Joseph Barry
| Snapshot Date: 2021-01-21 09:00:14 -0500 (Thu, 21 Jan 2021) |
| URL: https://git.bioconductor.org/packages/furrowSeg |
| Branch: master |
| Last Commit: dc5fff2 |
| Last Changed Date: 2020-10-27 10:15:35 -0500 (Tue, 27 Oct 2020) |
| Back to Multiple platform build/check report for BioC 3.13 experimental data |
|
This page was generated on 2021-01-21 16:01:28 -0500 (Thu, 21 Jan 2021).
| TO THE DEVELOPERS/MAINTAINERS OF THE furrowSeg PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 134/386 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | ||||||
| furrowSeg 1.19.0 Joseph Barry
| malbec2 | Linux (Ubuntu 20.04.1 LTS) / x86_64 | OK | OK | WARNINGS | | |||||
| riesling1 | Windows Server 2019 Standard / x64 | OK | OK | [ WARNINGS ] |
| Package: furrowSeg |
| Version: 1.19.0 |
| Command: D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:furrowSeg.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings furrowSeg_1.19.0.tar.gz |
| StartedAt: 2021-01-21 11:23:47 -0500 (Thu, 21 Jan 2021) |
| EndedAt: 2021-01-21 11:26:28 -0500 (Thu, 21 Jan 2021) |
| EllapsedTime: 161.4 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: furrowSeg.Rcheck |
| Warnings: 1 |
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### Running command:
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### D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:furrowSeg.install-out.txt --library=D:\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings furrowSeg_1.19.0.tar.gz
###
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* using log directory 'D:/biocbuild/bbs-3.13-data-experiment/meat/furrowSeg.Rcheck'
* using R Under development (unstable) (2020-12-30 r79736)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'furrowSeg/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'furrowSeg' version '1.19.0'
* 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 'furrowSeg' can be installed ... WARNING
Found the following significant warnings:
Warning: replacing previous import 'EBImage::abind' by 'abind::abind' when loading 'furrowSeg'
See 'D:/biocbuild/bbs-3.13-data-experiment/meat/furrowSeg.Rcheck/00install.out' for details.
* checking installed package size ... NOTE
installed size is 348.6Mb
sub-directories of 1Mb or more:
data 348.5Mb
* 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
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 ... NOTE
identifyFurrowPosition: no visible global function definition for
'predict'
identifyFurrowPosition: no visible global function definition for 'par'
identifyFurrowPosition: no visible global function definition for
'points'
identifyFurrowPosition: no visible global function definition for
'abline'
identifyTimeMinArea: no visible binding for global variable 'median'
identifyTimeMinArea: no visible global function definition for
'predict'
identifyTimeMinArea: no visible global function definition for 'par'
identifyTimeMinArea: no visible global function definition for 'points'
identifyTimeMinArea: no visible global function definition for 'abline'
plotFeatureEvolution: no visible global function definition for 'par'
plotFeatureEvolution: no visible binding for global variable 'median'
plotFeatureEvolution: no visible binding for global variable 'quantile'
plotFeatureEvolution: no visible global function definition for
'polygon'
plotFeatureEvolution: no visible global function definition for 'rgb'
plotFeatureEvolution: no visible global function definition for 'axis'
plotFeatureEvolution: no visible global function definition for 'mtext'
plotFeatureEvolution: no visible global function definition for 'title'
Undefined global functions or variables:
abline axis median mtext par points polygon predict quantile rgb
title
Consider adding
importFrom("grDevices", "rgb")
importFrom("graphics", "abline", "axis", "mtext", "par", "points",
"polygon", "title")
importFrom("stats", "median", "predict", "quantile")
to your NAMESPACE file.
