ln -s /data/images/proton/DKlab/mr/Polysomes/reads/tophat/KO_0h_replicate_IIb/accepted_hits.bam   /data/images/proton/DKlab/mr/Polysomes/reads/tracks/KO_0h_replicate_IIb.bam
ln -s /data/images/proton/DKlab/mr/Polysomes/reads/tophat/KO_0h_replicate_Ib/accepted_hits.bam   /data/images/proton/DKlab/mr/Polysomes/reads/tracks/KO_0h_replicate_Ib.bam
ln -s /data/images/proton/DKlab/mr/Polysomes/reads/tophat/KO_2h_replicate_IIb/accepted_hits.bam   /data/images/proton/DKlab/mr/Polysomes/reads/tracks/KO_2h_replicate_IIb.bam
ln -s /data/images/proton/DKlab/mr/Polysomes/reads/tophat/KO_2h_replicate_Ib/accepted_hits.bam   /data/images/proton/DKlab/mr/Polysomes/reads/tracks/KO_2h_replicate_Ib.bam
ln -s /data/images/proton/DKlab/mr/Polysomes/reads/tophat/KO_6h_replicate_IIb/accepted_hits.bam   /data/images/proton/DKlab/mr/Polysomes/reads/tracks/KO_6h_replicate_IIb.bam
ln -s /data/images/proton/DKlab/mr/Polysomes/reads/tophat/KO_6h_replicate_Ib/accepted_hits.bam   /data/images/proton/DKlab/mr/Polysomes/reads/tracks/KO_6h_replicate_Ib.bam
ln -s /data/images/proton/DKlab/mr/Polysomes/reads/tophat/KO_IFN-gamma_replicate_IIb/accepted_hits.bam   /data/images/proton/DKlab/mr/Polysomes/reads/tracks/KO_IFN-gamma_replicate_IIb.bam
ln -s /data/images/proton/DKlab/mr/Polysomes/reads/tophat/KO_IFN_replicate_Ib/accepted_hits.bam   /data/images/proton/DKlab/mr/Polysomes/reads/tracks/KO_IFN_replicate_Ib.bam
ln -s /data/images/proton/DKlab/mr/Polysomes/reads/tophat/KO_IL4_replicate_IIb/accepted_hits.bam   /data/images/proton/DKlab/mr/Polysomes/reads/tracks/KO_IL4_replicate_IIb.bam
ln -s /data/images/proton/DKlab/mr/Polysomes/reads/tophat/KO_IL4_replicate_Ib/accepted_hits.bam   /data/images/proton/DKlab/mr/Polysomes/reads/tracks/KO_IL4_replicate_Ib.bam
ln -s /data/images/proton/DKlab/mr/Polysomes/reads/tophat/WT_0h_replicate_IIb/accepted_hits.bam   /data/images/proton/DKlab/mr/Polysomes/reads/tracks/WT_0h_replicate_IIb.bam
ln -s /data/images/proton/DKlab/mr/Polysomes/reads/tophat/WT_0h_replicate_Ib/accepted_hits.bam   /data/images/proton/DKlab/mr/Polysomes/reads/tracks/WT_0h_replicate_Ib.bam
ln -s /data/images/proton/DKlab/mr/Polysomes/reads/tophat/WT_2h_replicate_IIb/accepted_hits.bam   /data/images/proton/DKlab/mr/Polysomes/reads/tracks/WT_2h_replicate_IIb.bam
ln -s /data/images/proton/DKlab/mr/Polysomes/reads/tophat/WT_2h_replicate_Ib/accepted_hits.bam   /data/images/proton/DKlab/mr/Polysomes/reads/tracks/WT_2h_replicate_Ib.bam
ln -s /data/images/proton/DKlab/mr/Polysomes/reads/tophat/WT_6h_replicate_IIb/accepted_hits.bam   /data/images/proton/DKlab/mr/Polysomes/reads/tracks/WT_6h_replicate_IIb.bam
ln -s /data/images/proton/DKlab/mr/Polysomes/reads/tophat/WT_6h_replicate_Ib/accepted_hits.bam   /data/images/proton/DKlab/mr/Polysomes/reads/tracks/WT_6h_replicate_Ib.bam
ln -s /data/images/proton/DKlab/mr/Polysomes/reads/tophat/WT_IFN-gamma_replicate_IIb/accepted_hits.bam   /data/images/proton/DKlab/mr/Polysomes/reads/tracks/WT_IFN-gamma_replicate_IIb.bam
ln -s /data/images/proton/DKlab/mr/Polysomes/reads/tophat/WT_IFN-gamma_replicate_Ib/accepted_hits.bam   /data/images/proton/DKlab/mr/Polysomes/reads/tracks/WT_IFN-gamma_replicate_Ib.bam
ln -s /data/images/proton/DKlab/mr/Polysomes/reads/tophat/WT_IL4_replicate_IIb/accepted_hits.bam   /data/images/proton/DKlab/mr/Polysomes/reads/tracks/WT_IL4_replicate_IIb.bam
ln -s /data/images/proton/DKlab/mr/Polysomes/reads/tophat/WT_IL4_replicate_Ib/accepted_hits.bam   /data/images/proton/DKlab/mr/Polysomes/reads/tracks/WT_IL4_replicate_Ib.bam


/data/results/tools/proton/tophat2stranded-bigwig1.sh  /data/images/proton/DKlab/mr/Polysomes/reads/tracks/KO_0h_replicate_IIb.bam /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Sequence/WholeGenomeFasta/mmu.mm9.genome 
/data/results/tools/proton/tophat2stranded-bigwig1.sh  /data/images/proton/DKlab/mr/Polysomes/reads/tracks/KO_0h_replicate_Ib.bam /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Sequence/WholeGenomeFasta/mmu.mm9.genome 
