Sojourner Developer
| Snapshot Date: 2022-06-02 14:00:04 -0400 (Thu, 02 Jun 2022) |
| git_url: https://git.bioconductor.org/packages/sojourner |
| git_branch: master |
| git_last_commit: 21765ab |
| git_last_commit_date: 2022-04-26 11:58:30 -0400 (Tue, 26 Apr 2022) |
| Back to Multiple platform build/check report for BioC 3.16 |
|
This page was generated on 2022-06-03 11:08:43 -0400 (Fri, 03 Jun 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | 4.2.0 RC (2022-04-21 r82226) -- "Vigorous Calisthenics" | 4364 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.2.0 Patched (2022-04-24 r82246 ucrt) -- "Vigorous Calisthenics" | 4168 |
| lconway | macOS 12.2.1 Monterey | x86_64 | 4.2.0 Patched (2022-04-24 r82246) -- "Vigorous Calisthenics" | 4184 |
| 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? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1859/2116 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| sojourner 1.11.0 (landing page) Sojourner Developer
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.2.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: sojourner |
| Version: 1.11.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:sojourner.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings sojourner_1.11.0.tar.gz |
| StartedAt: 2022-06-03 01:47:45 -0400 (Fri, 03 Jun 2022) |
| EndedAt: 2022-06-03 01:55:39 -0400 (Fri, 03 Jun 2022) |
| EllapsedTime: 473.8 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: sojourner.Rcheck |
| Warnings: 0 |
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### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:sojourner.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings sojourner_1.11.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.16-bioc/meat/sojourner.Rcheck’
* using R version 4.2.0 Patched (2022-04-24 r82246)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘sojourner/DESCRIPTION’ ... OK
* this is package ‘sojourner’ version ‘1.11.0’
* 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 ‘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 39.997 0.466 40.689
plotTrackOverlay_Dcoef-methods 22.270 0.093 22.401
fitNormDistr-methods 20.639 0.173 20.860
maskTracks-methods 10.364 0.316 10.711
Dcoef-methods 8.500 0.131 8.685
plotIndividual_Tracks-methods 7.726 0.180 7.925
combineTrackll-methods 2.682 0.064 78.318
compare_RT_CDF-methods 2.085 0.051 77.257
* 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
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL sojourner ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.2/Resources/library’ * installing *source* package ‘sojourner’ ... ** using staged installation ** R ** 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 (sojourner)
sojourner.Rcheck/tests/runTests.Rout
R version 4.2.0 Patched (2022-04-24 r82246) -- "Vigorous Calisthenics"
Copyright (C) 2022 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin17.0 (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 -- Fri Jun 3 01:55:30 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
10.102 0.498 10.633
sojourner.Rcheck/sojourner-Ex.timings
| name | user | system | elapsed | |
| Dcoef-methods | 8.500 | 0.131 | 8.685 | |
| combineTrackll-methods | 2.682 | 0.064 | 78.318 | |
| compareFolder-methods | 0.083 | 0.018 | 0.111 | |
| compare_RT_CDF-methods | 2.085 | 0.051 | 77.257 | |
| createTrackll-methods | 0.034 | 0.008 | 0.050 | |
| dispVariance-methods | 0.967 | 0.016 | 0.991 | |
| displacementCDF-methods | 1.687 | 0.122 | 1.826 | |
| dwellTime-methods | 0.389 | 0.010 | 0.420 | |
| exportTrackll-methods | 0.091 | 0.021 | 0.130 | |
| filterTrack-methods | 0.073 | 0.009 | 0.088 | |
| fitNormDistr-methods | 20.639 | 0.173 | 20.860 | |
| fitRT-methods | 3.255 | 0.039 | 3.304 | |
| linkSkippedFrames-methods | 0.091 | 0.014 | 0.118 | |
| maskTracks-methods | 10.364 | 0.316 | 10.711 | |
| mergeTracks-methods | 0.036 | 0.008 | 0.050 | |
| msd-methods | 2.417 | 0.042 | 2.487 | |
| plotIndividual_Tracks-methods | 7.726 | 0.180 | 7.925 | |
| plotLocalizations_Density-methods | 39.997 | 0.466 | 40.689 | |
| plotTrack-methods | 4.446 | 0.269 | 4.767 | |
| plotTrackOverlay_Dcoef-methods | 22.270 | 0.093 | 22.401 | |
| sojournerGUI-methods | 0 | 0 | 0 | |
| squareDisp-methods | 0.127 | 0.016 | 0.154 | |