BrowserViz 1.6.0
Paul Shannon
| Snapshot Date: 2017-04-14 17:17:13 -0400 (Fri, 14 Apr 2017) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_4/madman/Rpacks/BrowserViz | | Last Changed Rev: 122710 / Revision: 128728 | | Last Changed Date: 2016-10-17 14:45:06 -0400 (Mon, 17 Oct 2016) |
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | |  |
| tokay1 | Windows Server 2012 R2 Standard / x64 | ...NOT SUPPORTED...NOT SUPPORTED...NOT SUPPORTED... |
| morelia | Mac OS X Mavericks (10.9.5) / x86_64 | OK | OK | [ ERROR ] | OK | |
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings BrowserViz_1.6.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.4-bioc/meat/BrowserViz.Rcheck’
* using R version 3.3.3 (2017-03-06)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘BrowserViz/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘BrowserViz’ 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 ... NOTE
Found the following hidden files and directories:
.BBSoptions
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘BrowserViz’ can be installed ... 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 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
.setupWebSocketHandlers : <anonymous> : <anonymous>: no visible global
function definition for ‘is’
BrowserViz: no visible global function definition for ‘browseURL’
Undefined global functions or variables:
browseURL is
Consider adding
importFrom("methods", "is")
importFrom("utils", "browseURL")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
* 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 ... ERROR
Running examples in ‘BrowserViz-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: BrowserVizClass
> ### Title: BrowserViz: a base class (for extension) and standalone example
> ### of R/Javascript interactive web browser visualization
> ### Aliases: BrowserViz class:BrowserVizClass BrowserVizClass-class
> ### show,BrowserVizClass-method setBrowserWindowTitle
> ### setBrowserWindowTitle,BrowserVizClass-method
> ### \S4method{setBrowserWindowTitle}{BrowserVizClass}
> ### getBrowserWindowSize getBrowserWindowSize,BrowserVizClass-method
> ### \S4method{getBrowserWindowSize}{BrowserVizClass}
> ### getBrowserWindowTitle getBrowserWindowTitle,BrowserVizClass-method
> ### \S4method{getBrowserWindowTitle}{BrowserVizClass}
> ### browserResponseReady browserResponseReady,BrowserVizClass-method
> ### \S4method{browserResponseReady}{BrowserVizClass} getBrowserResponse
> ### getBrowserResponse,BrowserVizClass-method
> ### \S4method{getBrowserResponse}{BrowserVizClass} port
> ### port,BrowserVizClass-method \S4method{port}{BrowserVizClass}
> ### closeWebSocket closeWebSocket,BrowserVizClass-method
> ### \S4method{closeWebSocket}{BrowserVizClass} getBrowserInfo
> ### getBrowserInfo,BrowserVizClass-method
> ### \S4method{getBrowserInfo}{BrowserVizClass} send
> ### send,BrowserVizClass-method \S4method{send}{BrowserVizClass} ready
> ### ready,BrowserVizClass-method \S4method{ready}{BrowserVizClass} toJSON
> ### addRMessageHandler
> ### Keywords: classes methods
>
> ### ** Examples
>
> library(BrowserViz)
>
> bv <- BrowserViz(4000:4024)
LSOpenURLsWithRole() failed with error -10810 for the URL http://localhost:4000.
Error: totalWait < maxWaitPermitted is not TRUE
Execution halted
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘runTests.R’
OK
* 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, 2 NOTEs
See
‘/Users/biocbuild/bbs-3.4-bioc/meat/BrowserViz.Rcheck/00check.log’
for details.