better version of code
Switching trimming engine to Trimmomatic

I was seeing a number of problems with incomplete adapter trimming from
scythe, and sickle would occasionally fail to create correct PE files
when qual trimming very large input files.  Trimmomatic does not suffer
from these issues, so making the switch.  This will be v2.0 of
illumiprocessor.
small cleanup; add call to untagged adapter sequence for TruSeq style
add mechanisms to allow users to use their own regex string for fastq.gzip ID
add --se option and allow user to set encoding
update example file for current version
modularize illumiprocessor and add logging
add license
move illumiprocessor executable to bin
rename module and add README
removing older module dir