> Publishing failed
>   Resource /M2_REPO/commons-logging/commons-logging/1.0/commons-
> logging-1.0.jar does not exist.

That's a WTP bug, in any version from WTP 1.0 till recent builds:
https://bugs.eclipse.org/bugs/show_bug.cgi?id=116783

WTP 1.0 simply ignores external dependencies, later builds started to
fail publishing if the project contains dependencies with a variable
(vars are handled like phisical paths). Ony recent I/M builds are
finally handling this as expected.
Just grab a newer build from
http://download.eclipse.org/webtools/downloads/ and you will not have
problems anymore

I'll release a new version of the eclipse plugin during the weekend,
and I will republish the documentation with a warning on working WTP
versions.

fabrizio

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