#!/bin/bash

#### 05-27-16
#### This is for making batch bigBed load file. Do NOT use for regular bigwig in pipeline. ----------

DIR="/mnt/data1/www/html/Yeqiao_multiome"

make_bb(){
if [ "$#" -eq 2 ]; then
	CELL=$1  #### group
	COLOR=$2 #### color
	for FILE in ${DIR}/*${CELL}*bb
	do
		#### name used on ucsc browser---------------
		PREFIX=$(basename $FILE .bb)
		echo ${PREFIX}
		NAME="\"${PREFIX}\""
		#### name of folder on Plutus----------------
		UPDIR=${DIR##*html/}
		#### make upload-----------------------------
		HEADER="track type=bigBed name=${NAME} description=${NAME} visibility=1 color=${COLOR} bigDataUrl=http://128.91.213.129/${UPDIR}/${PREFIX}.bb"
		#### write to upload file--------------------
		echo ${HEADER} >> load_bb.txt
		echo " " >> load_bb.txt
	done
else 
	echo "plese specify cell line and RBG color"
fi
}

#########################################################
make_bw(){
if [ "$#" -eq 2 ]; then
	CELL=$1  #### group
	COLOR=$2 #### color
	for FILE in ${DIR}/*${CELL}*bw
	do
		#### name used on ucsc browser---------------
		PREFIX=$(basename $FILE .bw)
		echo ${PREFIX}
		NAME="\"${PREFIX}\""
		#### name of folder on Plutus----------------
		UPDIR=${DIR##*html/}
		#### make upload-----------------------------
		HEADER="track type=bigWig name=${NAME} description=${NAME} visibility=2 alwaysZero=on color=${COLOR} bigDataUrl=http://128.91.213.129/${UPDIR}/${PREFIX}.bw"
		#### write to upload file--------------------
		echo ${HEADER} >> load_bw.txt
		echo " " >> load_bw.txt
	done
else 
	echo "plese specify cell line and RBG color"
fi
}



#### different color tracks for experiment 
make_bw "*" "0,0,0"