Merge branch 'hotfix/0.13.6.12'
Iterate version numbers
Iterate version numbers
Disabled odd provision out linking behaviour
PDE-427 Initial changes to seqware-archetype-decider to reflect PDE advancements and best practices. Also docs in the class file.
Fixed the pom to be runnable. Added param workflow-name to construct the decider class name. Modified archetype-metadata.xml to ask first for package and for workflow-name and build the other properties out of those. Fixed the tests PDE-427
PDE-427 updated the documentation
Set the decider archetype to 'partial=true' so that deciders and workflows can be generated in the same directory PDE-427 SEQWARE-808
PDE-428 updated workflow to have fewer properties more in line with new decider archetypes. Workflow class name is now dependent on those properties
PDE-427 Trying to fix the extended tests
Added in the maven junction plugin; wrote the README for the links directory; deleted the data directory from workflow; renamed the workflow and INI to match the workflow name PDE-428
PDE-427 Trying to fix the extended tests again
Added filtering for the workflow.properties file. Changed the workflow class so that it uses cat and echo from the bin directory. added manual_output to the ini and workflow. Added more comments in workflow. PDE-428
Adding in  which is a neat little trick
Fixed INI file filtering PDE-428
Updated all docs for the new workflow archetypes. Also compiled the site with Ruby 1.9.3 which might have done some interesting things. PDE-428
Added Javadoc to the workflow archetype. Made a public method private. PDE-428
Modified the README with information about Ruby 1.9.3
Modified the extended testing to adapt to the new java maven archetype PDE-428
Removed extra http from repositories PDE-428