All-blast.sh

This bash script was used for perform all blast sequence search tasks.

Source

<source lang="bash">

1. !/bin/sh

TASK1=$HOME/master-practical-2013/task01 EXE=$HOME/master-practical-2013/task02/01-seq-search/run-blast.pl OUT=$HOME/master-practical-2013/task02/01-seq-search/results

1. generate XML file

$EXE $TASK1/refseq_BCKDHA_protein.fasta -m 7 > $OUT/blastp_BCKDHA.xml

1. gernate TSV file

$EXE $TASK1/refseq_BCKDHA_protein.fasta -m 9 > $OUT/blastp_BCKDHA.tsv

$EXE $TASK1/refseq_BCKDHB_protein.fasta -m 7 > $OUT/blastp_BCKDHB.xml $EXE $TASK1/refseq_BCKDHB_protein.fasta -m 9 > $OUT/blastp_BCKDHB.tsv

$EXE $TASK1/refseq_DBT_protein.fasta -m 7 > $OUT/blastp_DBT.xml $EXE $TASK1/refseq_DBT_protein.fasta -m 9 > $OUT/blastp_DBT.tsv

$EXE $TASK1/refseq_DLD_protein.fasta -m 7 > $OUT/blastp_DLD.xml $EXE $TASK1/refseq_DLD_protein.fasta -m 9 > $OUT/blastp_DLD.tsv </source>