BioC 3.3: CHECK report for BEAT on morelia
This page was generated on 2015-10-22 17:54:00 -0400 (Thu, 22 Oct 2015).
BEAT 1.9.0 Kemal Akman
Snapshot Date: 2015-10-21 20:20:05 -0400 (Wed, 21 Oct 2015) | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/BEAT | Last Changed Rev: 109592 / Revision: 109826 | Last Changed Date: 2015-10-13 15:59:53 -0400 (Tue, 13 Oct 2015) |
| linux2.bioconductor.org | Linux (Ubuntu 14.04.2 LTS) / x86_64 | NotNeeded | OK | OK | |  |
windows2.bioconductor.org | Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64 | NotNeeded | OK | OK | OK |  |
morelia | Mac OS X Mavericks (10.9.5) / x86_64 | NotNeeded | OK | [ OK ] | OK |  |
Summary
Package: BEAT |
Version: 1.9.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings BEAT_1.9.0.tar.gz |
StartedAt: 2015-10-22 03:41:50 -0400 (Thu, 22 Oct 2015) |
EndedAt: 2015-10-22 03:45:35 -0400 (Thu, 22 Oct 2015) |
EllapsedTime: 224.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: BEAT.Rcheck |
Warnings: 0 |
Command output
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings BEAT_1.9.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.3-bioc/meat/BEAT.Rcheck’
* using R Under development (unstable) (2015-10-08 r69496)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘BEAT/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘BEAT’ version ‘1.9.0’
* 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 ‘BEAT’ can be installed ... [13s/14s] OK
* checking installed package size ... NOTE
installed size is 11.8Mb
sub-directories of 1Mb or more:
extdata 10.4Mb
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [85s/85s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
epimutation_calls 35.168 0.636 35.809
generate_results 34.635 0.608 35.273
* 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: 2 NOTEs
See
‘/Users/biocbuild/bbs-3.3-bioc/meat/BEAT.Rcheck/00check.log’
for details.
BEAT.Rcheck/00install.out:
* installing *source* package ‘BEAT’ ...
** 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 (BEAT)
BEAT.Rcheck/BEAT-Ex.timings:
name | user | system | elapsed
|
epimutation_calls | 35.168 | 0.636 | 35.809 |
|
generate_results | 34.635 | 0.608 | 35.273 |
|
makeParams | 4.382 | 0.093 | 4.687 |
|
positions_to_regions | 4.143 | 0.071 | 4.371 |
|