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Set up
$ mkdir -p $OUTDIR
Test affineAlign
$ rm -rf $OUTDIR/affineAlign.m0
$ $BLASR_EXE $DATDIR/affineAlign.fofn $DATDIR/substr_with_ins.fasta -m 0 --out $OUTDIR/affineAlign.m0 --affineAlign --holeNumbers 493 --insertion 100 --deletion 100
[INFO]* (glob)
[INFO]* (glob)
$ diff $OUTDIR/affineAlign.m0 $STDDIR/affineAlign_2014_06_10.m0
$ rm -rf $OUTDIR/ecoli_affine.m0
$ $BLASR_EXE $DATDIR/ecoli_affine.fasta $DATDIR/ecoli_reference.fasta -m 0 --out $OUTDIR/ecoli_affine.m0 --affineAlign --insertion 100 --deletion 100
[INFO]* (glob)
[INFO]* (glob)
$ diff $OUTDIR/ecoli_affine.m0 $STDDIR/ecoli_affine_2014_06_10.m0
# Note that MapQV for --affineAlign has been fixed in 2014 04 18, bug 24363
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