v0.016
use environment perl. use correct oracle profile for htgt2 and farm3
Merge branch 'master' into devel
Add alignment strings centred on the target string (omitting insertions relative to target)
wip, module to analyse second allele damage from crispr pair
add validation and pod
non existant sub
sample driver script for crispr allele damage module
return data in hashref, do not truncate match strings here
return hashref of data
add tmp folder to gitignore
give better names to exonerate input files
make insertions array a hash, keyed on position
perltidy code
work out concordant deletions and insertions shown by the reads
bugfix, incorrect coordinates were being returned in insertions data
print out match strings to STDOUT
need both a forward and reverse alignment to work out concordant indels
add tests for concordant deletion / insertion checking code
Added method to get cigar parsed read names from traceserver