TODO.markdown

-*Create wrapper scripts for each tool
-*Create param files for each tool
-*Update peak calling and remove duplicates modules from dummy values
-*Code to insert results into MongoDB and GridFS (Python classes and wrapper scripts)
-*Create Genome collection in MongoDB
-*Create the Modules class
-*Pegasus stdout handling for certain tools (bwa, samtools, zcat, sort, etc.)
\ No newline at end of file
+* Create wrapper scripts for each tool
+* Create param files for each tool
+* Update peak calling and remove duplicates modules from dummy values
+* Code to insert results into MongoDB and GridFS (Python classes and wrapper scripts)
+* Create Genome collection in MongoDB
+* Create the Modules class
+* Pegasus stdout handling for certain tools (bwa, samtools, zcat, sort, etc.)
\ No newline at end of file