#!/bin/bash

#time GENOME=hg19 union_bigwig_bwtools.sh /data/wade/archerHubs/dietrichHub/hg19/union_files/BRG_24hr_2018.SW13_none.union.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_none_A-NS50728.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_none_A-NS50729.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_none_B-NS50728.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_none_B-NS50729.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_none_C-NS50728.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_none_C-NS50729.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50814-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_none_A-NS50812.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50814-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_none_A-NS50814.STAR_hg19.neg.bw
#exit;

echo 1;
time GENOME=hg19 union_bigwig_bwtools.sh /data/wade/archerHubs/dietrichHub/hg19/union_files/BRG_24hr_2018.SW13_none.union.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_none_A-NS50728.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_none_A-NS50729.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_none_B-NS50728.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_none_B-NS50729.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_none_C-NS50728.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_none_C-NS50729.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50814-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_none_A-NS50812.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50814-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_none_A-NS50814.STAR_hg19.pos.bw
rm *bg
echo 2;
time GENOME=hg19 union_bigwig_bwtools.sh /data/wade/archerHubs/dietrichHub/hg19/union_files/BRG_24hr_2018.SW13_tet.union.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_tet_A-NS50728.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_tet_A-NS50729.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_tet_B-NS50728.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_tet_B-NS50729.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_tet_C-NS50728.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_tet_C-NS50729.STAR_hg19.neg.bw
rm *bg
echo 3;
time GENOME=hg19 union_bigwig_bwtools.sh /data/wade/archerHubs/dietrichHub/hg19/union_files/BRG_24hr_2018.SW13_tet.union.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_tet_A-NS50728.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_tet_A-NS50729.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_tet_B-NS50728.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_tet_B-NS50729.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_tet_C-NS50728.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/SW13_tet_C-NS50729.STAR_hg19.pos.bw
rm *bg
echo 4;
time GENOME=hg19 union_bigwig_bwtools.sh /data/wade/archerHubs/dietrichHub/hg19/union_files/BRG_24hr_2018.iBRG1_none.union.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_none_A-NS50728.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_none_A-NS50729.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_none_B-NS50728.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_none_B-NS50729.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_none_C-NS50728.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_none_C-NS50729.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50814-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_none_A-NS50812.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50814-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_none_A-NS50814.STAR_hg19.neg.bw
rm *bg
echo 5;
time GENOME=hg19 union_bigwig_bwtools.sh /data/wade/archerHubs/dietrichHub/hg19/union_files/BRG_24hr_2018.iBRG1_none.union.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_none_A-NS50728.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_none_A-NS50729.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_none_B-NS50728.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_none_B-NS50729.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_none_C-NS50728.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_none_C-NS50729.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50814-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_none_A-NS50812.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50814-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_none_A-NS50814.STAR_hg19.pos.bw
rm *bg
echo 6;
time GENOME=hg19 union_bigwig_bwtools.sh /data/wade/archerHubs/dietrichHub/hg19/union_files/BRG_24hr_2018.iBRG1_tet.union.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_tet_A-NS50728.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_tet_A-NS50729.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_tet_B-NS50728.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_tet_B-NS50729.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_tet_C-NS50728.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_tet_C-NS50729.STAR_hg19.neg.bw
rm *bg
echo 7;
