real 0m0.455s user 0m0.100s sys 0m0.009s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled real 0m1.466s user 0m0.060s sys 0m0.013s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled real 0m1.060s user 0m0.068s sys 0m0.006s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled real 0m0.165s user 0m0.116s sys 0m0.020s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled real 0m0.294s user 0m0.061s sys 0m0.008s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled real 0m0.116s user 0m0.045s sys 0m0.015s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled real 0m0.096s user 0m0.048s sys 0m0.012s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled real 0m0.171s user 0m0.117s sys 0m0.018s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled real 0m0.272s user 0m0.057s sys 0m0.010s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled real 0m0.165s user 0m0.066s sys 0m0.025s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled real 0m0.221s user 0m0.090s sys 0m0.018s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled real 0m0.468s user 0m0.099s sys 0m0.010s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled real 0m1.030s user 0m0.050s sys 0m0.016s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled real 0m0.162s user 0m0.048s sys 0m0.013s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled real 0m2.828s user 0m0.116s sys 0m0.019s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled real 0m0.227s user 0m0.061s sys 0m0.005s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled real 0m0.202s user 0m0.053s sys 0m0.013s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled real 0m0.153s user 0m0.055s sys 0m0.010s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled real 0m0.255s user 0m0.053s sys 0m0.010s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled real 0m3.632s user 0m0.050s sys 0m0.010s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled cp: cannot stat '/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G170/G170_M30/fastq/tophat2/G170_M30_primary_unique.bam': No such file or directory real 0m8.685s user 0m0.053s sys 0m0.008s G170_M30_primary_unique.bam does NOT exists. real 0m2.352s user 0m0.117s sys 0m0.019s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled real 0m0.348s user 0m0.099s sys 0m0.009s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled real 0m0.110s user 0m0.053s sys 0m0.013s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled real 0m0.443s user 0m0.098s sys 0m0.011s Reading reference gene model mm9.refseq.bed ... Done Loading SAM/BAM file ... Total 200000 usable reads were sampled