* 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 ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
opto 22.92 0.33 23.25
exampleFurrowMovie 9.18 0.18 9.37
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
opto 18.02 0.37 18.39
exampleFurrowMovie 7.28 0.17 7.46
* 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 WARNING, 2 NOTEs
See
'D:/biocbuild/bbs-3.13-data-experiment/meat/furrowSeg.Rcheck/00check.log'
for details.
furrowSeg.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O http://172.29.0.4/BBS/3.13/data-experiment/src/contrib/furrowSeg_1.19.0.tar.gz && rm -rf furrowSeg.buildbin-libdir && mkdir furrowSeg.buildbin-libdir && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=furrowSeg.buildbin-libdir furrowSeg_1.19.0.tar.gz && D:\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL furrowSeg_1.19.0.zip && rm furrowSeg_1.19.0.tar.gz furrowSeg_1.19.0.zip
###
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
11 348M 11 40.8M 0 0 69.1M 0 0:00:05 --:--:-- 0:00:05 69.0M
38 348M 38 134M 0 0 84.6M 0 0:00:04 0:00:01 0:00:03 84.5M
68 348M 68 237M 0 0 91.7M 0 0:00:03 0:00:02 0:00:01 91.7M
86 348M 86 301M 0 0 82.6M 0 0:00:04 0:00:03 0:00:01 82.5M
98 348M 98 343M 0 0 72.2M 0 0:00:04 0:00:04 --:--:-- 72.2M
100 348M 100 348M 0 0 70.3M 0 0:00:04 0:00:04 --:--:-- 70.5M
install for i386
* installing *source* package 'furrowSeg' ...
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
Warning: replacing previous import 'EBImage::abind' by 'abind::abind' when loading 'furrowSeg'
** help
*** installing help indices
converting help for package 'furrowSeg'
finding HTML links ... done
constructBox html
REDIRECT:topic constructBox -> constructBox.html [ SUCCESS ]
exampleFurrowMovie html
REDIRECT:topic exampleFurrowMovie -> exampleFurrowMovie.html [ SUCCESS ]
identifyFurrowPosition html
REDIRECT:topic identifyFurrowPosition -> identifyFurrowPosition.html [ SUCCESS ]
identifyTimeMinArea html
REDIRECT:topic identifyTimeMinArea -> identifyTimeMinArea.html [ SUCCESS ]
isOdd html
REDIRECT:topic isOdd -> isOdd.html [ SUCCESS ]
REDIRECT:topic makeOdd -> isOdd.html [ SUCCESS ]
isolateBoxCells html
REDIRECT:topic isolateBoxCells -> isolateBoxCells.html [ SUCCESS ]
opto html
REDIRECT:topic opto -> opto.html [ SUCCESS ]
plotFeatureEvolution html
REDIRECT:topic plotFeatureEvolution -> plotFeatureEvolution.html [ SUCCESS ]
px2area html
REDIRECT:topic px2area -> px2area.html [ SUCCESS ]
REDIRECT:topic area2px -> px2area.html [ SUCCESS ]
px2microns html
REDIRECT:topic px2microns -> px2microns.html [ SUCCESS ]
REDIRECT:topic microns2px -> px2microns.html [ SUCCESS ]
sampleTable html
REDIRECT:topic sampleTable -> sampleTable.html [ SUCCESS ]
segmentFurrowAllStacks html
REDIRECT:topic segmentFurrowAllStacks -> segmentFurrowAllStacks.html [ SUCCESS ]
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning: replacing previous import 'EBImage::abind' by 'abind::abind' when loading 'furrowSeg'
** testing if installed package can be loaded from final location
Warning: replacing previous import 'EBImage::abind' by 'abind::abind' when loading 'furrowSeg'
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'furrowSeg' ...
** testing if installed package can be loaded
Warning: replacing previous import 'EBImage::abind' by 'abind::abind' when loading 'furrowSeg'
* MD5 sums
packaged installation of 'furrowSeg' as furrowSeg_1.19.0.zip
* DONE (furrowSeg)
* installing to library 'D:/biocbuild/bbs-3.13-bioc/R/library'
package 'furrowSeg' successfully unpacked and MD5 sums checked
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furrowSeg.Rcheck/examples_i386/furrowSeg-Ex.timings
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furrowSeg.Rcheck/examples_x64/furrowSeg-Ex.timings
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