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# Stuff that enables biotools.

export TOOLS_DIR="/Users/m.hansen/tools"      # Contains binaries for BLAST and Vmatch.
export  INST_DIR="/Users/m.hansen/maasha"     # Contains scripts and modules.
export  DATA_DIR="/Users/m.hansen/DATA"       # Contains genomic data etc.
export   TMP_DIR="/Users/m.hansen/maasha/tmp" # Required temporary directory.
export   LOG_DIR="/Users/m.hansen/maasha/log" # Log directory

export     PATH="$PATH:$TOOLS_DIR/blast-2.2.17/bin:$TOOLS_DIR/vmatch.distribution"
export     PATH="$INST_DIR/bin/:$INST_DIR/perl/bin:$INST_DIR/perl_scripts/:$INST_DIR/biotools:$PATH"  
export PERL5LIB="$PERL5LIB:$INST_DIR/perl_modules"

# Alias allowing power scripting with biotools

alias bioscript="perl -MMaasha::Biotools=read_stream,get_record,put_record -e"


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