Sojourner Developer
| Snapshot Date: 2021-05-05 14:51:38 -0400 (Wed, 05 May 2021) |
| URL: https://git.bioconductor.org/packages/sojourner |
| Branch: RELEASE_3_12 |
| Last Commit: 8242813 |
| Last Changed Date: 2021-03-27 23:05:09 -0400 (Sat, 27 Mar 2021) |
| Back to Multiple platform build/check report for BioC 3.12 |
|
This page was generated on 2021-05-06 12:29:14 -0400 (Thu, 06 May 2021).
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To the developers/maintainers of the sojourner package: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1750/1974 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| sojourner 1.4.2 (landing page) Sojourner Developer
| malbec1 | Linux (Ubuntu 18.04.5 LTS) / x86_64 | OK | OK | OK | | ||||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: sojourner |
| Version: 1.4.2 |
| Command: /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:sojourner.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings sojourner_1.4.2.tar.gz |
| StartedAt: 2021-05-06 06:14:33 -0400 (Thu, 06 May 2021) |
| EndedAt: 2021-05-06 06:25:43 -0400 (Thu, 06 May 2021) |
| EllapsedTime: 669.7 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: sojourner.Rcheck |
| Warnings: 0 |
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### Running command:
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### /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:sojourner.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings sojourner_1.4.2.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.12-bioc/meat/sojourner.Rcheck’
* using R version 4.0.5 (2021-03-31)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘sojourner/DESCRIPTION’ ... OK
* this is package ‘sojourner’ version ‘1.4.2’
* 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 49.664 0.184 49.970
plotTrackOverlay_Dcoef-methods 38.268 0.172 38.543
fitNormDistr-methods 36.500 0.576 37.170
Dcoef-methods 14.848 0.372 15.536
maskTracks-methods 12.264 0.236 12.646
plotIndividual_Tracks-methods 10.156 0.164 10.339
plotTrack-methods 5.888 0.520 6.503
msd-methods 4.756 0.472 5.264
combineTrackll-methods 4.416 0.248 130.574
compare_RT_CDF-methods 3.160 0.248 119.117
* 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: ### ### /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD INSTALL sojourner ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.12-bioc/R/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 4.0.5 (2021-03-31) -- "Shake and Throw"
Copyright (C) 2021 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("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 -- Thu May 6 06:25:40 2021
***********************************************
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
13.060 0.608 13.751
sojourner.Rcheck/sojourner-Ex.timings
| name | user | system | elapsed | |
| Dcoef-methods | 14.848 | 0.372 | 15.536 | |
| combineTrackll-methods | 4.416 | 0.248 | 130.574 | |
| compareFolder-methods | 0.128 | 0.064 | 0.198 | |
| compare_RT_CDF-methods | 3.160 | 0.248 | 119.117 | |
| createTrackll-methods | 0.056 | 0.032 | 0.091 | |
| dispVariance-methods | 1.396 | 0.136 | 1.540 | |
| displacementCDF-methods | 1.880 | 0.184 | 2.077 | |
| dwellTime-methods | 0.396 | 0.048 | 0.449 | |
| exportTrackll-methods | 0.108 | 0.124 | 0.248 | |
| filterTrack-methods | 0.116 | 0.064 | 0.191 | |
| fitNormDistr-methods | 36.500 | 0.576 | 37.170 | |
| fitRT-methods | 4.000 | 0.108 | 4.113 | |
| linkSkippedFrames-methods | 0.208 | 0.116 | 0.337 | |
| maskTracks-methods | 12.264 | 0.236 | 12.646 | |
| mergeTracks-methods | 0.044 | 0.032 | 0.083 | |
| msd-methods | 4.756 | 0.472 | 5.264 | |
| plotIndividual_Tracks-methods | 10.156 | 0.164 | 10.339 | |
| plotLocalizations_Density-methods | 49.664 | 0.184 | 49.970 | |
| plotTrack-methods | 5.888 | 0.520 | 6.503 | |
| plotTrackOverlay_Dcoef-methods | 38.268 | 0.172 | 38.543 | |
| sojournerGUI-methods | 0 | 0 | 0 | |
| squareDisp-methods | 0.232 | 0.156 | 0.403 | |