Astrid Deschenes
| Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019) |
| URL: https://git.bioconductor.org/packages/consensusSeekeR |
| Branch: master |
| Last Commit: cee0907 |
| Last Changed Date: 2018-10-30 11:54:35 -0400 (Tue, 30 Oct 2018) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-04-09 13:15:10 -0400 (Tue, 09 Apr 2019).
| Package 333/1703 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| consensusSeekeR 1.11.0 Astrid Deschenes
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | [ OK ] | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
| Package: consensusSeekeR |
| Version: 1.11.0 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:consensusSeekeR.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings consensusSeekeR_1.11.0.tar.gz |
| StartedAt: 2019-04-09 00:58:27 -0400 (Tue, 09 Apr 2019) |
| EndedAt: 2019-04-09 01:03:44 -0400 (Tue, 09 Apr 2019) |
| EllapsedTime: 317.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: consensusSeekeR.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:consensusSeekeR.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings consensusSeekeR_1.11.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/consensusSeekeR.Rcheck’ * using R Under development (unstable) (2019-03-18 r76245) * using platform: x86_64-apple-darwin15.6.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘consensusSeekeR/DESCRIPTION’ ... OK * this is package ‘consensusSeekeR’ version ‘1.11.0’ * 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 ‘consensusSeekeR’ 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 ‘runTests.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
consensusSeekeR.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL consensusSeekeR ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’ * installing *source* package ‘consensusSeekeR’ ... ** using staged installation ** R ** data ** 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 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 (consensusSeekeR)
consensusSeekeR.Rcheck/tests/runTests.Rout
R Under development (unstable) (2019-03-18 r76245) -- "Unsuffered Consequences"
Copyright (C) 2019 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin15.6.0 (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.
> ## Run all tests present in the package
> BiocGenerics:::testPackage("consensusSeekeR")
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, 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
Attaching package: 'S4Vectors'
The following object is masked from 'package:base':
expand.grid
RUNIT TEST PROTOCOL -- Tue Apr 9 01:03:36 2019
***********************************************
Number of test functions: 56
Number of errors: 0
Number of failures: 0
1 Test Suite :
consensusSeekeR RUnit Tests - 56 test functions, 0 errors, 0 failures
Number of test functions: 56
Number of errors: 0
Number of failures: 0
>
> proc.time()
user system elapsed
19.584 1.522 21.061
consensusSeekeR.Rcheck/consensusSeekeR-Ex.timings
| name | user | system | elapsed | |
| A549_CTCF_MYJ_NarrowPeaks_partial | 1.934 | 0.098 | 2.033 | |
| A549_CTCF_MYJ_Peaks_partial | 0.618 | 0.123 | 0.742 | |
| A549_CTCF_MYN_NarrowPeaks_partial | 0.568 | 0.129 | 0.698 | |
| A549_CTCF_MYN_Peaks_partial | 0.707 | 0.128 | 0.835 | |
| A549_FOSL2_01_NarrowPeaks_partial | 0.321 | 0.017 | 0.338 | |
| A549_FOSL2_01_Peaks_partial | 0.451 | 0.016 | 0.467 | |
| A549_FOXA1_01_NarrowPeaks_partial | 0.436 | 0.016 | 0.452 | |
| A549_FOXA1_01_Peaks_partial | 0.697 | 0.023 | 0.720 | |
| A549_NR3C1_CFQ_NarrowPeaks_partial | 0.446 | 0.017 | 0.463 | |
| A549_NR3C1_CFQ_Peaks_partial | 0.524 | 0.023 | 0.548 | |
| A549_NR3C1_CFR_NarrowPeaks_partial | 0.367 | 0.017 | 0.384 | |
| A549_NR3C1_CFR_Peaks_partial | 0.383 | 0.012 | 0.395 | |
| A549_NR3C1_CFS_NarrowPeaks_partial | 1.162 | 0.023 | 1.185 | |
| A549_NR3C1_CFS_Peaks_partial | 1.228 | 0.026 | 1.254 | |
| NOrMAL_nucleosome_positions | 0.782 | 0.030 | 0.812 | |
| NOrMAL_nucleosome_ranges | 0.749 | 0.027 | 0.776 | |
| NucPosSimulator_nucleosome_positions | 0.800 | 0.028 | 0.829 | |
| NucPosSimulator_nucleosome_ranges | 0.739 | 0.032 | 0.770 | |
| PING_nucleosome_positions | 0.561 | 0.027 | 0.588 | |
| PING_nucleosome_ranges | 0.474 | 0.026 | 0.501 | |
| findConsensusPeakRegions | 0.847 | 0.019 | 0.867 | |
| findConsensusPeakRegionsValidation | 0.108 | 0.016 | 0.123 | |
| readNarrowPeakFile | 0.145 | 0.004 | 0.150 | |