Astrid Deschenes
| Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018) |
| URL: https://git.bioconductor.org/packages/consensusSeekeR |
| Branch: RELEASE_3_6 |
| Last Commit: 3a764ca |
| Last Changed Date: 2017-10-30 12:41:09 -0400 (Mon, 30 Oct 2017) |
| Back to Multiple platform build/check report for BioC 3.6 |
|
This page was generated on 2018-04-12 13:14:17 -0400 (Thu, 12 Apr 2018).
| Package 287/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| consensusSeekeR 1.6.0 Astrid Deschenes
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | [ OK ] | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| veracruz1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: consensusSeekeR |
| Version: 1.6.0 |
| Command: /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings consensusSeekeR_1.6.0.tar.gz |
| StartedAt: 2018-04-11 22:31:25 -0400 (Wed, 11 Apr 2018) |
| EndedAt: 2018-04-11 22:34:33 -0400 (Wed, 11 Apr 2018) |
| EllapsedTime: 188.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: consensusSeekeR.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings consensusSeekeR_1.6.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.6-bioc/meat/consensusSeekeR.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 ‘consensusSeekeR/DESCRIPTION’ ... OK * this is package ‘consensusSeekeR’ version ‘1.6.0’ * 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 installed files from ‘inst/doc’ ... 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
* installing *source* package ‘consensusSeekeR’ ... ** R ** data ** inst ** preparing package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded * DONE (consensusSeekeR)
consensusSeekeR.Rcheck/tests/runTests.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.
> ## 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, 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
Attaching package: 'S4Vectors'
The following object is masked from 'package:base':
expand.grid
RUNIT TEST PROTOCOL -- Wed Apr 11 22:34:30 2018
***********************************************
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
30.752 0.148 30.907
consensusSeekeR.Rcheck/consensusSeekeR-Ex.timings
| name | user | system | elapsed | |
| A549_CTCF_MYJ_NarrowPeaks_partial | 1.664 | 0.016 | 1.680 | |
| A549_CTCF_MYJ_Peaks_partial | 0.588 | 0.004 | 0.591 | |
| A549_CTCF_MYN_NarrowPeaks_partial | 0.292 | 0.000 | 0.293 | |
| A549_CTCF_MYN_Peaks_partial | 0.576 | 0.004 | 0.581 | |
| A549_FOSL2_01_NarrowPeaks_partial | 0.352 | 0.008 | 0.363 | |
| A549_FOSL2_01_Peaks_partial | 0.528 | 0.000 | 0.529 | |
| A549_FOXA1_01_NarrowPeaks_partial | 0.488 | 0.008 | 0.501 | |
| A549_FOXA1_01_Peaks_partial | 0.564 | 0.004 | 0.568 | |
| A549_NR3C1_CFQ_NarrowPeaks_partial | 0.264 | 0.000 | 0.266 | |
| A549_NR3C1_CFQ_Peaks_partial | 0.352 | 0.008 | 0.357 | |
| A549_NR3C1_CFR_NarrowPeaks_partial | 0.248 | 0.000 | 0.250 | |
| A549_NR3C1_CFR_Peaks_partial | 0.26 | 0.00 | 0.26 | |
| A549_NR3C1_CFS_NarrowPeaks_partial | 0.788 | 0.008 | 0.798 | |
| A549_NR3C1_CFS_Peaks_partial | 0.768 | 0.008 | 0.775 | |
| NOrMAL_nucleosome_positions | 0.556 | 0.008 | 0.562 | |
| NOrMAL_nucleosome_ranges | 0.548 | 0.004 | 0.551 | |
| NucPosSimulator_nucleosome_positions | 0.632 | 0.004 | 0.635 | |
| NucPosSimulator_nucleosome_ranges | 0.692 | 0.008 | 0.704 | |
| PING_nucleosome_positions | 0.392 | 0.000 | 0.392 | |
| PING_nucleosome_ranges | 0.292 | 0.000 | 0.294 | |
| findConsensusPeakRegions | 0.736 | 0.008 | 0.744 | |
| findConsensusPeakRegionsValidation | 0.032 | 0.000 | 0.034 | |
| readNarrowPeakFile | 0.472 | 0.000 | 0.472 | |