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This page was generated on 2021-11-26 15:04:51 -0500 (Fri, 26 Nov 2021).

CHECK results for flowcatchR on nebbiolo2

To the developers/maintainers of the flowcatchR package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/flowcatchR.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.

raw results

Package 652/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
flowcatchR 1.28.0  (landing page)
Federico Marini
Snapshot Date: 2021-11-25 04:15:05 -0500 (Thu, 25 Nov 2021)
git_url: https://git.bioconductor.org/packages/flowcatchR
git_branch: RELEASE_3_14
git_last_commit: 4d658d4
git_last_commit_date: 2021-10-26 12:16:46 -0500 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: flowcatchR
Version: 1.28.0
Command: /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:flowcatchR.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings flowcatchR_1.28.0.tar.gz
StartedAt: 2021-11-25 09:26:50 -0500 (Thu, 25 Nov 2021)
EndedAt: 2021-11-25 09:27:45 -0500 (Thu, 25 Nov 2021)
EllapsedTime: 54.6 seconds
RetCode: 0
Status:   OK  
CheckDir: flowcatchR.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:flowcatchR.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings flowcatchR_1.28.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.14-bioc/meat/flowcatchR.Rcheck’
* using R version 4.1.2 (2021-11-01)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘flowcatchR/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘flowcatchR’ version ‘1.28.0’
* 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 ‘flowcatchR’ 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 ... NOTE
'library' or 'require' call to ‘EBImage’ which was already attached by Depends.
  Please remove these calls from your code.
* 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 LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... 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: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.14-bioc/meat/flowcatchR.Rcheck/00check.log’
for details.



Installation output

flowcatchR.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD INSTALL flowcatchR
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.14-bioc/R/library’
* installing *source* package ‘flowcatchR’ ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** 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 (flowcatchR)

Tests output


Example timings

flowcatchR.Rcheck/flowcatchR-Ex.timings

nameusersystemelapsed
Frames0.2650.0480.314
add.contours0.0010.0000.001
channel.Frames0.2490.0080.257
crop.Frames0.0890.0080.097
export.Frames0.0010.0000.001
export.particles0.0010.0000.000
inspect.Frames0.0010.0000.001
kinematics0.1990.0000.199
length.Frames0.2080.0000.209
link.particles0.0790.0000.079
matchTrajToParticles0.1620.0000.162
normalizeFrames1.0380.1081.145
particles0.0000.0000.001
penaltyFunctionGenerator000
plot.TrajectorySet0.1330.0000.132
plot2D.TrajectorySet0.2130.0120.224
preprocess.Frames0.4040.0120.415
read.Frames0.0010.0000.000
read.particles000
rotate.Frames0.2840.0080.292
select.Frames0.4130.0560.470
select.particles0.0170.0000.018
shinyFlow000
show-Frames-method0.1790.0080.187
show-KinematicsFeatures-method0.1270.0040.132
show-KinematicsFeaturesSet-method0.1580.0000.159
show-LinkedParticleSet-method0.0990.0000.100
show-ParticleSet-method0.0040.0000.004
show-TrajectorySet-method0.1290.0000.128
snap0.0010.0000.000
trajectories0.1330.0000.133