BioC 3.0: CHECK report for flowCL on zin1

Package: flowCL

Version: 1.4.0

Command: /home/biocbuild/bbs-3.0-bioc/R/bin/R CMD check --no-vignettes --timings flowCL_1.4.0.tar.gz

StartedAt: 2015-04-09 23:50:42 -0700 (Thu, 09 Apr 2015)

EndedAt: 2015-04-09 23:52:26 -0700 (Thu, 09 Apr 2015)

EllapsedTime: 103.7 seconds

RetCode: 1

Status:  ERROR

CheckDir: flowCL.Rcheck

Warnings: NA

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### Running command:
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###   /home/biocbuild/bbs-3.0-bioc/R/bin/R CMD check --no-vignettes --timings flowCL_1.4.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.0-bioc/meat/flowCL.Rcheck’
* using R version 3.1.3 (2015-03-09)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘flowCL/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘flowCL’ 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 ‘flowCL’ can be installed ... [3s/3s] 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 ... NOTE
'library' or 'require' call to ‘RUnit’ in package code.
  Please use :: or requireNamespace() instead.
  See section 'Suggested packages' in the 'Writing R Extensions' manual.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
test.flowCL.connection: no visible global function definition for
  ‘defineTestSuite’
test.flowCL.connection: no visible global function definition for
  ‘runTestSuite’
test.flowCL.connection: no visible global function definition for
  ‘printTextProtocol’
treeDiagram: no visible global function definition for ‘addEdge’
* 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 ... ERROR
Running examples in ‘flowCL-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: flowCL-package
> ### Title: Semantic labelling of flow cytometric cell populations.
> ### Aliases: flowCL-package
> ### Keywords: FlowCytData
> 
> ### ** Examples
> 
> 
> # Load a pre-loaded archive. Skipping this chuck will cause flowCL to 
> ## slowly build a new one.
> flowCL("archive")
Archive created in "/home/biocbuild/bbs-3.0-bioc/meat/flowCL.Rcheck/flowCL_results"
> 
> # Simple two marker example
> Res <- flowCL("CCR7+CD45RA+")
ExpMrkrLst was not defined. Defining ExpMrkrLst as MarkerList.
Error in function (type, msg, asError = TRUE)  : couldn't connect to host
Calls: flowCL ... <Anonymous> -> curlPerform -> .Call -> <Anonymous> -> fun
Execution halted

* installing *source* package ‘flowCL’ ...
** 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 (flowCL)

name	user	system	elapsed