Ant has an Exec task, allowing you to run any executable/command.
(Note sure if you can run that directly from Subclipse, but you specified going
via Ant as acceptable in your initial post)
So...
<exec executable="grep">
<arg value="^Index: .*$"/>
<arg value="mypatch.diff"/>
</exec>
Or, on Windows:
<exec executable="findstr">
<arg value="^Index:.*$"/>
<arg value="mypatch.diff"/>
</exec>
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