Adding parameterisation for mapping size limit without splitting

Adding default path gcc set for cmake

Adding default path gcc set for cmake

Updating ryggrad rep

Adding overflow and coverage parameters

Adding compiler default setting and warning for cmake

update readme/ryggrad

update readme/ryggrad

Updating readme

updated readme

Adding tool for MAF2Satsuma conversion - this should later be moved to ryggrad-tools

Preparing for maf support

Migrating to CMake build process - stage 2

Migrating to CMake build process

Handling Null parent items when transcript & genen parents don't exist