Jianhong Ou
| Snapshot Date: 2022-03-17 13:55:23 -0400 (Thu, 17 Mar 2022) |
| git_url: https://git.bioconductor.org/packages/motifStack |
| git_branch: master |
| git_last_commit: a978c29 |
| git_last_commit_date: 2022-03-15 11:48:57 -0400 (Tue, 15 Mar 2022) |
| Back to Multiple platform build/check report for BioC 3.15 |
|
This page was generated on 2022-03-18 11:08:05 -0400 (Fri, 18 Mar 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | R Under development (unstable) (2022-02-17 r81757) -- "Unsuffered Consequences" | 4334 |
| riesling1 | Windows Server 2019 Standard | x64 | R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" | 4097 |
| palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2022-02-17 r81757 ucrt) -- "Unsuffered Consequences" | 4083 |
| merida1 | macOS 10.14.6 Mojave | x86_64 | R Under development (unstable) (2022-03-02 r81842) -- "Unsuffered Consequences" | 4134 |
| 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 motifStack package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/motifStack.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 1210/2090 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| motifStack 1.39.2 (landing page) Jianhong Ou
| 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: motifStack |
| Version: 1.39.2 |
| Command: D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:motifStack.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings motifStack_1.39.2.tar.gz |
| StartedAt: 2022-03-17 19:39:18 -0400 (Thu, 17 Mar 2022) |
| EndedAt: 2022-03-17 19:41:26 -0400 (Thu, 17 Mar 2022) |
| EllapsedTime: 127.7 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: motifStack.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:motifStack.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings motifStack_1.39.2.tar.gz
###
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* using log directory 'D:/biocbuild/bbs-3.15-bioc/meat/motifStack.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 'motifStack/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'motifStack' version '1.39.2'
* 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 whether package 'motifStack' 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
pfm2pwm 7.8 0.61 8.41
AAmotifAlignment 8.1 0.01 8.11
* 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
motifStack.Rcheck/00install.out
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###
### Running command:
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### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL motifStack
###
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* installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library'
* installing *source* package 'motifStack' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'motifStack'
finding HTML links ... done
AAmotifAlignment html
DNAmotifAlignment html
DNAmotifToRNAmotif html
GeomMotif html
browseMotifs-shiny html
browseMotifs html
calF html
calI html
clusterMotifs html
colorset html
compare2profiles html
compareProfiles html
dpGlobal html
dpLocal html
geom_motif html
getALLRscoreFromCounts html
getDistance html
getRankedUniqueMotifs html
getScore html
highlightCol html
importMatrix html
marker-class html
matalign html
mergeMotifs html
motifCircos html
motifCloud html
motifGrob html
motifHclust html
motifPiles html
motifSig-class html
motifSignature html
motifStack-package html
motifStack html
ouNode-class html
pcm-class html
pfm-class html
pfm2pwm html
plotAffinityLogo html
plotMotifLogo html
plotMotifLogoA html
plotMotifLogoStack html
plotMotifLogoStackWithTree html
plotMotifOverMotif html
plotMotifStackWithPhylog html
plotMotifStackWithRadialPhylog html
plotXaxis html
plotYaxis html
psam-class html
pssm-class html
readPCM html
reorderUPGMAtree html
traceBackGlobal html
traceBackLocal 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 (motifStack)
Making 'packages.html' ...Warning in packageDescription(i, lib.loc = lib, fields = "Title", encoding = "UTF-8") :
DESCRIPTION file of package 'AffyCompatible' is missing or broken
done
motifStack.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.
> require("motifStack") || stop("unable to load Package:motifStack")
Loading required package: motifStack
Loading required package: grid
[1] TRUE
> #require("MotifDb") || stop("unalble to load Package::motifDb")
> BiocGenerics:::testPackage("motifStack")
RUNIT TEST PROTOCOL -- Thu Mar 17 19:41:14 2022
***********************************************
Number of test functions: 10
Number of errors: 0
Number of failures: 0
1 Test Suite :
motifStack RUnit Tests - 10 test functions, 0 errors, 0 failures
Number of test functions: 10
Number of errors: 0
Number of failures: 0
>
> proc.time()
user system elapsed
4.37 0.34 4.70
motifStack.Rcheck/motifStack-Ex.timings
| name | user | system | elapsed | |
| AAmotifAlignment | 8.10 | 0.01 | 8.11 | |
| DNAmotifAlignment | 0.06 | 0.00 | 0.07 | |
| DNAmotifToRNAmotif | 0.01 | 0.00 | 0.01 | |
| GeomMotif | 0.68 | 0.02 | 0.72 | |
| browseMotifs | 0.01 | 0.00 | 0.02 | |
| clusterMotifs | 0 | 0 | 0 | |
| colorset | 0 | 0 | 0 | |
| geom_motif | 0.24 | 0.00 | 0.23 | |
| getRankedUniqueMotifs | 0 | 0 | 0 | |
| highlightCol | 0 | 0 | 0 | |
| importMatrix | 0.00 | 0.01 | 0.02 | |
| marker-class | 0 | 0 | 0 | |
| matalign | 0 | 0 | 0 | |
| mergeMotifs | 0.06 | 0.00 | 0.06 | |
| motifCircos | 0 | 0 | 0 | |
| motifCloud | 0 | 0 | 0 | |
| motifGrob | 0.08 | 0.00 | 0.08 | |
| motifHclust | 0 | 0 | 0 | |
| motifPiles | 0 | 0 | 0 | |
| motifSignature | 0 | 0 | 0 | |
| motifStack | 0 | 0 | 0 | |
| ouNode-class | 0 | 0 | 0 | |
| pcm-class | 0.07 | 0.00 | 0.07 | |
| pfm-class | 0.08 | 0.00 | 0.08 | |
| pfm2pwm | 7.80 | 0.61 | 8.41 | |
| plotAffinityLogo | 0.61 | 0.02 | 0.73 | |
| plotMotifLogo | 0.19 | 0.00 | 0.19 | |
| plotMotifLogoA | 0.23 | 0.00 | 0.23 | |
| plotMotifLogoStack | 0.36 | 0.00 | 0.38 | |
| plotMotifLogoStackWithTree | 1.91 | 0.01 | 2.37 | |
| plotMotifOverMotif | 0.31 | 0.00 | 0.43 | |
| plotMotifStackWithPhylog | 0 | 0 | 0 | |
| plotMotifStackWithRadialPhylog | 0.01 | 0.00 | 0.01 | |
| psam-class | 0.72 | 0.02 | 0.85 | |
| pssm-class | 0.44 | 0.02 | 0.64 | |
| readPCM | 0 | 0 | 0 | |
| reorderUPGMAtree | 0.02 | 0.00 | 0.01 | |