Stuart Lee
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/plyranges |
| Branch: RELEASE_3_9 |
| Last Commit: c56b4d9 |
| Last Changed Date: 2019-09-16 22:50:43 -0400 (Mon, 16 Sep 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:13:50 -0400 (Wed, 16 Oct 2019).
| Package 1227/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| plyranges 1.4.4 Stuart Lee
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | [ OK ] | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: plyranges |
| Version: 1.4.4 |
| Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:plyranges.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings plyranges_1.4.4.tar.gz |
| StartedAt: 2019-10-16 04:00:34 -0400 (Wed, 16 Oct 2019) |
| EndedAt: 2019-10-16 04:04:54 -0400 (Wed, 16 Oct 2019) |
| EllapsedTime: 260.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: plyranges.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:plyranges.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings plyranges_1.4.4.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/plyranges.Rcheck’ * using R version 3.6.1 (2019-07-05) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘plyranges/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘plyranges’ version ‘1.4.4’ * 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 ‘plyranges’ 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 ‘testthat.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
plyranges.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL plyranges ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’ * installing *source* package ‘plyranges’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** 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 (plyranges)
plyranges.Rcheck/tests/testthat.Rout
R version 3.6.1 (2019-07-05) -- "Action of the Toes"
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.
> library(testthat)
> library(plyranges)
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: IRanges
Loading required package: S4Vectors
Loading required package: stats4
Attaching package: 'S4Vectors'
The following object is masked from 'package:base':
expand.grid
Loading required package: GenomicRanges
Loading required package: GenomeInfoDb
Attaching package: 'plyranges'
The following object is masked from 'package:stats':
filter
>
> test_check("plyranges")
══ testthat results ═══════════════════════════════════════════════════════════
[ OK: 310 | SKIPPED: 0 | WARNINGS: 8 | FAILED: 0 ]
>
> proc.time()
user system elapsed
40.144 0.743 40.924
plyranges.Rcheck/plyranges-Ex.timings
| name | user | system | elapsed | |
| as_ranges | 0.052 | 0.004 | 0.056 | |
| compute_coverage | 0.011 | 0.003 | 0.015 | |
| element-setops | 0.089 | 0.004 | 0.093 | |
| filter-ranges | 0.846 | 0.032 | 0.877 | |
| flank-ranges | 0.093 | 0.000 | 0.094 | |
| group_by-ranges | 0.566 | 0.000 | 0.566 | |
| io-bam-read | 0.990 | 0.036 | 1.026 | |
| io-bed-read | 3.349 | 0.112 | 3.476 | |
| io-bed-write | 0.001 | 0.000 | 0.000 | |
| io-bigwig-read | 0.116 | 0.000 | 0.116 | |
| io-bigwig-write | 0 | 0 | 0 | |
| io-gff-read | 0.515 | 0.003 | 0.531 | |
| io-gff-write | 0 | 0 | 0 | |
| io-wig-read | 0.459 | 0.004 | 0.462 | |
| mutate-ranges | 1.043 | 0.001 | 1.043 | |
| n | 0.482 | 0.004 | 0.485 | |
| n_distinct | 0.045 | 0.000 | 0.046 | |
| overlap-joins | 0.098 | 0.000 | 0.098 | |
| ranges-anchor | 0.123 | 0.000 | 0.123 | |
| ranges-arrange | 0.073 | 0.000 | 0.073 | |
| ranges-bind | 0.235 | 0.000 | 0.236 | |
| ranges-chop | 0.608 | 0.015 | 0.623 | |
| ranges-construct | 0.030 | 0.004 | 0.034 | |
| ranges-count-overlaps | 0.096 | 0.001 | 0.097 | |
| ranges-disjoin | 0.74 | 0.00 | 0.74 | |
| ranges-expand | 0.625 | 0.000 | 0.624 | |
| ranges-filter-overlaps | 0.054 | 0.000 | 0.054 | |
| ranges-follow | 0.099 | 0.000 | 0.098 | |
| ranges-info | 0.024 | 0.000 | 0.024 | |
| ranges-interweave | 0.109 | 0.000 | 0.109 | |
| ranges-nearest | 0.297 | 0.000 | 0.296 | |
| ranges-overlaps-self | 0.075 | 0.000 | 0.075 | |
| ranges-overlaps | 0.105 | 0.000 | 0.106 | |
| ranges-pairs | 0.352 | 0.000 | 0.353 | |
| ranges-precede | 0.141 | 0.003 | 0.144 | |
| ranges-reduce | 0.632 | 0.000 | 0.633 | |
| ranges-select | 0.057 | 0.000 | 0.056 | |
| ranges-setops | 0.759 | 0.000 | 0.758 | |
| ranges-summarise | 0.134 | 0.000 | 0.133 | |
| ranges-tile | 0.049 | 0.000 | 0.048 | |
| shift-ranges | 0.078 | 0.000 | 0.078 | |
| stretch | 0.203 | 0.000 | 0.204 | |