Fixed (what I think was) a critical bug in the trace analysis.  If user does not specify a burnin, then the trace log reader sets the burnin to 10%.  But, after that, TraceAnalysis would reset it to -1 (ooops).   I was seeing some odd results where the mean fell way outside of the 95% HPD -- the initial values were very large and should have been discarded.
Fixed (what I think was) a critical bug in the trace analysis.  If user does not specify a burnin, then the trace log reader sets the burnin to 10%.  But, after that, TraceAnalysis would reset it to -1 (ooops).   I was seeing some odd results where the mean fell way outside of the 95% HPD -- the initial values were very large and should have been discarded.

git-svn-id: 67bc77c75b8364e4e9cdff0eb6560f5818674cd8@642 ca793f91-a31e-0410-b540-2769d408b6a1

armanbilge/BEAST_sandbox,svn2github/beast-mcmc,svn2github/beast-mcmc,svn2github/beast-mcmc,svn2github/beast-mcmc,armanbilge/BEAST_sandbox,armanbilge/BEAST_sandbox,svn2github/beast-mcmc,armanbilge/BEAST_sandbox,armanbilge/BEAST_sandbox