git-svn-id: https://svn.code.sf.net/p/snpeff/code@1062 3341ced4-5d85-40e2-8a85-8d6cb0b68e6b
Huge variants: E.g. deletions removing 50% of chr1 are not handled correctly. It takes forever to run and uses huge amounts of memory.
Test case added, it will fail until I implement a reasonable solution.

git-svn-id: https://svn.code.sf.net/p/snpeff/code@1063 3341ced4-5d85-40e2-8a85-8d6cb0b68e6b
DbNsfp issue fixed.

git-svn-id: https://svn.code.sf.net/p/snpeff/code@1064 3341ced4-5d85-40e2-8a85-8d6cb0b68e6b


git-svn-id: https://svn.code.sf.net/p/snpeff/code@1065 3341ced4-5d85-40e2-8a85-8d6cb0b68e6b


git-svn-id: https://svn.code.sf.net/p/snpeff/code@1066 3341ced4-5d85-40e2-8a85-8d6cb0b68e6b
Merge remote-tracking branch 'upstream'