echo "Begin 0hrep1"
bamCoverage --bam /mnt/max/b/genomics_facility/DKlab/mr/parclip/shrimp-mRNA-introns1k/0hrep1-15mMm1kIntron.bam.md.bam  -o ~/giagkas/0hrep1.bw;
echo "Begin 0hrep2"
bamCoverage --bam /mnt/max/b/genomics_facility/DKlab/mr/parclip/shrimp-mRNA-introns1k/0hrep2-15mMm.bam.md.bam  -o ~/giagkas/0hrep2.bw;
echo "Begin 0hrep3"
bamCoverage --bam /mnt/max/b/genomics_facility/DKlab/mr/parclip/shrimp-mRNA-introns1k/0hrep3-15mMm1kIntron.bam.md.bam -o ~/giagkas/0hrep3.bw;
echo "Begin 2hrep1"
bamCoverage --bam /mnt/max/b/genomics_facility/DKlab/mr/parclip/shrimp-mRNA-introns1k/2hrep1-15mMm1kIntron.bam.md.bam -o ~/giagkas/2hrep1.bw;
echo "Begin 2hrep2"
bamCoverage --bam /mnt/max/b/genomics_facility/DKlab/mr/parclip/shrimp-mRNA-introns1k/2hrep2-15mMm1kIntron.bam.md.bam -o ~/giagkas/2hrep2.bw;
echo "Begin 2hrep3"
bamCoverage --bam /mnt/max/b/genomics_facility/DKlab/mr/parclip/shrimp-mRNA-introns1k/2hrep3-15mMm1kIntron.bam.md.bam -o ~/giagkas/2hrep3.bw;
echo "Begin 6hrep1"
bamCoverage --bam /mnt/max/b/genomics_facility/DKlab/mr/parclip/shrimp-mRNA-introns1k/6hrep1-15mMm.bam.md.bam   -o ~/giagkas/6hrep1.bw;
echo "Begin 6hrep2"
bamCoverage --bam /mnt/max/b/genomics_facility/DKlab/mr/parclip/shrimp-mRNA-introns1k/6hrep2-15mMm.bam.md.bam  -o ~/giagkas/6hrep2.bw;
echo "Begin 6hrep3"
bamCoverage --bam /mnt/max/b/genomics_facility/DKlab/mr/parclip/shrimp-mRNA-introns1k/6hrep3-15mMm1kIntron.bam.md.bam  -o ~/giagkas/6hrep3.bw;
echo "Begin IFN"
bamCoverage --bam /mnt/max/b/genomics_facility/DKlab/mr/parclip/shrimp-mRNA-introns1k/IFN-15mMm.bam.md.bam -o ~/giagkas/IFN.bw;
echo "Begin IL4"
bamCoverage --bam /mnt/max/b/genomics_facility/DKlab/mr/parclip/shrimp-mRNA-introns1k/IL4-15mMm.bam.md.bam -o ~/giagkas/IL4.bw
echo "Finished!"