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Proposal for new GO Flat File format

Sue Rhee rhee at
Thu May 22 22:42:23 PDT 2003

I'm not sure what the status of this is, but I think the format looks fine
and I strongly concur with Midori's comments about the replaced by stuff.


On Fri, 25 Apr 2003, John Richter wrote:

> Hello, everyone. As promised at the last GO meeting, I've come up with a
> proposal for the new GO Flat File format (based largely on the format of the
> GO.defs file), tentatively titled GO-EFF (Gene Ontology Extensible Flat File).
> The proposal is attached to this email as a text file.
> Please consider this proposal carefully, and email the list with any concerns
> you have. I have tried to come up with a design that is familiar, yet usable,
> extensible, and compact.
> A warning: This proposal suggests discarding the current method of using
> indentation to indicate parentage, and adopting a more record-based approach.
> If this is intolerable to our community, I have developed an alternate
> proposal that preserves the current document structure. However, I feel that
> as the GO grows more expressive, the indentation-based method will grow
> harder and harder to parse, and harder and harder for humans to read. I hope
> this proposal will address that problem, and remain palatable to users who
> have grown accustomed to the format that has served us well for so long.
> 	-John

Sue Rhee                         	rhee at
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