[R] ERROR: installing package indices failed

[Uwe Ligges]

Sigal Blay wrote:
> gregmisc is installed yet the problem persist.
> I installed gregmisc using 
> install.packages(c("combinat","gregmisc","genetics"),lib='/home/sblay/lib')
> (on the same library path where I am trying to install LDheatmap)
> 

Have you set the environment variable R_LIBS appropriately?

Uwe Ligges


>>installed.packages(lib='/home/sblay/lib')
> 
>           Package     LibPath           Version Priority Bundle    
> combinat  "combinat"  "/home/sblay/lib" "0.0-5" NA       NA        
> gdata     "gdata"     "/home/sblay/lib" "2.0.0" NA       "gregmisc"
> genetics  "genetics"  "/home/sblay/lib" "1.1.1" NA       NA        
> gmodels   "gmodels"   "/home/sblay/lib" "2.0.0" NA       "gregmisc"
> gplots    "gplots"    "/home/sblay/lib" "2.0.0" NA       "gregmisc"
> gtools    "gtools"    "/home/sblay/lib" "2.0.0" NA       "gregmisc"
> LDheatmap "LDheatmap" "/home/sblay/lib" "1.0"   NA       NA        
> 
> ...
> 
> 
> 
>>I am developing a package named LDehatmap.
>>It depends on the "genetics" package
>>and includes two data files and a demo file.
>>When I'm trying to install it, I get the following messages:
>>
>>* Installing *source* package 'LDheatmap' ...
>>** R
>>** data
>>** demo
>>** help
>>
>>>>>Building/Updating help pages for package 'LDheatmap'
>>
>>    Formats: text html latex example
>> LDheatmap                text    html    latex   example
>> ldheatmap                text    html    latex   example
>>Error: object 'reorder' not found whilst loading namespace 'gdata'
>>Error: package 'gdata' could not be loaded
>>Execution halted
>>ERROR: installing package indices failed
>>
>>Any ideas?
> 
> 
> Yes.  You do not have gdata (part of gregmisc) installed, and genetics 
> depends on it.  How did you get genetics installed? A binary install?
> 
> Install gregmisc ....
> 
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