Jianhong Ou
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/trackViewer |
| Branch: RELEASE_3_7 |
| Last Commit: 5ff9aff |
| Last Changed Date: 2018-09-20 16:01:47 -0400 (Thu, 20 Sep 2018) |
| Back to Multiple platform build/check report for BioC 3.7 |
|
This page was generated on 2018-10-17 08:52:29 -0400 (Wed, 17 Oct 2018).
| Package 1496/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| trackViewer 1.16.1 Jianhong Ou
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | [ OK ] | OK | |
| Package: trackViewer |
| Version: 1.16.1 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:trackViewer.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings trackViewer_1.16.1.tar.gz |
| StartedAt: 2018-10-17 00:28:15 -0400 (Wed, 17 Oct 2018) |
| EndedAt: 2018-10-17 00:36:16 -0400 (Wed, 17 Oct 2018) |
| EllapsedTime: 481.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: trackViewer.Rcheck |
| Warnings: 0 |
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:trackViewer.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings trackViewer_1.16.1.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.7-bioc/meat/trackViewer.Rcheck’
* using R version 3.5.1 Patched (2018-07-12 r74967)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘trackViewer/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘trackViewer’ version ‘1.16.1’
* 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 ‘trackViewer’ 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 or elapsed time > 5s
user system elapsed
trackViewer-package 23.570 0.250 23.993
viewTracks 16.809 0.131 17.070
parseWIG 14.938 0.098 17.285
browseTracks 14.540 0.185 14.847
geneModelFromTxdb 9.524 0.316 11.123
viewGene 9.377 0.175 9.592
* 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
trackViewer.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL trackViewer ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library’ * installing *source* package ‘trackViewer’ ... ** 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 * DONE (trackViewer)
trackViewer.Rcheck/tests/runTests.Rout
R version 3.5.1 Patched (2018-07-12 r74967) -- "Feather Spray"
Copyright (C) 2018 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin15.6.0 (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("trackViewer") || stop("unable to load Package:trackViewer")
Loading required package: trackViewer
Loading required package: GenomicRanges
Loading required package: stats4
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, lengths, 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
Loading required package: S4Vectors
Attaching package: 'S4Vectors'
The following object is masked from 'package:base':
expand.grid
Loading required package: IRanges
Loading required package: GenomeInfoDb
Loading required package: grid
[1] TRUE
> require("RUnit") || stop("unable to load Package:RUnit")
Loading required package: RUnit
[1] TRUE
> BiocGenerics:::testPackage("trackViewer")
RUNIT TEST PROTOCOL -- Wed Oct 17 00:36:10 2018
***********************************************
Number of test functions: 1
Number of errors: 0
Number of failures: 0
1 Test Suite :
trackViewer RUnit Tests - 1 test function, 0 errors, 0 failures
Number of test functions: 1
Number of errors: 0
Number of failures: 0
>
> proc.time()
user system elapsed
15.600 0.695 16.346
trackViewer.Rcheck/trackViewer-Ex.timings
| name | user | system | elapsed | |
| GRoperator | 3.802 | 0.261 | 4.545 | |
| addArrowMark | 0.017 | 0.002 | 0.019 | |
| addGuideLine | 0.009 | 0.000 | 0.010 | |
| browseTracks | 14.540 | 0.185 | 14.847 | |
| coverageGR | 0.247 | 0.011 | 0.263 | |
| dandelion.plot | 2.676 | 0.042 | 3.681 | |
| geneModelFromTxdb | 9.524 | 0.316 | 11.123 | |
| geneTrack | 0.505 | 0.024 | 0.903 | |
| getCurTrackViewport | 0.007 | 0.001 | 0.008 | |
| getLocation | 3.182 | 0.086 | 3.536 | |
| gieStain | 0.014 | 0.000 | 0.015 | |
| ideogramPlot | 0.003 | 0.000 | 0.004 | |
| importBam | 0.326 | 0.002 | 0.331 | |
| importData | 2.403 | 0.035 | 2.471 | |
| importScore | 0.903 | 0.022 | 0.932 | |
| loadIdeogram | 0.002 | 0.001 | 0.001 | |
| lolliplot | 0.996 | 0.024 | 1.027 | |
| optimizeStyle | 1.118 | 0.018 | 1.555 | |
| parse2GRanges | 0.016 | 0.000 | 0.025 | |
| parseWIG | 14.938 | 0.098 | 17.285 | |
| plotGInteractions | 3.298 | 0.052 | 3.381 | |
| plotGRanges | 1.629 | 0.016 | 1.658 | |
| plotIdeo | 0.002 | 0.000 | 0.003 | |
| plotOneIdeo | 0.001 | 0.000 | 0.002 | |
| trackStyle-class | 0.044 | 0.001 | 0.045 | |
| trackViewer-package | 23.570 | 0.250 | 23.993 | |
| trackViewerStyle-class | 0.002 | 0.000 | 0.001 | |
| viewGene | 9.377 | 0.175 | 9.592 | |
| viewTracks | 16.809 | 0.131 | 17.070 | |