Fix typo in DEV req.txt file.
Renamed test workflow XML files for consistency
Remove pygraphviz from dev dependencies.
Only used 'enabled' tasks. Added better checking for Pmodules validateSettings state. Better merging of settings from the commandline into the WorkflowSettings. Still some cruft in there for backward compatibility.
Added unittests for new API changes in workflow settings.
Updated P_Mapping and P_Align to be compatible with SMRTAnalysis build 128428. Non-chunked local-only Fetch, Filter and Mapping work. Removed SMRTPipeContext from the Pmodule API. With the exception of P_CeleraAssembler and P_ReferenceUploader, all calls to self.context are removed.