Selin Jessa
| Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018) |
| URL: https://git.bioconductor.org/packages/chromswitch |
| Branch: RELEASE_3_6 |
| Last Commit: dc48e96 |
| Last Changed Date: 2017-10-30 12:42:06 -0400 (Mon, 30 Oct 2017) |
| Back to Multiple platform build/check report for BioC 3.6 |
|
This page was generated on 2018-04-12 13:16:59 -0400 (Thu, 12 Apr 2018).
| Package 232/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| chromswitch 1.0.0 Selin Jessa
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | NotNeeded | OK | [ OK ] | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | NotNeeded | OK | OK | OK | | ||||||
| veracruz1 | OS X 10.11.6 El Capitan / x86_64 | NotNeeded | OK | OK | OK | |
| Package: chromswitch |
| Version: 1.0.0 |
| Command: /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings chromswitch_1.0.0.tar.gz |
| StartedAt: 2018-04-11 22:15:40 -0400 (Wed, 11 Apr 2018) |
| EndedAt: 2018-04-11 22:18:55 -0400 (Wed, 11 Apr 2018) |
| EllapsedTime: 195.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: chromswitch.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings chromswitch_1.0.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.6-bioc/meat/chromswitch.Rcheck’ * using R version 3.4.4 (2018-03-15) * 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 ‘1.0.0’ * 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 loading without being on the library search path ... 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 installed files from ‘inst/doc’ ... 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
* installing *source* package ‘chromswitch’ ... ** R ** data *** moving datasets to lazyload DB ** inst ** preparing 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 3.4.4 (2018-03-15) -- "Someone to Lean On"
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.
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, cbind, colMeans, colSums, colnames, 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
20.496 1.368 30.920
chromswitch.Rcheck/chromswitch-Ex.timings
| name | user | system | elapsed | |
| GRangesToCoord | 0.08 | 0.00 | 0.08 | |
| LocalPeaks-class | 1.112 | 0.020 | 1.135 | |
| NMI | 0.004 | 0.000 | 0.003 | |
| binarizePeaks | 1.272 | 0.000 | 1.271 | |
| callBinary | 2.880 | 0.012 | 2.895 | |
| callSummary | 1.468 | 0.000 | 1.467 | |
| classEntropy | 0.000 | 0.000 | 0.001 | |
| cluster | 0.380 | 0.004 | 0.382 | |
| clusterEntropy | 0.000 | 0.000 | 0.001 | |
| completeness | 0.004 | 0.000 | 0.001 | |
| conditionalClassEntropy | 0.000 | 0.000 | 0.001 | |
| conditionalClusterEntropy | 0.004 | 0.000 | 0.001 | |
| coordToGRanges | 0.012 | 0.000 | 0.010 | |
| filterPeaks | 0.220 | 0.000 | 0.222 | |
| homogeneity | 0.004 | 0.000 | 0.001 | |
| makeBrowserCoord | 0 | 0 | 0 | |
| normalizePeaks | 0.196 | 0.000 | 0.196 | |
| pReciprocalOverlap | 0.028 | 0.000 | 0.031 | |
| purity | 0.000 | 0.000 | 0.001 | |
| readNarrowPeak | 0.460 | 0.000 | 0.461 | |
| reducePeaks | 0.208 | 0.000 | 0.209 | |
| retrievePeaks | 0.176 | 0.000 | 0.175 | |
| summarizePeaks | 0.356 | 0.000 | 0.355 | |
| vMeasure | 0.004 | 0.000 | 0.003 | |
| winsorNorm | 0.004 | 0.000 | 0.003 | |