[BioC] Getting LimmaGUI to run

[stefano iacus]

emh, clear workspace just do rm(list=ls()) which is not enough in  
your case as all your "troubles" comes from .* named objects.
save (default) workspace :  save.image()   with file argument ".RData"
save workspace file: save.image(file=file.choose())

stefano

On 19/lug/05, at 17:06, chris umbricht wrote:

> Thanks, Stefano, that worked.
>
> Just for my benefit, how does
>
> "rm(list=ls(all.names=T))"
>
> differ from what you achieve using the menu commands, e.g. "clear  
> workspace, save workspace, save default workspace"?
>
> Do they have no effect on the .RData file?
>
> c.
>
> On Jul 19, 2005, at 6:35 AM, stefano iacus wrote:
>
>
>> Hi Chris,
>>
>> it seems that in your workspace there are lots of tcltk dependencies.
>>
>> Loading Tcl/Tk interface ... done
>> > ls(all.names=T)
>> [1] ".JustAskedWhetherToSave" ".Random.seed"            ".Traceback"
>> [4] ".affylmGUIglobals"       ".limmaGUIglobals"        ".required"
>> [7] "dati"                    "r"                       "x"
>> >
>> and in particular the offending one, i.e. the one causing tcltk to  
>> be loaded are
>> .affylmGUIglobals
>> .limmaGUIglobals
>> and the forth argument in .required
>>
>> my suggestion is to do something like
>> rm(list=ls(all.names=T))
>> save.image()
>> this will clean up your .RData file
>> stefano
>