BioC 3.5: CHECK report for sscu on oaxaca

Package: sscu

Version: 2.4.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings sscu_2.4.0.tar.gz

StartedAt: 2017-03-04 09:38:56 -0800 (Sat, 04 Mar 2017)

EndedAt: 2017-03-04 09:40:48 -0800 (Sat, 04 Mar 2017)

EllapsedTime: 112.5 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: sscu.Rcheck

Warnings: 1

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings sscu_2.4.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.5-bioc/meat/sscu.Rcheck’
* using R Under development (unstable) (2017-02-15 r72177)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘sscu/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘sscu’ version ‘2.4.0’
* 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 ‘sscu’ can be installed ... OK
* checking installed package size ... OK
* checking package 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 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 files in ‘vignettes’ ... WARNING
Files in the 'vignettes' directory but no files in 'inst/doc':
  ‘sscu.Rmd’, ‘sscu.html’, ‘sscu.pdf’
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                   user system elapsed
op_corre_NCprime 16.185  0.134  16.330
op_corre_CodonW  14.529  0.170  14.704
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING
See
  ‘/Users/biocbuild/bbs-3.5-bioc/meat/sscu.Rcheck/00check.log’
for details.

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

name	user	system	elapsed
akashi_test	0.025	0.001	0.026
genomic_gc3	0.632	0.020	0.673
low_frequency_op	1.063	0.042	1.105
op_corre_CodonW	14.529	0.170	14.704
op_corre_NCprime	16.185	0.134	16.330
op_highly	0.713	0.013	0.727
op_highly_stats	0.841	0.018	0.860
s_index	0.733	0.015	0.748