Stuart Lee
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/plyranges |
| Branch: RELEASE_3_10 |
| Last Commit: b8eae6a |
| Last Changed Date: 2020-02-17 02:10:25 -0400 (Mon, 17 Feb 2020) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:14:01 -0400 (Wed, 15 Apr 2020).
| Package 1280/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| plyranges 1.6.10 Stuart Lee
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | [ OK ] | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: plyranges |
| Version: 1.6.10 |
| Command: /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:plyranges.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings plyranges_1.6.10.tar.gz |
| StartedAt: 2020-04-15 05:38:17 -0400 (Wed, 15 Apr 2020) |
| EndedAt: 2020-04-15 05:42:54 -0400 (Wed, 15 Apr 2020) |
| EllapsedTime: 276.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: plyranges.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:plyranges.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings plyranges_1.6.10.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.10-bioc/meat/plyranges.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 ‘plyranges/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘plyranges’ version ‘1.6.10’ * 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-3.10-bioc/R/bin/R CMD INSTALL plyranges ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.10-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 3.6.3 (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.
> 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:IRanges':
slice
The following object is masked from 'package:stats':
filter
>
> test_check("plyranges")
══ testthat results ═══════════════════════════════════════════════════════════
[ OK: 348 | SKIPPED: 0 | WARNINGS: 7 | FAILED: 0 ]
>
> proc.time()
user system elapsed
48.360 0.696 49.280
plyranges.Rcheck/plyranges-Ex.timings
| name | user | system | elapsed | |
| as_ranges | 0.200 | 0.004 | 0.202 | |
| compute_coverage | 0.024 | 0.004 | 0.026 | |
| element-setops | 0.144 | 0.008 | 0.154 | |
| filter-ranges | 0.884 | 0.008 | 0.900 | |
| flank-ranges | 0.152 | 0.000 | 0.151 | |
| group_by-ranges | 0.440 | 0.000 | 0.442 | |
| io-bam-read | 1.828 | 0.020 | 1.852 | |
| io-bed-read | 2.264 | 0.152 | 2.491 | |
| io-bed-write | 0.004 | 0.000 | 0.000 | |
| io-bigwig-read | 0.096 | 0.016 | 0.114 | |
| io-bigwig-write | 0.004 | 0.000 | 0.000 | |
| io-gff-read | 0.576 | 0.004 | 0.589 | |
| io-gff-write | 0.000 | 0.000 | 0.001 | |
| io-wig-read | 0.396 | 0.004 | 0.401 | |
| mutate-ranges | 1.088 | 0.016 | 1.105 | |
| n | 0.304 | 0.000 | 0.303 | |
| n_distinct | 0.032 | 0.000 | 0.034 | |
| overlap-joins | 0.288 | 0.000 | 0.286 | |
| ranges-anchor | 0.140 | 0.000 | 0.142 | |
| ranges-arrange | 0.068 | 0.000 | 0.070 | |
| ranges-bind | 0.340 | 0.000 | 0.341 | |
| ranges-chop | 0.400 | 0.008 | 0.411 | |
| ranges-construct | 0.224 | 0.000 | 0.225 | |
| ranges-count-overlaps | 0.092 | 0.000 | 0.093 | |
| ranges-disjoin | 1.180 | 0.000 | 1.184 | |
| ranges-expand | 0.752 | 0.000 | 0.773 | |
| ranges-filter-overlaps | 0.104 | 0.000 | 0.102 | |
| ranges-follow | 0.392 | 0.000 | 0.394 | |
| ranges-info | 0.076 | 0.004 | 0.077 | |
| ranges-interweave | 0.252 | 0.000 | 0.254 | |
| ranges-names | 0.180 | 0.000 | 0.183 | |
| ranges-nearest | 0.616 | 0.000 | 0.613 | |
| ranges-overlaps-self | 0.216 | 0.000 | 0.218 | |
| ranges-overlaps | 0.268 | 0.000 | 0.268 | |
| ranges-pairs | 0.376 | 0.004 | 0.383 | |
| ranges-precede | 0.260 | 0.000 | 0.262 | |
| ranges-reduce | 1.120 | 0.004 | 1.122 | |
| ranges-select | 0.128 | 0.000 | 0.127 | |
| ranges-setops | 1.112 | 0.000 | 1.124 | |
| ranges-summarise | 0.240 | 0.000 | 0.239 | |
| ranges-tile | 0.112 | 0.000 | 0.111 | |
| shift-ranges | 0.128 | 0.000 | 0.130 | |
| slice-ranges | 0.712 | 0.000 | 0.712 | |
| stretch | 0.228 | 0.000 | 0.229 | |