Selin Jessa
| Snapshot Date: 2019-04-15 17:01:12 -0400 (Mon, 15 Apr 2019) |
| URL: https://git.bioconductor.org/packages/chromswitch |
| Branch: RELEASE_3_8 |
| Last Commit: 0f4b655 |
| Last Changed Date: 2019-01-04 13:25:32 -0400 (Fri, 04 Jan 2019) |
| Back to Multiple platform build/check report for BioC 3.8 |
|
This page was generated on 2019-04-16 11:53:10 -0400 (Tue, 16 Apr 2019).
| Package 260/1649 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| chromswitch 1.4.1 Selin Jessa
| malbec1 | Linux (Ubuntu 16.04.6 LTS) / x86_64 | OK | OK | [ OK ] | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: chromswitch |
| Version: 1.4.1 |
| Command: /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD check --install=check:chromswitch.install-out.txt --library=/home/biocbuild/bbs-3.8-bioc/R/library --no-vignettes --timings chromswitch_1.4.1.tar.gz |
| StartedAt: 2019-04-15 22:54:44 -0400 (Mon, 15 Apr 2019) |
| EndedAt: 2019-04-15 22:58:40 -0400 (Mon, 15 Apr 2019) |
| EllapsedTime: 236.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: chromswitch.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD check --install=check:chromswitch.install-out.txt --library=/home/biocbuild/bbs-3.8-bioc/R/library --no-vignettes --timings chromswitch_1.4.1.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.8-bioc/meat/chromswitch.Rcheck’ * using R version 3.5.3 (2019-03-11) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘chromswitch/DESCRIPTION’ ... OK * this is package ‘chromswitch’ version ‘1.4.1’ * 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 ‘chromswitch’ 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking data for ASCII and uncompressed saves ... 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
chromswitch.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD INSTALL chromswitch ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.8-bioc/R/library’ * installing *source* package ‘chromswitch’ ... ** R ** data *** moving datasets to lazyload DB ** 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 (chromswitch)
chromswitch.Rcheck/tests/testthat.Rout
R version 3.5.3 (2019-03-11) -- "Great Truth"
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(chromswitch)
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
>
> test_check("chromswitch")
══ testthat results ═══════════════════════════════════════════════════════════
OK: 93 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
33.448 6.572 33.465
chromswitch.Rcheck/chromswitch-Ex.timings
| name | user | system | elapsed | |
| GRangesToCoord | 0.036 | 0.004 | 0.038 | |
| LocalPeaks-class | 0.384 | 0.024 | 0.408 | |
| NMI | 0.004 | 0.000 | 0.004 | |
| binarizePeaks | 2.380 | 0.052 | 2.434 | |
| callBinary | 3.592 | 0.068 | 3.659 | |
| callSummary | 1.536 | 0.008 | 1.545 | |
| classEntropy | 0.004 | 0.000 | 0.001 | |
| cluster | 0.580 | 0.000 | 0.581 | |
| clusterEntropy | 0.004 | 0.000 | 0.001 | |
| completeness | 0.000 | 0.000 | 0.002 | |
| conditionalClassEntropy | 0.000 | 0.000 | 0.001 | |
| conditionalClusterEntropy | 0.004 | 0.000 | 0.002 | |
| coordToGRanges | 0.020 | 0.000 | 0.019 | |
| filterPeaks | 0.272 | 0.000 | 0.273 | |
| homogeneity | 0.000 | 0.004 | 0.002 | |
| makeBrowserCoord | 0 | 0 | 0 | |
| normalizePeaks | 0.224 | 0.004 | 0.227 | |
| pReciprocalOverlap | 0.044 | 0.000 | 0.043 | |
| purity | 0.000 | 0.000 | 0.001 | |
| readNarrowPeak | 0.436 | 0.000 | 0.445 | |
| reducePeaks | 0.252 | 0.000 | 0.257 | |
| retrievePeaks | 0.204 | 0.000 | 0.203 | |
| summarizePeaks | 0.308 | 0.000 | 0.309 | |
| vMeasure | 0.000 | 0.000 | 0.001 | |
| winsorNorm | 0.000 | 0.000 | 0.001 | |