tesseradata/trelliscope — pull request #27 by schloerke (2014-06-19 17:35:35+00:00)
Title: R cmd check

Many items of documentation are documented as "TODO". These need to be fixed

Passes more check() stuff now. Still have some packages/namespace issues to square away.

Remaining things to fix:
```
* checking package dependencies ... NOTE
Depends: includes the non-default packages:
'datadr' 'lattice' 'base64enc' 'knitr' 'markdown' 'shiny' 'digest'
'codetools' 'hexbin' 'ggplot2' 'jsonlite' 'fastICA'
Adding so many packages to the search path is excessive and importing
selectively is preferable.

* checking installed package size ... NOTE
installed size is 5.3Mb
sub-directories of 1Mb or more:
data 2.0Mb
trelliscopeViewer 2.3Mb

* checking dependencies in R code ... WARNING
'::' or ':::' imports not declared from:
'Cairo' 'httpuv'
'library' or 'require' calls not declared from:
'data.table' 'grid'
'library' or 'require' calls to packages already attached by Depends:
'base64enc' 'datadr' 'digest' 'ggplot2' 'lattice' 'shiny'
Please remove these calls from your code.
Packages in Depends field not imported from:
'base64enc' 'codetools' 'datadr' 'digest' 'fastICA' 'ggplot2'
'hexbin' 'jsonlite' 'knitr' 'lattice' 'markdown' 'shiny'
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
':::' calls which should be '::':
'codetools:::findGlobals' 'httpuv:::startServer'
'httpuv:::stopServer'
See the note in ?`:::` about the use of this operator.
Unexported objects imported by ':::' calls:
'codetools:::collectUsageHandlers' 'lattice:::calculateGridLayout'
'lattice:::compute.layout' 'lattice:::evaluate.legend'
'lattice:::getLabelList' 'lattice:::grobFromLabelList'
'shiny:::callAppHook' 'shiny:::file.path.ci' 'shiny:::handlerManager'
'shiny:::p_randomInt' 'shiny:::serviceApp'
'shiny:::setShowcaseDefault' 'shiny:::shinyCallingHandlers'
'shiny:::startApp' 'shiny:::workerId'
See the note in ?`:::` about the use of this operator.
See the information on DESCRIPTION files in the chapter 'Creating R
packages' of the 'Writing R Extensions' manual.

* checking R code for possible problems ... NOTE
addDisplay: no visible binding for global variable 'verbose'
findDisplay: no visible binding for global variable 'displayListDF'
getCogInfo: no visible binding for global variable 'type'
getCognostics : : no visible global function definition for
'getCognosticsSub'
listDisplays: no visible binding for global variable 'displayListDF'
mongoSaveCognostics: no visible global function definition for
'vdbMongoInit'
myRunApp: no visible binding for global variable
'.shinyServerMinVersion'
nbDisplay: no visible binding for global variable 'displayList'
nbDisplayList : : no visible binding for global variable
'displayList'
oldGetCurCogDat.data.frame: no visible global function definition for
'logMsg'
oldGetCurCogDat.mongoCogDatConn: no visible global function definition
for 'logMsg'
removeDisplay: no visible binding for global variable
'displayListNames'
syncLocalData: no visible binding for global variable 'displayListDF'
syncLocalData: no visible binding for global variable 'dataClass'
```