updated the contribution page

Updated with examples of what to submit to the issues page
Updated where mailing list located and use of.
Update with coding style conventions.
Merge branch 'master' of https://github.com/ga4gh/ReadTaskTeam into contribution_documentation
Setting up repository with copies of the UCSC schemas.
removed the Google Groups mailing list until we have a community friendly one
s/Github/GitHub/g
Merge branch 'master' of https://github.com/ga4gh/ReadTaskTeam into contribution_documentation
typo fix s/test/tests/
Adding documentation describing the design of the schema, which is an optimized version of the scheme we detail in the paper.
Updating comments, shortening length fields
Simplifying away the two different ways of refering to endpoints.
Merge branch 'master' of https://github.com/ga4gh/ReadTaskTeam
Update and rename referenceHierarchy.avdl to referenceAlignments.avdl

Sorry to hijack this file, I'm proposing to generalise it to represent alignments, with two possible constructs - the alignment block and a cigar alignment. The alignment block is a pairwise structure that matches intervals between two blocks, and can be placed in an array to describe a pairwise alignment. The second alignment structure is a CIGAR based alignment that apes the basic CIGAR format, with the difference that the alignment is between to paths in two sequence graphs.
Update referenceAlignments.avdl

Fixing typos.
Update referenceAlignments.avdl

Simplifying to just represent cigars
Update referenceAlignments.avdl

Adding in alignment from sequence to sequence graph.
change endOffset to be one beyond the last base

change definition of endOffset so that endOffset-startOffset is length (if all within one block)
and you can iterate while (i < endOffset).  This is natural in 0-based coordinate systems, 
avoiding +1 or -1 calculations on lengths.
updated style guide for comments
Updated contribution documentation

Added a section on how issues are resolved.
Cleaned up some of the wording
small change to indent style guide bullets for comments
small edit to section header