### FixMateInformation

Ensure that all mate-pair information is in sync between each read and it's mate pair. If no OUTPUT file is supplied then the output is written to a temporary file and then copied over the INPUT file.

Option | Description
--- | ---
INPUT=File | The input file to fix. This option may be specified 0 or more times.
OUTPUT=File | The output file to write to. If no output file is supplied, the input file is overwritten. Default value: null.
SORT_ORDER=SortOrder | Optional sort order if the OUTPUT file should be sorted differently than the INPUT file. Default value: null. Possible values: {unsorted, queryname, coordinate}