BioC 3.2: CHECK report for ccrepe on oaxaca

Package: ccrepe

Version: 1.6.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings ccrepe_1.6.0.tar.gz

StartedAt: 2016-04-22 22:28:10 -0700 (Fri, 22 Apr 2016)

EndedAt: 2016-04-22 22:28:27 -0700 (Fri, 22 Apr 2016)

EllapsedTime: 16.7 seconds

RetCode: 1

Status:  ERROR

CheckDir: ccrepe.Rcheck

Warnings: NA

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings ccrepe_1.6.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.2-bioc/meat/ccrepe.Rcheck’
* using R version 3.2.4 (2016-03-10)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ccrepe/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ccrepe’ 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 ‘ccrepe’ can be installed ... [1s/1s] 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 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 ... NOTE
qc_filter: no visible binding for global variable ‘x’
* 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [0s/0s] OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘runTests.R’ [2s/2s]
 ERROR
Running the tests in ‘tests/runTests.R’ failed.
Last 13 lines of output:
  ccrepe RUnit Tests - 2 test functions, 1 error, 0 failures
  ERROR in /Users/biocbuild/bbs-3.2-bioc/meat/ccrepe.Rcheck/ccrepe/unitTests/test_ccrepe.R: Error while sourcing  /Users/biocbuild/bbs-3.2-bioc/meat/ccrepe.Rcheck/ccrepe/unitTests/test_ccrepe.R : Error in match.arg(type, c("success", "failure", "error", "skip", "warning")) : 
    'arg' must be NULL or a character vector
  
  Test files with failing tests
  
     test_ccrepe.R 
       /Users/biocbuild/bbs-3.2-bioc/meat/ccrepe.Rcheck/ccrepe/unitTests/test_ccrepe.R 
  
  
  Error in BiocGenerics:::testPackage("ccrepe") : 
    unit tests failed for package ccrepe
  Execution halted
* 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: 1 ERROR, 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.2-bioc/meat/ccrepe.Rcheck/00check.log’
for details.

R version 3.2.4 (2016-03-10) -- "Very Secure Dishes"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin13.4.0 (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.

> BiocGenerics:::testPackage("ccrepe")
Error in match.arg(type, c("success", "failure", "error", "skip", "warning")) : 
  'arg' must be NULL or a character vector


RUNIT TEST PROTOCOL -- Fri Apr 22 22:28:25 2016 
*********************************************** 
Number of test functions: 2 
Number of errors: 1 
Number of failures: 0 

 
1 Test Suite : 
ccrepe RUnit Tests - 2 test functions, 1 error, 0 failures
ERROR in /Users/biocbuild/bbs-3.2-bioc/meat/ccrepe.Rcheck/ccrepe/unitTests/test_ccrepe.R: Error while sourcing  /Users/biocbuild/bbs-3.2-bioc/meat/ccrepe.Rcheck/ccrepe/unitTests/test_ccrepe.R : Error in match.arg(type, c("success", "failure", "error", "skip", "warning")) : 
  'arg' must be NULL or a character vector

Test files with failing tests

   test_ccrepe.R 
     /Users/biocbuild/bbs-3.2-bioc/meat/ccrepe.Rcheck/ccrepe/unitTests/test_ccrepe.R 


Error in BiocGenerics:::testPackage("ccrepe") : 
  unit tests failed for package ccrepe
Execution halted

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

name	user	system	elapsed
ccrepe	0.055	0.001	0.057
nc.score	0.003	0.001	0.003