatus | 0.024 | 0.003 | 0.030 | |
setTrackedCellsMeta | 0.023 | 0.004 | 0.031 | |
setTrackedCentroids | 0.023 | 0.003 | 0.027 | |
setTrackedPositions | 0.023 | 0.003 | 0.028 | |
setTrackingStats | 0.024 | 0.004 | 0.029 | |
sinkAway | 0.001 | 0.001 | 0.002 | |
subNetworkTracking | 0.002 | 0.001 | 0.005 | |
track | 0.019 | 0.001 | 0.023 | |
trackHypercubeBuild | 0.001 | 0.000 | 0.002 | |
trackSlideProcessing | 0.001 | 0.000 | 0.001 | |
trackSlideWrapUp | 0.002 | 0.000 | 0.002 | |
trivialBondRaster | 0.004 | 0.000 | 0.004 | |
trivialBondTracking | 0.001 | 0.000 | 0.003 | |
visualizeCellTracks | 0.095 | 0.015 | 0.118 | |
visualizeTrcks | 0.045 | 0.003 | 0.054 | |
warnMessage | 0.001 | 0.000 | 0.001 | |
wsaPreProcessing | 0.138 | 0.004 | 0.147 | |