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Scripts/submissionscripts/nrblast.sh
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| #!/bin/bash | |
| #SBATCH --job-name=nrblast | |
| #SBATCH -N 1 | |
| #SBATCH -n 1 | |
| #SBATCH -c 20 | |
| #SBATCH --partition=himem4 | |
| #SBATCH --mail-type=END | |
| #SBATCH --mem=250G | |
| #SBATCH --mail-user=yutian.feng@uconn.edu | |
| #SBATCH -o nrblast_%j.out | |
| #SBATCH -e nrblast_%j.err | |
| module load blast/2.7.1 | |
| for filn in *.txt; do blastx -query $filn -db /isg/shared/databases/blast/nr -outfmt "6 qaccver sgi sallgi sseqid qseq" -out exteinbackground.tab -max_target_seqs 1 -evalue 1e-10 -num_threads 20; done |