time GENOME=hg19 union_bigwig_bwtools.sh /data/wade/archerHubs/dietrichHub/hg19/union_files/BRG_24hr_2018.iBRG1_tet.union.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_tet_A-NS50728.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_tet_A-NS50729.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_tet_B-NS50728.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_tet_B-NS50729.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_tet_C-NS50728.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iBRG1_tet_C-NS50729.STAR_hg19.pos.bw
rm *bg
echo 8;
time GENOME=hg19 union_bigwig_bwtools.sh /data/wade/archerHubs/dietrichHub/hg19/union_files/BRG_24hr_2018.iHSA_none.union.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_none_A-NS50728.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_none_A-NS50729.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_none_B-NS50728.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_none_B-NS50729.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_none_C-NS50728.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_none_C-NS50729.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50814-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_none_A-NS50812.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50814-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_none_A-NS50814.STAR_hg19.neg.bw
rm *bg
echo 9;
time GENOME=hg19 union_bigwig_bwtools.sh /data/wade/archerHubs/dietrichHub/hg19/union_files/BRG_24hr_2018.iHSA_none.union.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_none_A-NS50728.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_none_A-NS50729.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_none_B-NS50728.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_none_B-NS50729.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_none_C-NS50728.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_none_C-NS50729.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50814-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_none_A-NS50812.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50814-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_none_A-NS50814.STAR_hg19.pos.bw
rm *bg
echo 10;
time GENOME=hg19 union_bigwig_bwtools.sh /data/wade/archerHubs/dietrichHub/hg19/union_files/BRG_24hr_2018.iHSA_tet.union.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_tet_A-NS50728.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_tet_A-NS50729.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_tet_B-NS50728.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_tet_B-NS50729.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_tet_C-NS50728.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_tet_C-NS50729.STAR_hg19.neg.bw
rm *bg
echo 11;
time GENOME=hg19 union_bigwig_bwtools.sh /data/wade/archerHubs/dietrichHub/hg19/union_files/BRG_24hr_2018.iHSA_tet.union.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_tet_A-NS50728.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_tet_A-NS50729.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_tet_B-NS50728.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_tet_B-NS50729.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_tet_C-NS50728.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50728-Archer-Dietrich/rnaseqProcessing/rnaseqOutput_v27lift37/iHSA_tet_C-NS50729.STAR_hg19.pos.bw
rm *bg
echo 12;
time GENOME=hg19 union_bigwig_bwtools.sh /data/wade/archerHubs/dietrichHub/hg19/union_files/BRG_48hr_2019.iBRG1_none.union.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50955-Archer-Dietrich/rnaseq_processing/rnaseqOutput_v28lift37/NS50955.BRG-B.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50955-Archer-Dietrich/rnaseq_processing/rnaseqOutput_v28lift37/NS50955.BRG1-A.STAR_hg19.neg.bw
rm *bg
echo 13;
time GENOME=hg19 union_bigwig_bwtools.sh /data/wade/archerHubs/dietrichHub/hg19/union_files/BRG_48hr_2019.iBRG1_none.union.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50955-Archer-Dietrich/rnaseq_processing/rnaseqOutput_v28lift37/NS50955.BRG-B.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50955-Archer-Dietrich/rnaseq_processing/rnaseqOutput_v28lift37/NS50955.BRG1-A.STAR_hg19.pos.bw
rm *bg
echo 14;
time GENOME=hg19 union_bigwig_bwtools.sh /data/wade/archerHubs/dietrichHub/hg19/union_files/BRG_48hr_2019.iBRG1_tet.union.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50955-Archer-Dietrich/rnaseq_processing/rnaseqOutput_v28lift37/NS50955.BRG-tet-A.STAR_hg19.neg.bw /ddn/gs1/project/nextgen/post/archer1/NS50955-Archer-Dietrich/rnaseq_processing/rnaseqOutput_v28lift37/NS50955.BRG-tet-B.STAR_hg19.neg.bw
rm *bg
echo 15;
time GENOME=hg19 union_bigwig_bwtools.sh /data/wade/archerHubs/dietrichHub/hg19/union_files/BRG_48hr_2019.iBRG1_tet.union.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50955-Archer-Dietrich/rnaseq_processing/rnaseqOutput_v28lift37/NS50955.BRG-tet-A.STAR_hg19.pos.bw /ddn/gs1/project/nextgen/post/archer1/NS50955-Archer-Dietrich/rnaseq_processing/rnaseqOutput_v28lift37/NS50955.BRG-tet-B.STAR_hg19.pos.bw
rm *bg