Jianhong Ou
| Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019) |
| URL: https://git.bioconductor.org/packages/motifStack |
| Branch: master |
| Last Commit: 9de080a |
| Last Changed Date: 2019-04-03 09:26:48 -0400 (Wed, 03 Apr 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-04-09 11:33:38 -0400 (Tue, 09 Apr 2019).
| Package 1026/1703 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| motifStack 1.27.4 Jianhong Ou
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | [ OK ] | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
| Package: motifStack |
| Version: 1.27.4 |
| Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:motifStack.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings motifStack_1.27.4.tar.gz |
| StartedAt: 2019-04-09 02:09:58 -0400 (Tue, 09 Apr 2019) |
| EndedAt: 2019-04-09 02:14:31 -0400 (Tue, 09 Apr 2019) |
| EllapsedTime: 272.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: motifStack.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:motifStack.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings motifStack_1.27.4.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/motifStack.Rcheck’ * using R Under development (unstable) (2019-03-18 r76245) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘motifStack/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘motifStack’ version ‘1.27.4’ * 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 ‘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 * 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
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL motifStack ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’ * installing *source* package ‘motifStack’ ... ** 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 (motifStack)
motifStack.Rcheck/tests/runTests.Rout
R Under development (unstable) (2019-03-18 r76245) -- "Unsuffered Consequences"
Copyright (C) 2019 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.
> require("motifStack") || stop("unable to load Package:motifStack")
Loading required package: motifStack
Loading required package: grImport2
Loading required package: grid
Loading required package: MotIV
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:parallel':
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from 'package:stats':
IQR, mad, sd, var, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, basename, cbind, colMeans, colSums, colnames,
dirname, do.call, duplicated, eval, evalq, get, grep, grepl,
intersect, is.unsorted, lapply, mapply, match, mget, order, paste,
pmax, pmax.int, pmin, pmin.int, rank, rbind, rowMeans, rowSums,
rownames, sapply, setdiff, sort, table, tapply, union, unique,
unsplit, which, which.max, which.min
Attaching package: 'MotIV'
The following object is masked from 'package:stats':
filter
Loading required package: ade4
Attaching package: 'ade4'
The following object is masked from 'package:BiocGenerics':
score
Loading required package: Biostrings
Loading required package: S4Vectors
Loading required package: stats4
Attaching package: 'S4Vectors'
The following object is masked from 'package:base':
expand.grid
Loading required package: IRanges
Loading required package: XVector
Attaching package: 'Biostrings'
The following object is masked from 'package:base':
strsplit
[1] TRUE
> #require("MotifDb") || stop("unalble to load Package::motifDb")
> BiocGenerics:::testPackage("motifStack")
RUNIT TEST PROTOCOL -- Tue Apr 9 02:14:27 2019
***********************************************
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
12.332 0.497 12.842
motifStack.Rcheck/motifStack-Ex.timings
| name | user | system | elapsed | |
| DNAmotifAlignment | 0.259 | 0.000 | 0.288 | |
| browseMotifs | 4.491 | 0.108 | 4.629 | |
| colorset | 0 | 0 | 0 | |
| getRankedUniqueMotifs | 0.002 | 0.000 | 0.001 | |
| highlightCol | 0.001 | 0.000 | 0.001 | |
| importMatrix | 0.018 | 0.000 | 0.018 | |
| mergeMotifs | 0.148 | 0.000 | 0.149 | |
| motifCircos | 0.005 | 0.000 | 0.004 | |
| motifCloud | 0.002 | 0.000 | 0.003 | |
| motifPiles | 0.006 | 0.000 | 0.006 | |
| motifSignature | 0.003 | 0.000 | 0.002 | |
| motifStack | 0.002 | 0.000 | 0.002 | |
| ouNode-class | 0.000 | 0.003 | 0.003 | |
| pcm-class | 0.445 | 0.008 | 0.480 | |
| pcm-methods | 0.004 | 0.000 | 0.005 | |
| pfm-class | 0.113 | 0.000 | 0.114 | |
| pfm-methods | 0.005 | 0.000 | 0.005 | |
| pfm2pwm | 0.125 | 0.000 | 0.126 | |
| plotAffinityLogo | 0.764 | 0.004 | 0.767 | |
| plotMotifLogo | 0.401 | 0.004 | 0.405 | |
| plotMotifLogoA | 0.362 | 0.004 | 0.365 | |
| plotMotifLogoStack | 0.427 | 0.004 | 0.432 | |
| plotMotifLogoStackWithTree | 3.349 | 0.020 | 3.369 | |
| plotMotifOverMotif | 0.516 | 0.000 | 0.516 | |
| plotMotifStackWithPhylog | 0.000 | 0.002 | 0.002 | |
| plotMotifStackWithRadialPhylog | 0.001 | 0.000 | 0.002 | |
| psam-class | 0.88 | 0.00 | 0.88 | |
| psam-methods | 0.011 | 0.004 | 0.015 | |
| readPCM | 0.013 | 0.000 | 0.013 | |
| reorderUPGMAtree | 0.002 | 0.000 | 0.002 | |