Fixed minor issues in param yaml scripts. Updated workflow to add jobs and create relevant pegasus information.  Workflow can now generate download and alignment jobs, still needs testing.  Setup updated to include job-scripts.

Updated workflow_module dependency handling.  Updated download_fastq script.  Added Ladunga experiment select mongodb pipeline.

Renamed yaml_job to workflow_job.  Updated validation to support has_value & default.  Workflow_module class can now generate jobs.

Added genome validation.  Added module loading with minor validation.  Added required file detection in modules.

Added download script.  Updated job yaml.  Updated module yaml.  Add executable loading to workflow code.  Updated database validation for new inputs.

Updated yaml_job validation.  Added workflow validation for modules, yaml_jobs, and run files.  Added wrapper scripts for some commands.