Merge branch 'license'

Performance update by changing the vertex filter method used in SITE …

…and Density

Merge branches 'rescore' and 'densityRec' of https://github.com/ding-…

…lab/hotspot3d

Merged offsets and vertexFilter branches, fixed MAF simulator to read…

… any MAF

Fixing a bug of requiring a site-file in the search step

fixed bug in trans so that if no fasta, download first, then decompress

sites can be visualized on protein structures

fixed memory issues in cluster step, reading in large files and handl…

…ing output lines. made the smallest cluster limit into a method.

Adding Significance Module

bug fix: summary sorting