2016/11/06 09:52:14: DEBUG Enqueuing command:
#TASK tags=Sample_5
picard -Xmx2g MarkDuplicates \
M=/scratch/gencore/nov_dalma_training/resequencing/data/analysis/Sample_5/picard/Sample_5_markDup_metrics_file.txt \
I=/scratch/gencore/nov_dalma_training/resequencing/data/analysis/Sample_5/picard/Sample_5_withrg.csorted.cleaned.aligned.bam \
O=/scratch/gencore/nov_dalma_training/resequencing/data/analysis/Sample_5/picard/Sample_5_mdup.withrg.csorted.cleaned.aligned.bam \
MAX_FILE_HANDLES_FOR_READ_ENDS_MAP=100 \
TMP_DIR=/scratch/gencore/nov_dalma_training/resequencing/data/analysis/Sample_5/bowtie2/tmp
2016/11/06 09:52:30: INFO Total execution time 0 years, 00 months, 0 days, 00 hours, 00 minutes, 16 seconds