Sojourner Developer
| Snapshot Date: 2022-02-16 13:55:26 -0500 (Wed, 16 Feb 2022) |
| git_url: https://git.bioconductor.org/packages/sojourner |
| git_branch: master |
| git_last_commit: 6f11e71 |
| git_last_commit_date: 2021-10-26 12:53:41 -0500 (Tue, 26 Oct 2021) |
| Back to Multiple platform build/check report for BioC 3.15 |
|
This page was generated on 2022-02-17 11:08:46 -0500 (Thu, 17 Feb 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | R Under development (unstable) (2022-01-05 r81451) -- "Unsuffered Consequences" | 4189 |
| riesling1 | Windows Server 2019 Standard | x64 | R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" | 4084 |
| palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2021-12-21 r81400 ucrt) -- "Unsuffered Consequences" | 4028 |
| merida1 | macOS 10.14.6 Mojave | x86_64 | R Under development (unstable) (2022-01-05 r81451) -- "Unsuffered Consequences" | 4143 |
| 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 | ||||
|
To the developers/maintainers of the sojourner package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/sojourner.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. |
| Package 1836/2083 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| sojourner 1.9.0 (landing page) Sojourner Developer
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||||
| riesling1 | Windows Server 2019 Standard / x64 | OK | OK | OK | OK | |||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: sojourner |
| Version: 1.9.0 |
| Command: D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:sojourner.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings sojourner_1.9.0.tar.gz |
| StartedAt: 2022-02-16 20:37:15 -0500 (Wed, 16 Feb 2022) |
| EndedAt: 2022-02-16 20:43:52 -0500 (Wed, 16 Feb 2022) |
| EllapsedTime: 397.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: sojourner.Rcheck |
| Warnings: 0 |
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### Running command:
###
### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:sojourner.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings sojourner_1.9.0.tar.gz
###
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* using log directory 'D:/biocbuild/bbs-3.15-bioc/meat/sojourner.Rcheck'
* using R Under development (unstable) (2021-11-21 r81221)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'sojourner/DESCRIPTION' ... OK
* this is package 'sojourner' version '1.9.0'
* 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 'sojourner' 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 files in 'vignettes' ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
plotLocalizations_Density-methods 29.36 1.00 30.36
fitNormDistr-methods 19.59 0.00 19.59
plotTrackOverlay_Dcoef-methods 17.10 0.04 17.13
maskTracks-methods 7.66 0.30 7.95
Dcoef-methods 6.72 0.11 6.83
plotIndividual_Tracks-methods 6.01 0.35 6.35
combineTrackll-methods 1.95 0.01 65.64
compare_RT_CDF-methods 1.69 0.00 63.44
* 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
sojourner.Rcheck/00install.out
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###
### Running command:
###
### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL sojourner
###
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##############################################################################
* installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library'
* installing *source* package 'sojourner' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'sojourner'
finding HTML links ... done
Dcoef-methods html
combineTrackll-methods html
compareFolder-methods html
compare_RT_CDF-methods html
createTrackll-methods html
dispVariance-methods html
displacementCDF-methods html
dwellTime-methods html
exportTrackll-methods html
filterTrack-methods html
fitNormDistr-methods html
fitRT-methods html
linkSkippedFrames-methods html
maskTracks-methods html
mergeTracks-methods html
msd-methods html
plotIndividual_Tracks-methods html
plotLocalizations_Density-methods html
plotTrack-methods html
plotTrackOverlay_Dcoef-methods html
sojourner html
sojournerGUI-methods html
squareDisp-methods html
** 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 (sojourner)
Making 'packages.html' ...Warning in packageDescription(i, lib.loc = lib, fields = "Title", encoding = "UTF-8") :
DESCRIPTION file of package 'Linnorm' is missing or broken
Warning in packageDescription(i, lib.loc = lib, fields = "Title", encoding = "UTF-8") :
DESCRIPTION file of package 'uSORT' is missing or broken
done
sojourner.Rcheck/tests/runTests.Rout
R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (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("sojourner")
Reading ParticleTracker file: SWR1_WT_140mW_image6.csv ...
mage6 read and processed.
Process complete.
Reading ParticleTracker file: SWR1_WT_140mW_image6.csv ...
mage6 read and processed.
Process complete.
applying filter, min 5 max Inf
Reading ParticleTracker file: SWR1_WT_140mW_image6.csv ...
mage6 read and processed.
Process complete.
applying filter, min 5 max Inf
applying filter, min 7 max Inf
45 tracks length > & = 1
45 tracks length > & = 2
45 tracks length > & = 3
45 tracks length > & = 4
45 tracks length > & = 5
45 tracks length > & = 6
...
Reading ParticleTracker file: SWR1_WT_140mW_image6.csv ...
mage6 read and processed.
Process complete.
applying trimmer, min 1 max 20
RUNIT TEST PROTOCOL -- Wed Feb 16 20:43:42 2022
***********************************************
Number of test functions: 4
Number of errors: 0
Number of failures: 0
1 Test Suite :
sojourner RUnit Tests - 4 test functions, 0 errors, 0 failures
Number of test functions: 4
Number of errors: 0
Number of failures: 0
>
> proc.time()
user system elapsed
7.65 0.62 8.21
sojourner.Rcheck/sojourner-Ex.timings
| name | user | system | elapsed | |
| Dcoef-methods | 6.72 | 0.11 | 6.83 | |
| combineTrackll-methods | 1.95 | 0.01 | 65.64 | |
| compareFolder-methods | 0.06 | 0.00 | 0.07 | |
| compare_RT_CDF-methods | 1.69 | 0.00 | 63.44 | |
| createTrackll-methods | 0.01 | 0.00 | 0.02 | |
| dispVariance-methods | 0.66 | 0.00 | 0.65 | |
| displacementCDF-methods | 1.28 | 0.04 | 1.33 | |
| dwellTime-methods | 0.23 | 0.02 | 0.25 | |
| exportTrackll-methods | 0.10 | 0.00 | 0.09 | |
| filterTrack-methods | 0.05 | 0.00 | 0.05 | |
| fitNormDistr-methods | 19.59 | 0.00 | 19.59 | |
| fitRT-methods | 2.73 | 0.01 | 2.75 | |
| linkSkippedFrames-methods | 0.05 | 0.02 | 0.07 | |
| maskTracks-methods | 7.66 | 0.30 | 7.95 | |
| mergeTracks-methods | 0.01 | 0.00 | 0.01 | |
| msd-methods | 2.24 | 0.00 | 2.24 | |
| plotIndividual_Tracks-methods | 6.01 | 0.35 | 6.35 | |
| plotLocalizations_Density-methods | 29.36 | 1.00 | 30.36 | |
| plotTrack-methods | 3.28 | 0.32 | 3.61 | |
| plotTrackOverlay_Dcoef-methods | 17.10 | 0.04 | 17.13 | |
| sojournerGUI-methods | 0 | 0 | 0 | |
| squareDisp-methods | 0.09 | 0.00 | 0.09 | |