Updated conf to include tagalign files.  Renamed script files from wrappers.  Added cat_spp for ungzipped results.  Updated peak_call.yaml to rename .bed files to .tagAlign for spp.

Fixed issues with submitting multiple jobs for same files.  Added new example to find experiment_ids from the T4 and HM collections. Download now prioritizes hcc_url if it exists.

Make sure the `conn` variable exists, otherwise a `urllib2.URLError`
exception causes a subsequent `UnboundLocalError` in the `finally`
block.

Updated stdout & stderr redirection.  Includes adjustments in individual job yaml files, module yaml files, and workflow generation handling.

Fixed reference to undefined variable key in workflow_module.  Adjusted param files to use bed arguments

Fixed typo in remove_duplicates.yaml.  Adjusted get_full_name to handle no markers.  Updated workflow to track prefixes cross module.