/data/results/tools/proton/tophat2stranded-bigwig1.sh  /data/images/proton/DKlab/mr/Polysomes/reads/tracks/KO_2h_replicate_IIb.bam /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Sequence/WholeGenomeFasta/mmu.mm9.genome 
/data/results/tools/proton/tophat2stranded-bigwig1.sh  /data/images/proton/DKlab/mr/Polysomes/reads/tracks/KO_2h_replicate_Ib.bam /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Sequence/WholeGenomeFasta/mmu.mm9.genome 
/data/results/tools/proton/tophat2stranded-bigwig1.sh  /data/images/proton/DKlab/mr/Polysomes/reads/tracks/KO_6h_replicate_IIb.bam /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Sequence/WholeGenomeFasta/mmu.mm9.genome 
/data/results/tools/proton/tophat2stranded-bigwig1.sh  /data/images/proton/DKlab/mr/Polysomes/reads/tracks/KO_6h_replicate_Ib.bam /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Sequence/WholeGenomeFasta/mmu.mm9.genome 
/data/results/tools/proton/tophat2stranded-bigwig1.sh  /data/images/proton/DKlab/mr/Polysomes/reads/tracks/KO_IFN-gamma_replicate_IIb.bam /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Sequence/WholeGenomeFasta/mmu.mm9.genome 
/data/results/tools/proton/tophat2stranded-bigwig1.sh  /data/images/proton/DKlab/mr/Polysomes/reads/tracks/KO_IFN_replicate_Ib.bam /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Sequence/WholeGenomeFasta/mmu.mm9.genome 
/data/results/tools/proton/tophat2stranded-bigwig1.sh  /data/images/proton/DKlab/mr/Polysomes/reads/tracks/KO_IL4_replicate_IIb.bam /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Sequence/WholeGenomeFasta/mmu.mm9.genome 
/data/results/tools/proton/tophat2stranded-bigwig1.sh  /data/images/proton/DKlab/mr/Polysomes/reads/tracks/KO_IL4_replicate_Ib.bam /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Sequence/WholeGenomeFasta/mmu.mm9.genome 
/data/results/tools/proton/tophat2stranded-bigwig1.sh  /data/images/proton/DKlab/mr/Polysomes/reads/tracks/WT_0h_replicate_IIb.bam /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Sequence/WholeGenomeFasta/mmu.mm9.genome 
/data/results/tools/proton/tophat2stranded-bigwig1.sh  /data/images/proton/DKlab/mr/Polysomes/reads/tracks/WT_0h_replicate_Ib.bam /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Sequence/WholeGenomeFasta/mmu.mm9.genome 
/data/results/tools/proton/tophat2stranded-bigwig1.sh  /data/images/proton/DKlab/mr/Polysomes/reads/tracks/WT_2h_replicate_IIb.bam /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Sequence/WholeGenomeFasta/mmu.mm9.genome 
/data/results/tools/proton/tophat2stranded-bigwig1.sh  /data/images/proton/DKlab/mr/Polysomes/reads/tracks/WT_2h_replicate_Ib.bam /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Sequence/WholeGenomeFasta/mmu.mm9.genome 
/data/results/tools/proton/tophat2stranded-bigwig1.sh  /data/images/proton/DKlab/mr/Polysomes/reads/tracks/WT_6h_replicate_IIb.bam /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Sequence/WholeGenomeFasta/mmu.mm9.genome 
/data/results/tools/proton/tophat2stranded-bigwig1.sh  /data/images/proton/DKlab/mr/Polysomes/reads/tracks/WT_6h_replicate_Ib.bam /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Sequence/WholeGenomeFasta/mmu.mm9.genome 
/data/results/tools/proton/tophat2stranded-bigwig1.sh  /data/images/proton/DKlab/mr/Polysomes/reads/tracks/WT_IFN-gamma_replicate_IIb.bam /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Sequence/WholeGenomeFasta/mmu.mm9.genome 
/data/results/tools/proton/tophat2stranded-bigwig1.sh  /data/images/proton/DKlab/mr/Polysomes/reads/tracks/WT_IFN-gamma_replicate_Ib.bam /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Sequence/WholeGenomeFasta/mmu.mm9.genome 
/data/results/tools/proton/tophat2stranded-bigwig1.sh  /data/images/proton/DKlab/mr/Polysomes/reads/tracks/WT_IL4_replicate_IIb.bam /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Sequence/WholeGenomeFasta/mmu.mm9.genome 
/data/results/tools/proton/tophat2stranded-bigwig1.sh  /data/images/proton/DKlab/mr/Polysomes/reads/tracks/WT_IL4_replicate_Ib.bam /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Sequence/WholeGenomeFasta/mmu.mm9.genome