#!/bin/bash
# RNAseq bigWigs moeten in de chipWig directory staan

function addTrack {
	NAME=$(basename $1 .bb)
	echo -e "\n" >> annotation_trackDb.txt
	echo "  track $NAME" >> annotation_trackDb.txt
	echo "  parent annotation" >> annotation_trackDb.txt
	echo "  shortLabel $NAME" >> annotation_trackDb.txt
	echo "  longLabel $NAME" >> annotation_trackDb.txt
	echo "  type bigBed 12" >> annotation_trackDb.txt
   	echo "  visibility dense" >> annotation_trackDb.txt
	echo "  bigDataUrl $1 " >> annotation_trackDb.txt
}

cat annoDef.txt > annotation_trackDb.txt

for file in annotation/*.bb
	do
		addTrack $file
	done