On Wed, Feb 15, 2012 at 6:07 PM, Dannon Baker <dannonba...@me.com> wrote:
> Main still runs these jobs in the standard non-split fashion, and as a
> resource that is occasionally saturated (and thus doesn't necessarily have
> extra resources to parallelize to) will probably continue doing so as long
> as there's significant overhead involved in splitting the files.  Fancy
> scheduling could minimize the issue, but as it is during heavy load you
> would actually have lower total throughput due to the splitting overhead.

Because the splitting (currently) happens on the main server?

>> Regarding the merging of the out, I see there is a default merge
>> method in lib/galaxy/datatypes/data.py which just concatenates
>> the files. I am surprised at that - it seems like a very bad idea in
>> general - consider many binary files, or XML. Why not put this
>> as the default for text and subclasses thereof?
> I can't think of a better reasonable default behavior for "Data", though
> you're obviously right that each datatype subclass will need to define
> particular behaviors for merging files.

The default should raise an error (and better yet, refuse to do the
split in the first place). Zen of Python: In the face of ambiguity,
refuse the temptation to guess.


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