Re: [Treebase-devel] treebase r package available on cran

[Hilmar L. <hl...@ne...>]

Let me just add here that there is no requirement that every metadata  
attribute available for querying through PhyloWS is also a column in  
some database table, or an attribute for which the database stores a  
value. It is up to phylogenetic data providers how to resolve a  
PhyloWS query, and there is no reason that the TreeBASE CQL to SQL  
mapper couldn't translate a query for hasBranchLengths=true (as an  
example) into SQL that would filter results to exclude trees that  
don't have branch lengths.

	-hilmar

On Oct 27, 2011, at 6:35 PM, William Piel wrote:

>
> On Oct 27, 2011, at 2:12 PM, Carl Boettiger wrote:
>
>> I think the primary thing I noticed was that I couldn't identify if  
>> a tree had branch-length information without downloading the actual  
>> data file.
>
> hmm.. The database itself does not store a flag to indicate whether  
> a tree has or has not any branch-lengths. But it has been our  
> intention to comply more fully with the PhyloWS specs and provide  
> URIs to all objects, including nodes. Hence, presumably there could  
> eventually be a query like this:
>
> /phylows/node/find?query=brlen>0&recordSchema=tree
>
> Is that what you have in mind?
>
> Alternatively, perhaps it would be better to pre-calculate and store  
> metadata separately, like "longest root to tip path", "tree  
> balance", "mean clade support", etc.
>
> bp
>
>
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: Hilmar Lapp  -:- Durham, NC -:- informatics.nescent.org :
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