condor_run "/woldlab/castor/data00/proj/genome/programs/samtools-0.1.16/bin/samtools index Oryza_sativa-chrM.Oryza_sativa-chrM.bowtie.k3m2.bam" &
condor_run "/woldlab/castor/data00/proj/genome/programs/samtools-0.1.16/bin/samtools index Oryza_sativa-chrM.Oryza_sativa-chrM+chrP.bowtie.k3m2.bam" &
condor_run "/woldlab/castor/data00/proj/genome/programs/samtools-0.1.16/bin/samtools index Oryza_sativa-chrP.Oryza_sativa-chrM+chrP.bowtie.k3m2.bam" &
condor_run "/woldlab/castor/data00/proj/genome/programs/samtools-0.1.16/bin/samtools index Oryza_sativa-chrP.Oryza_sativa-chrP.bowtie.k3m2.bam" &
condor_run "/woldlab/castor/data00/proj/genome/programs/samtools-0.1.16/bin/samtools index TAIR10-chloroplast.TAIR10-chloroplast.bowtie.k3m2.bam" &
condor_run "/woldlab/castor/data00/proj/genome/programs/samtools-0.1.16/bin/samtools index TAIR10-chloroplast.TAIR10-chrM+chloroplast.bowtie.k3m2.bam" &
condor_run "/woldlab/castor/data00/proj/genome/programs/samtools-0.1.16/bin/samtools index TAIR10-chrM.TAIR10-chrM.bowtie.k3m2.bam" &
condor_run "/woldlab/castor/data00/proj/genome/programs/samtools-0.1.16/bin/samtools index TAIR10-chrM.TAIR10-chrM+chloroplast.bowtie.k3m2.bam" &
condor_run "/woldlab/castor/data00/proj/genome/programs/samtools-0.1.16/bin/samtools index Zea_mays.AGPv3-chrM.Zea_mays.AGPv3-chrM.bowtie.k3m2.bam" &
condor_run "/woldlab/castor/data00/proj/genome/programs/samtools-0.1.16/bin/samtools index Zea_mays.AGPv3-chrM.Zea_mays.AGPv3-chrM+chrP.bowtie.k3m2.bam" &
condor_run "/woldlab/castor/data00/proj/genome/programs/samtools-0.1.16/bin/samtools index Zea_mays.AGPv3-chrP.Zea_mays.AGPv3-chrM+chrP.bowtie.k3m2.bam" &
condor_run "/woldlab/castor/data00/proj/genome/programs/samtools-0.1.16/bin/samtools index Zea_mays.AGPv3-chrP.Zea_mays.AGPv3-chrP.bowtie.k3m2.bam" &
condor_run "python /woldlab/castor/data00/home/georgi/code/makewigglefromBAM-NH.py === Oryza_sativa-chrM.Oryza_sativa-chrM.bowtie.k3m2.bam /woldlab/castor/data00/home/georgi/genomes/ENSEMBL19-plants/Oryza_sativa/Oryza_sativa.MSU6.chrom.sizes Oryza_sativa-chrM.Oryza_sativa-chrM.bowtie.k3m2.wig -notitle -chr chrM" &
condor_run "python /woldlab/castor/data00/home/georgi/code/makewigglefromBAM-NH.py === Oryza_sativa-chrM.Oryza_sativa-chrM+chrP.bowtie.k3m2.bam /woldlab/castor/data00/home/georgi/genomes/ENSEMBL19-plants/Oryza_sativa/Oryza_sativa.MSU6.chrom.sizes Oryza_sativa-chrM.Oryza_sativa-chrM+chrP.bowtie.k3m2.wig -notitle -chr chrM" &
condor_run "python /woldlab/castor/data00/home/georgi/code/makewigglefromBAM-NH.py === Oryza_sativa-chrP.Oryza_sativa-chrM+chrP.bowtie.k3m2.bam /woldlab/castor/data00/home/georgi/genomes/ENSEMBL19-plants/Oryza_sativa/Oryza_sativa.MSU6.chrom.sizes Oryza_sativa-chrP.Oryza_sativa-chrM+chrP.bowtie.k3m2.wig -notitle -chr chrP" &
condor_run "python /woldlab/castor/data00/home/georgi/code/makewigglefromBAM-NH.py === Oryza_sativa-chrP.Oryza_sativa-chrP.bowtie.k3m2.bam /woldlab/castor/data00/home/georgi/genomes/ENSEMBL19-plants/Oryza_sativa/Oryza_sativa.MSU6.chrom.sizes Oryza_sativa-chrP.Oryza_sativa-chrP.bowtie.k3m2.wig -notitle -chr chrP" &
