GitLab

Also removed some printed warnings in the internal waveform
generation functions.

- The CBC templates held in the models after the burnin were still zero, now
  they hold the actual burnin templates so that the MCMC can start with
  CBC templates subtracted from glitch/signal residuals

- Also moved the dtimes convention conversion to IN the projection routine
  so that we don't have to repeat it everywhere. The swapTimesFlag tells
  the routine which convention to use (=1 when called from BW, =0 when
  called internally from BayesCBC routines).

clean up params files

See merge request marcella.wijngaarden/bayeswave!7

Moved extrinsic burnin helper functions to BayesCBCExtrinsic.c
which uses LAL functions for time delays etc.

The extrinsic burnin is seperated in BayesWaveMCMC. todo: decide
where this function should live permantly.

do some clean up

See merge request marcella.wijngaarden/bayeswave!6

Flags

See merge request marcella.wijngaarden/bayeswave!5

Flags

See merge request marcella.wijngaarden/bayeswave!4

The number of CBC parameters is set based on the cmd options (so
data->NX is always initialized).

Move BayesCBC initialization to main BayesWave program and add
some print settings.

Move setup of BayesCBC that needs to be done before all independent
updates (to make sure BayesCBC is up to date about the latest
model parameters, projections, SN etc.) to subroutine.

Add optional tidal version cmd option (to determine how many semi-intrinsic
parameters are needed).

There was a mismatch in the templates used internally in
bayesCBC and the one used in BayesWave to compute the residuals
(and likelihood). This commit updates the way the projection
is calculated (and this fixes the previous issue with parallel
tempering because now the likelihood is computed correctly..)

In the EvolveParameters loop the CBC parameters of the same model
as updated in the intrinsic/extrinsic updates for that iteration
is updated. (i.e, model chain->index[ic] instead of model ic).
However, in doing this PTMCMC doesn't seem to like thing anymore.
Only running this with a single chain. And I am looking into
getting chain swaps working correctly again.

This commit also adds the CBC templates from the burnin so
they can be used in he first iteration of evolve extrinsic/
intrinsic parametes.