1) Allows true 'silent' running by switching off tqdm and SFThist output
2) Generalise the check old run setup to take an arbitrary set of
parameters to check (provided) they are in the saved dict. Then adds
DeltaOmega and DeltaFs check
3) Pass through the log_table and gen_tex_tables options so that one can
switch off these outputs
4) Adds create_plots to FollowUp run
5) Simple reorder to Writer parameters to group amplitude parameters

Previously changes in the number of steps required the entire setup to
be unneccerserily recalculated. This fixes this issue and attemps to
simply the logic throughout.

- Applies method to weak_signal method
- Adds methods to read/write setup files - this saves recalculating
  expensive optimial setups
- Simplifies notation and laoyout for generating setup and writing
  tables

- Add option to just update the search object in the follow-up
- Abstract loading in SFT data and check it is not already loaded before
  creating SFTCatalog
- Fix bug in plot_walkers in which the number of steps is not displaying
- Removal of unused code
- Fixes to docs

1) Moves the actual estimation to external function since it is not
contingent on using the MCMC methods etc
2) Change notation to V, Vsky and Vpe
3) Fix some table outputs (Tcoh was forcing integer)
4) Rename of names -> detector_names
5) Adds tests
6) Writes a simpler table if the sky is not searched over

tstart tend refers to signal properties, so is only used when relevant.
Otherwise use the LAL parameter min/maxStartTime

This now estimates the appropriate Fstar0 if nsegs != 1. As such, the
follow-up procudure now requires the search object ot be reinitated at
each step - this is important only if using BSGL

The motivating idea here is to give the user an idea of how well the
MCMC is likely to perform: if the typical number of templates is of
order millions or more then the MCMC will work like a random template
back, jumping back and forth without finding a peak (for a long time).

1) Adds function to produce a .loudest file
2) Improves log output of data, including a histogram of SFT timestamps
3) Generalised automated estimation of the F0s when many SFTs are loaded
4) Adds tref to the par file

Note that the dynamic injection is currently broken - it appears to only
be injecting the signal in one set of data

1) Adds Tcoh to plots
2) prints max det stat
3) Fixes total number of stages

- Other minor changes included

This adds a class to perform follow ups from semi-coherent to
fully-coherent using an MCMC search.

- Also changes the logic of the MCMC search to check for old data only
  in the run method.
- The nsteps argument exists for the MCMCFOllowUP, but is unused.
- Some work on the plot_walkers to allow for overplotting. It may be
  useful to use this for the usual calls as well so that we don't have
  an initial and walkers plot?

1) Adds binary to transient search
2) Ignores nans when generating histogram

- Also changes the parameter vector in the normal fully coherent search
  to remove the tstart and tend. This is done by wrappin the
  run_computefstatistic_single_point in a compute_fullycoherent_det_stat
  function
- Removes theta0 from the saved data dict for the MCMCSearch
- Adds example usage of the semi-coherent search

Note - There appears to be some difference between the integration plot
and the output value. This may be related to the Riemann sum issue in
emcee itself. Eventually, we should have a case where we calculate the
Bayes factor directly and compare this.

These where potentially confusing, deprecated values for arbitrarily
modifying the BSGL value. This will break some current search codes
(most notably for A14 glitches), but it is better to do so now and keep
future code clean

1) Fixes missing passing of binary argument ot the search tool
(previouslly, the binary parameters where not searched over!)
2) Adds min/maxfraction to cumulative plot and fixed start times
3) Adds binary parameters to cumulative plot call

Also adds ability to write transient data and a search script to show
the results of such a transient search

It seems the tests have been failing, but only falling out of range by
~0.11 rather than 0.1. This increases the allowed range to 0.2

1) Adds BSGL labels to cumulative plot (if used)
2) Switches on transient and re-init before computing cumulative
3) Adds cumulative plot to MCMC search
4) Adds cumulative plot for MCMCGlitchSearch
5) Adds support for neghalfnorm in plot prior posterior