condor_run "python /woldlab/castor/data00/home/georgi/code/makewigglefromBAM-NH.py === TAIR10-chloroplast.TAIR10-chloroplast.bowtie.k3m2.bam /woldlab/castor/data00/home/georgi/genomes/TAIR10/TAIR10.chrom.sizes TAIR10-chloroplast.TAIR10-chloroplast.bowtie.k3m2.wig -notitle -chr chloroplast" &
condor_run "python /woldlab/castor/data00/home/georgi/code/makewigglefromBAM-NH.py === TAIR10-chloroplast.TAIR10-chrM+chloroplast.bowtie.k3m2.bam /woldlab/castor/data00/home/georgi/genomes/TAIR10/TAIR10.chrom.sizes TAIR10-chloroplast.TAIR10-chrM+chloroplast.bowtie.k3m2.wig -notitle -chr chloroplast" &
condor_run "python /woldlab/castor/data00/home/georgi/code/makewigglefromBAM-NH.py === TAIR10-chrM.TAIR10-chrM.bowtie.k3m2.bam /woldlab/castor/data00/home/georgi/genomes/TAIR10/TAIR10.chrom.sizes TAIR10-chrM.TAIR10-chrM.bowtie.k3m2.wig -notitle -chr chrM" &
condor_run "python /woldlab/castor/data00/home/georgi/code/makewigglefromBAM-NH.py === TAIR10-chrM.TAIR10-chrM+chloroplast.bowtie.k3m2.bam /woldlab/castor/data00/home/georgi/genomes/TAIR10/TAIR10.chrom.sizes TAIR10-chrM.TAIR10-chrM+chloroplast.bowtie.k3m2.wig -notitle -chr chrM" &
condor_run "python /woldlab/castor/data00/home/georgi/code/makewigglefromBAM-NH.py === Zea_mays.AGPv3-chrM.Zea_mays.AGPv3-chrM.bowtie.k3m2.bam /woldlab/castor/data00/home/georgi/genomes/Zea_mays.AGPv3/Zea_mays.AGPv3.chrom.sizes Zea_mays.AGPv3-chrM.Zea_mays.AGPv3-chrM.bowtie.k3m2.wig -notitle -chr chrM" &
condor_run "python /woldlab/castor/data00/home/georgi/code/makewigglefromBAM-NH.py === Zea_mays.AGPv3-chrM.Zea_mays.AGPv3-chrM+chrP.bowtie.k3m2.bam /woldlab/castor/data00/home/georgi/genomes/Zea_mays.AGPv3/Zea_mays.AGPv3.chrom.sizes Zea_mays.AGPv3-chrM.Zea_mays.AGPv3-chrM+chrP.bowtie.k3m2.wig -notitle -chr chrM" &
condor_run "python /woldlab/castor/data00/home/georgi/code/makewigglefromBAM-NH.py === Zea_mays.AGPv3-chrP.Zea_mays.AGPv3-chrM+chrP.bowtie.k3m2.bam /woldlab/castor/data00/home/georgi/genomes/Zea_mays.AGPv3/Zea_mays.AGPv3.chrom.sizes Zea_mays.AGPv3-chrP.Zea_mays.AGPv3-chrM+chrP.bowtie.k3m2.wig -notitle -chr chrP" &
condor_run "python /woldlab/castor/data00/home/georgi/code/makewigglefromBAM-NH.py === Zea_mays.AGPv3-chrP.Zea_mays.AGPv3-chrP.bowtie.k3m2.bam /woldlab/castor/data00/home/georgi/genomes/Zea_mays.AGPv3/Zea_mays.AGPv3.chrom.sizes Zea_mays.AGPv3-chrP.Zea_mays.AGPv3-chrP.bowtie.k3m2.wig -notitle -chr chrP" &

condor_run "/woldlab/castor/data00/proj/genome/programs/samtools-0.1.16/bin/samtools index TAIR10-chloroplast.TAIR10.bowtie.k3m2.bam" &
condor_run "/woldlab/castor/data00/proj/genome/programs/samtools-0.1.16/bin/samtools index TAIR10-chrM.TAIR10.bowtie.k3m2.bam" &
condor_run "python /woldlab/castor/data00/home/georgi/code/makewigglefromBAM-NH.py === TAIR10-chloroplast.TAIR10.bowtie.k3m2.bam /woldlab/castor/data00/home/georgi/genomes/TAIR10/TAIR10.chrom.sizes TAIR10-chloroplast.TAIR10.bowtie.k3m2.wig -notitle -chr chloroplast" &
condor_run "python /woldlab/castor/data00/home/georgi/code/makewigglefromBAM-NH.py === TAIR10-chrM.TAIR10.bowtie.k3m2.bam /woldlab/castor/data00/home/georgi/genomes/TAIR10/TAIR10.chrom.sizes TAIR10-chrM.TAIR10.bowtie.k3m2.wig -notitle -chr chrM" &