2016/11/06 09:50:42: DEBUG Enqueuing command:
#TASK tags=Sample_5
mkdir -p /scratch/gencore/nov_dalma_training/resequencing/data/analysis/Sample_5/bowtie2 && \
bowtie2 -p 12 -x /scratch/Reference_Genomes/Public/Vertebrate_mammalian/Homo_sapiens/ENSEMBL-release-81-GRCh38/Homo_sapiens.GRCh38.dna.toplevel \
-1 /scratch/gencore/nov_dalma_training/resequencing/data/processed/Sample_5/trimmomatic/Sample_5_read1_trimmomatic_1PE.gz \
-2 /scratch/gencore/nov_dalma_training/resequencing/data/processed/Sample_5/trimmomatic/Sample_5_read2_trimmomatic_2PE.gz \
-S /scratch/gencore/nov_dalma_training/resequencing/data/analysis/Sample_5/bowtie2/Sample_5_aligned.sam
2016/11/06 09:50:55: INFO Total execution time 0 years, 00 months, 0 days, 00 hours, 00 minutes, 13 seconds