# http://bozeman.mbt.washington.edu/consed/distributions/17.0/current_beta/phredPhrap appens to it '/bin/phred' for example
CONSED_HOME=/usr

# phredPhrap uses first $CONSED_HOME/lib/screenLibs/vector.seq but (multi FASTA file)
# then zaps the value if '../vector.seq' exists. Finally, if $CROSS_MATCH_VECTOR is
# defined it takes the value from it.
# CROSS_MATCH_VECTOR="/some/path/vector.seq"

# the variable is actually set by phrePhrap on this line:
# $ENV{'PHRED_PARAMETER_FILE'} = $szPhredParameterFile;
# Edit the perl file to overwrite the value only if this variable is unset or empty
PHRED_PARAMETER_FILE=/usr/share/phred/phredpar.dat