Add comments
Make modifications regarding the static global variable of ParserSpecificConfigurations. The plan is to get rid of this global field
Some changes following deprecation of global static method of ParserSpecificConfigurations
Merge remote-tracking branch 'upstream/master'
Make some minor changes. Add comments.
Add gap tools. Add GlobalMessages. Add comments
Merge remote-tracking branch 'upstream/master'
Merge branch 'master' into asher3
minor
minor
Add code for gap mode
Some improvements in GlobalMessages and PairProcessor
Make some corrections
Improve code of LLGS search
Merge remote-tracking branch 'upstream/master'
Merge branch 'master' into asher3
Add GapToolBoxFactory
Add some code for gap features
minor correction
Merge branch 'master' into asher3