[Bioc-devel] biocLite suggestion

Seth Falcon sfalcon at fhcrc.org
Mon Nov 28 04:53:32 CET 2005

Hi Kasper,

On 23 Nov 2005, khansen at stat.berkeley.edu wrote:
> I recently had a look at the biocLite script as I was reinstalling  
> stuff, and I have a few comments.
> Currently it is difficult to see that the function actually accepts
> a groupName argument, and furthermore it is difficult to see what
> the possible values of that argument are (and what packages they
> corresponds to) - basically one has to source biocinstall manually
> and look for the code.

Agreed.  I think the notion of a group install will soon become more
useful as we roll out bioc views.

And I wonder if a better arg name would be "view".

> Suggestion:
> 1) explicitly add groupName to the args of the biocLite function
> 2) add in the comments section that groupName = "help" will print
>    out
> the possible combinations of groupNames (and what packages they  
> correspond to)
> 3) add code in the biocinstall.R script so that 2) actually is true.
> (4)) possibly add the groupName = "help" comment to the output of the  
> biocLite script (I am not sure whether this is a good idea, but it  
> might be helpful for some non-power users?).

These seem like reasonable short-term solutions.  Patches welcome.

+ seth

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