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DAG-Edit 1.419-beta5

John Day-Richter john.richter at
Wed Jan 19 14:22:55 PST 2005

DAG-Edit 1.419-beta5 is now available at

Most of the changes are bug fixes, but there is one significant difference: 
there are now 3 ways to apply filters when saving or viewing the ontology:

* LOOSE - The original method. Every path to every terms that matches the 
filter will be shown. Some terms that don't match the filter may be shown if 
they are part of a path to a term that does match the filter.

* STRICT - This method shows ONLY terms that match the filter. This means that 
a term that matches the filter may not appear. This can happen if the only 
paths from the root to the matching term pass through one or more 
non-matching terms. This is the preferred way to filter categories, because 
if a term belongs to a category (like "go_slim" or "prok" in the gene 
ontology) all of its ancestors usually belong to the category as well. 

* FEWEST_PATHS - This method first does a strict match, and then adds in as 
few non-matching nodes as possible so that ALL matching terms are shown. Some 
non-matching nodes may still appear, but far fewer than will be shown with 
the LOOSE method.


P.S. This version of DAG-Edit uses the upgraded drag and drop system that will 
be used in OBO-Edit. If you are adventurous, you can test out OBO-Edit's new 
and improved term editor panel by going into the Layout Manager (inside the 
Configuration Plugin) and changing any instance of the string




The new term editor panel doesn't require you to hold down control or shift 
while dragging. Just grab some terms and drag them onto another term. A menu 
will pop up asking what you want to do (copy, move, merge, add parents, etc). 
You can even drop a relationship type onto a term to change its relationship 
to the parent.

If you know what you want to do with the terms and don't want to bother with a 
menu, you can hold down various keyboard keys to indicate what you want to 
happen when you drop the terms. When you hold down the key, the label at the 
top of the terms you're dragging will change to show the current operation. 
The hotkeys are:

C - Copy
X - Move
M - Merge
T - Change type (must be dragging a term relationship type)

Please test this out if you're curious. I'm happy to help anyone who can't get 
it to work...

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