INNER CODE UNIT · Java

INSTALL_AREA

sanger-pathogens/Artemis · etc/setup_blast_dbs.sh:28

INSTALL_AREA=$HOME/blast-data
cd $HOME
mkdir -p $INSTALL_AREA
cd $INSTALL_AREA

echo "Downloading and formatting databases..."

if test ! -f uniprot; then
  curl -O ftp://ftp.ebi.ac.uk/pub/databases/uniprot/knowledgebase/uniprot_sprot.fasta.gz
  gunzip -f uniprot_sprot.fasta.gz

  curl -O ftp://ftp.ebi.ac.uk/pub/databases/uniprot/knowledgebase/uniprot_trembl.fasta.gz
  gunzip -f uniprot_trembl.fasta.gz

  cat uniprot_sprot.fasta uniprot_trembl.fasta > uniprot
  rm -f uniprot_sprot.fasta uniprot_trembl.fasta

  $BLAST -in uniprot -dbtype prot -parse_seqids -title uniprot &

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