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Finished class HaplotypeEM
 haplotype interferencing by EM algorithm, compatible for polyploid and multiallelic spiecies.
Bug fix when calculating global p for haplotypes
when performing pearson's chi square test, the total column should be valihap instead of totalhap
Add support for haplotype analysis using HaplotypeEM
Bug fix in extracting filename from filepath
when no '/' in current path, the origin filename should be returned.
Bug fix when encoding alleles
when the allele is 0 in the origin data, the corresponding code should be 0.
Add options --haplo-SAT && --haplo--EM
updated makefile