Back to the "Multiple platform build/check report" A  B  C  D  E [F] G  H  I  J  K  L  M  N  O  P  Q  R  S  T  U  V  W  X  Y  Z 

BioC 3.0: CHECK report for flowCL on zin1

This page was generated on 2015-04-10 09:41:55 -0700 (Fri, 10 Apr 2015).

Package 302/933HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
flowCL 1.4.0
Justin Meskas
Snapshot Date: 2015-04-09 16:20:12 -0700 (Thu, 09 Apr 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/flowCL
Last Changed Rev: 95439 / Revision: 102249
Last Changed Date: 2014-10-13 14:38:33 -0700 (Mon, 13 Oct 2014)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  NotNeeded  OK [ ERROR ]
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  ERROR  skipped  skipped 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  ERROR  skipped  skipped 
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  ERROR  OK 

Summary

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

Command output

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


* 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

flowCL.Rcheck/00install.out:

* 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)

flowCL.Rcheck/flowCL-Ex.timings:

nameusersystemelapsed