BioC 3.2: CHECK report for EMDomics on zin1

Package: EMDomics

Version: 2.0.0

Command: /home/biocbuild/bbs-3.2-bioc/R/bin/R CMD check --no-vignettes --timings EMDomics_2.0.0.tar.gz

StartedAt: 2016-04-23 00:19:47 -0700 (Sat, 23 Apr 2016)

EndedAt: 2016-04-23 00:20:45 -0700 (Sat, 23 Apr 2016)

EllapsedTime: 58.3 seconds

RetCode: 0

Status:  OK

CheckDir: EMDomics.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.2-bioc/R/bin/R CMD check --no-vignettes --timings EMDomics_2.0.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.2-bioc/meat/EMDomics.Rcheck’
* using R version 3.2.4 Revised (2016-03-16 r70336)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘EMDomics/DESCRIPTION’ ... OK
* this is package ‘EMDomics’ version ‘2.0.0’
* 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 ‘EMDomics’ can be installed ... [1s/2s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Authors@R field gives more than one person with maintainer role:
  Sadhika Malladi <contact@sadhikamalladi.com> [aut, cre]
  Daniel Schmolze <emd@schmolze.com> [aut, cre]
* 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... NOTE
The following directory looks like a leftover from 'knitr':
  ‘figure’
Please remove from your package.
* checking examples ... [39s/39s] OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
plot_cvm_density 6.694  0.000   6.693
plot_cvmperms    6.577  0.012   6.592
calculate_cvm    6.149  0.000   6.170
* 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
  ‘/home/biocbuild/bbs-3.2-bioc/meat/EMDomics.Rcheck/00check.log’
for details.

* installing *source* package ‘EMDomics’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (EMDomics)

name	user	system	elapsed
calculate_cvm	6.149	0.000	6.170
calculate_cvm_gene	0.008	0.000	0.008
calculate_emd	3.404	0.008	3.412
calculate_emd_gene	0.005	0.000	0.005
calculate_ks	1.098	0.000	1.105
calculate_ks_gene	0.017	0.004	0.021
plot_cvm_density	6.694	0.000	6.693
plot_cvmnull	2.483	0.004	2.485
plot_cvmperms	6.577	0.012	6.592
plot_emd_density	3.678	0.004	3.679
plot_emdnull	1.481	0.000	1.482
plot_emdperms	3.450	0.008	3.466
plot_ks_density	1.269	0.004	1.272
plot_ksnull	0.595	0.000	0.594
plot_ksperms	1.222	0.000	1.222