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BioC 3.5: CHECK report for consensusSeekeR on veracruz2

This page was generated on 2017-10-18 14:33:47 -0400 (Wed, 18 Oct 2017).

Package 271/1381HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
consensusSeekeR 1.4.0
Astrid Deschenes
Snapshot Date: 2017-10-17 17:00:52 -0400 (Tue, 17 Oct 2017)
URL: https://git.bioconductor.org/packages/consensusSeekeR
Branch: RELEASE_3_5
Last Commit: 56e5d41
Last Changed Date: 2017-04-24 15:45:44 -0400 (Mon, 24 Apr 2017)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
veracruz2 OS X 10.11.6 El Capitan / x86_64  OK  OK [ OK ] OK UNNEEDED, same version exists in internal repository

Summary

Package: consensusSeekeR
Version: 1.4.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings consensusSeekeR_1.4.0.tar.gz
StartedAt: 2017-10-18 02:06:52 -0400 (Wed, 18 Oct 2017)
EndedAt: 2017-10-18 02:10:50 -0400 (Wed, 18 Oct 2017)
EllapsedTime: 237.6 seconds
RetCode: 0
Status:  OK 
CheckDir: consensusSeekeR.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings consensusSeekeR_1.4.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.5-bioc/meat/consensusSeekeR.Rcheck’
* using R version 3.4.2 (2017-09-28)
* 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 ‘1.4.0’
* 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/consensusSeekeR-Ex.timings:

nameusersystemelapsed
A549_CTCF_MYJ_NarrowPeaks_partial1.8210.0491.920
A549_CTCF_MYJ_Peaks_partial0.8490.0110.880
A549_CTCF_MYN_NarrowPeaks_partial0.3620.0070.388
A549_CTCF_MYN_Peaks_partial0.5070.0100.529
A549_FOSL2_01_NarrowPeaks_partial0.2910.0080.304
A549_FOSL2_01_Peaks_partial0.4660.0110.494
A549_FOXA1_01_NarrowPeaks_partial0.4290.0090.456
A549_FOXA1_01_Peaks_partial0.6380.0090.680
A549_NR3C1_CFQ_NarrowPeaks_partial0.3450.0090.366
A549_NR3C1_CFQ_Peaks_partial0.5050.0140.530
A549_NR3C1_CFR_NarrowPeaks_partial0.3290.0090.347
A549_NR3C1_CFR_Peaks_partial0.3100.0080.325
A549_NR3C1_CFS_NarrowPeaks_partial1.0020.0141.042
A549_NR3C1_CFS_Peaks_partial0.9630.0141.019
NOrMAL_nucleosome_positions0.6830.0130.721
NOrMAL_nucleosome_ranges0.6070.0130.646
NucPosSimulator_nucleosome_positions0.6220.0120.650
NucPosSimulator_nucleosome_ranges0.7270.0130.763
PING_nucleosome_positions0.4040.0110.422
PING_nucleosome_ranges0.3250.0110.343
findConsensusPeakRegions0.8890.0130.935
findConsensusPeakRegionsValidation0.0480.0060.055
readNarrowPeakFile0.1900.0020.195