Jianhong Ou
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/trackViewer |
| Branch: RELEASE_3_10 |
| Last Commit: 0726fc8 |
| Last Changed Date: 2020-02-20 10:19:36 -0400 (Thu, 20 Feb 2020) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:08:19 -0400 (Wed, 15 Apr 2020).
| Package 1742/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| trackViewer 1.22.1 Jianhong Ou
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | [ OK ] | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: trackViewer |
| Version: 1.22.1 |
| Command: /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:trackViewer.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings trackViewer_1.22.1.tar.gz |
| StartedAt: 2020-04-15 02:02:07 -0400 (Wed, 15 Apr 2020) |
| EndedAt: 2020-04-15 02:10:09 -0400 (Wed, 15 Apr 2020) |
| EllapsedTime: 482.5 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: trackViewer.Rcheck |
| Warnings: 0 |
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### Running command:
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### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:trackViewer.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings trackViewer_1.22.1.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.10-bioc/meat/trackViewer.Rcheck’
* using R version 3.6.3 (2020-02-29)
* using platform: x86_64-pc-linux-gnu (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 ‘1.22.1’
* 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 ‘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 26.360 0.004 26.419
viewTracks 20.800 0.008 20.856
parseWIG 18.240 0.008 18.295
browseTracks 17.916 0.020 18.037
geneModelFromTxdb 9.264 0.220 9.499
viewGene 6.604 0.004 6.624
* 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: ### ### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD INSTALL trackViewer ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.10-bioc/R/library’ * installing *source* package ‘trackViewer’ ... ** 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 (trackViewer)
trackViewer.Rcheck/tests/runTests.Rout
R version 3.6.3 (2020-02-29) -- "Holding the Windsock"
Copyright (C) 2020 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("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, 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, 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 Apr 15 02:10:06 2020
***********************************************
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
18.440 0.504 19.220
trackViewer.Rcheck/trackViewer-Ex.timings
| name | user | system | elapsed | |
| GRoperator | 3.056 | 0.128 | 3.190 | |
| addArrowMark | 0.016 | 0.000 | 0.014 | |
| addGuideLine | 0.008 | 0.000 | 0.007 | |
| browseTracks | 17.916 | 0.020 | 18.037 | |
| coverageGR | 0.296 | 0.000 | 0.298 | |
| dandelion.plot | 2.748 | 0.004 | 2.764 | |
| geneModelFromTxdb | 9.264 | 0.220 | 9.499 | |
| geneTrack | 0.460 | 0.012 | 0.469 | |
| getCurTrackViewport | 0.004 | 0.000 | 0.005 | |
| getLocation | 1.664 | 0.008 | 1.675 | |
| gieStain | 0.012 | 0.000 | 0.014 | |
| ideogramPlot | 0 | 0 | 0 | |
| importBam | 0.512 | 0.004 | 0.517 | |
| importData | 2.912 | 0.008 | 2.938 | |
| importScore | 0.772 | 0.012 | 0.801 | |
| loadIdeogram | 0 | 0 | 0 | |
| lolliplot | 1.320 | 0.004 | 1.341 | |
| optimizeStyle | 1.024 | 0.004 | 1.046 | |
| parse2GRanges | 0.016 | 0.000 | 0.018 | |
| parseWIG | 18.240 | 0.008 | 18.295 | |
| plotGInteractions | 1.688 | 0.004 | 1.713 | |
| plotGRanges | 2.100 | 0.008 | 2.110 | |
| plotIdeo | 0.000 | 0.000 | 0.001 | |
| plotOneIdeo | 0.000 | 0.000 | 0.001 | |
| trackStyle-class | 0.072 | 0.000 | 0.072 | |
| trackViewer-package | 26.360 | 0.004 | 26.419 | |
| trackViewerStyle-class | 0 | 0 | 0 | |
| viewGene | 6.604 | 0.004 | 6.624 | |
| viewTracks | 20.800 | 0.008 | 20.856 | |