Version 0.2.1. Fix the filer program for vcf file.
Add error check for MEI detection when special references are not
detected.
Add an option (-ncl) in tangram_scan to suppress the check of the frequency
of normal fragments in a library
Update the README file
Remove the -ncl option in tangram_scan.
Instead added a new option -mf to control if we want to
check the number of normal fragments in a library.
	new file:   OutSources/stripedSW/ssw_cpp.cpp
	new file:   OutSources/stripedSW/ssw_cpp.h
Add OutSources/fasta/
Add TangramBam/
Init TangramBam
Get SSW alignments (TangramBam)
Get the best alignments
Attatch ZA -- first version
Modify bam header
Clear up the buffers
No need "chr" in vcf
Check the reverse complment bases
Filter will not be interrupted if some error happening.
The error occurs because the grep results are empty.
Merge branch 'bwa'
Update README