Assembly shouldn't run twice

[fnothaft]

The Maven Assembly plugin right now runs the assembly phase when in package. This causes Assembly to run twice. Instead, we should run the single phase, which only runs once.

For the life of me, I can't tell why assembly runs it twice. @heuermh?

[heuermh]

As of version 2.5.1, the maven assembly docs say

"The main goal in the assembly plugin is the single goal. It is used to create all assemblies. All other goals are deprecated and will be removed in a future release."
http://maven.apache.org/plugins/maven-assembly-plugin/

So +1 on #481 from me.

Just watch out for the issue with tar.gz artifacts described here
nmdp-bioinformatics/ngs#78

[fnothaft]

Thanks @heuermh! I haven't seen the tar issue on OS X yet, but I would imagine that is a problem for both the single and assembly goals.

[heuermh]

Yep, only happens if you also upgrade to version 2.5.1.

[fnothaft]

OK, gotcha!