SRX381621 tumor breast.chr20.job

From ZhangLabWiki
Jump to navigation Jump to search
#!/bin/csh
#PBS -N SRX381621_tumor_breast.chr19.hapInfo.txt
#PBS -q glean
#PBS -l nodes=1:ppn=1
#PBS -l walltime=8:00:00
#PBS -o SRX381621_tumor_breast.chr19.log
#PBS -e SRX381621_tumor_breast.chr19.err
#PBS -V
#PBS -M shihcheng.guo@gmail.com
#PBS -m abe
#PBS -A k4zhang-group
cd /oasis/tscc/scratch/shg047/Estellar2016/bam
/home/shg047/bin/mergedBam2hapInfo.pl /home/k4zhang/my_oasis_tscc/MONOD/All_WGBS_pooled/WGBS_pooled_mappable_bins.all_autosomes.mld_blocks_r2-0.5.bed /oasis/tscc/scratch/ddiep/BAMfiles/SRX381621_tumor_breast.chr19.sorted.clipped.bam nonbismark > ../hapinfo/SRX381621_tumor_breast.chr19.hapInfo.txt