Stuart Lee
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/plyranges |
| Branch: RELEASE_3_7 |
| Last Commit: 7f4d9fc |
| Last Changed Date: 2018-06-06 13:23:31 -0400 (Wed, 06 Jun 2018) |
| Back to Multiple platform build/check report for BioC 3.7 |
|
This page was generated on 2018-10-17 08:31:29 -0400 (Wed, 17 Oct 2018).
| Package 1108/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| plyranges 1.0.3 Stuart Lee
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | [ OK ] | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: plyranges |
| Version: 1.0.3 |
| Command: /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD check --install=check:plyranges.install-out.txt --library=/home/biocbuild/bbs-3.7-bioc/R/library --no-vignettes --timings plyranges_1.0.3.tar.gz |
| StartedAt: 2018-10-16 02:45:33 -0400 (Tue, 16 Oct 2018) |
| EndedAt: 2018-10-16 02:48:41 -0400 (Tue, 16 Oct 2018) |
| EllapsedTime: 188.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: plyranges.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD check --install=check:plyranges.install-out.txt --library=/home/biocbuild/bbs-3.7-bioc/R/library --no-vignettes --timings plyranges_1.0.3.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.7-bioc/meat/plyranges.Rcheck’ * using R version 3.5.1 Patched (2018-07-12 r74967) * 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 ‘1.0.3’ * 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-3.7-bioc/R/bin/R CMD INSTALL plyranges ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.7-bioc/R/library’ * installing *source* package ‘plyranges’ ... ** 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 (plyranges)
plyranges.Rcheck/tests/testthat.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-pc-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
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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, 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: 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: 290 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
29.512 0.372 29.947
plyranges.Rcheck/plyranges-Ex.timings
| name | user | system | elapsed | |
| as_ranges | 0.052 | 0.000 | 0.053 | |
| compute_coverage | 0.02 | 0.00 | 0.02 | |
| element-setops | 0.088 | 0.000 | 0.088 | |
| filter-ranges | 0.440 | 0.000 | 0.443 | |
| flank-ranges | 0.132 | 0.000 | 0.135 | |
| group_by-ranges | 0.220 | 0.000 | 0.219 | |
| io-bam-read | 1.124 | 0.016 | 1.138 | |
| io-bed-read | 1.600 | 0.076 | 1.691 | |
| io-bed-write | 0.004 | 0.000 | 0.001 | |
| io-bigwig-read | 0.076 | 0.000 | 0.078 | |
| io-bigwig-write | 0.000 | 0.000 | 0.001 | |
| io-gff-read | 0.300 | 0.032 | 0.332 | |
| io-gff-write | 0.000 | 0.000 | 0.001 | |
| io-wig-read | 0.276 | 0.008 | 0.285 | |
| mutate-ranges | 0.552 | 0.000 | 0.555 | |
| n | 0.268 | 0.000 | 0.269 | |
| overlap-joins | 0.052 | 0.000 | 0.051 | |
| ranges-anchor | 0.064 | 0.000 | 0.065 | |
| ranges-arrange | 0.036 | 0.000 | 0.039 | |
| ranges-bind | 0.156 | 0.004 | 0.161 | |
| ranges-chop | 0.328 | 0.000 | 0.327 | |
| ranges-construct | 0.028 | 0.000 | 0.028 | |
| ranges-count-overlaps | 0.056 | 0.000 | 0.056 | |
| ranges-disjoin | 1.504 | 0.000 | 1.507 | |
| ranges-filter-overlaps | 0.060 | 0.000 | 0.059 | |
| ranges-follow | 0.108 | 0.000 | 0.108 | |
| ranges-info | 0.028 | 0.000 | 0.029 | |
| ranges-interweave | 0.092 | 0.004 | 0.094 | |
| ranges-nearest | 0.368 | 0.000 | 0.368 | |
| ranges-overlaps-self | 0.092 | 0.000 | 0.093 | |
| ranges-overlaps | 0.132 | 0.000 | 0.131 | |
| ranges-pairs | 0.228 | 0.000 | 0.233 | |
| ranges-precede | 0.164 | 0.000 | 0.165 | |
| ranges-reduce | 0.732 | 0.000 | 0.731 | |
| ranges-select | 0.064 | 0.000 | 0.061 | |
| ranges-setops | 0.588 | 0.000 | 0.590 | |
| ranges-summarise | 0.096 | 0.000 | 0.099 | |
| ranges-tile | 0.064 | 0.000 | 0.064 | |
| ranges-unnest | 0.128 | 0.000 | 0.129 | |
| shift-ranges | 0.084 | 0.000 | 0.082 | |
| stretch | 0.140 | 0.000 | 0.141 | |