- Mixins defined in Logger.h
- Mixin used in base classes (THcDC is currently a good example)

Added a few more spdlog loggers

Added logging to many.

- Added logging to hodoscope, aerogel hitlist and detectormap
- Working on scandalizer features.

Added logging.

Added more logging.

added more logging.

More logging.

- Mixins defined in Logger.h
- Mixin used in base classes (THcDC is currently a good example)

* updated mispointing calculations

* added TMath::Abs() for HMS angles, since it has a '-' sign in the kin. file

Added setting of spectrometer mispointing according the the input
spectrometer angle if the mispointing is not set by a parameter.

The formulas for deteriming the mispointing comes from fits to sureys.

If one wants to use different spectrometer mispointings then
it is best to set hmispointing_x,hmispointing_y for HMS
and pmispointing_x,pmispointing_y for SHMS in the kinematics setting file
such as standard.kinematics .

  Add doxygen groups "Apparatuses" and "Decoders"
  Make sure every class is in a group
  Make sure most classes have a \brief description
  Improve comments for some classes including THcHallCSpectrometer
     and hodoscope classes
  Change some Doxyfile defaults.  Include sources files.

THcHallCSpectrometer
  1) Add variables fMispointing_x and fMispointing_y
    which are filled by parameters hmispointing_x, hmispointing_y
      in PARAM/HMS/GEN/hmsflags.param and pmispointing_x, pmispointing_y
      in PARAM/SHMS/GEN/shmsflags.param .
   The offsets are used in THcExtTarCor and THaReactionPoint
  2) Modify argument to method CalculateTargetQuantities to be xtar
     instead of gbeam_y .

THcExtTarCor
   1) add call to get spectrometer pointing offsets
   2) The mispointing_x is added to xtar
   3) Set xtar to start as -beam_y = - vertex(1)+mispointing_x for first call to CalculateTargetQuantities
      After first call the xtar is recalculated using the returned xptar
      and a second call is done to get the target xptar,ytar,yptar and delta.
    4) Fill golden track with final xtar

Fix mistake of add target offsets twice.

Fix mistake in units for the HMS Q3 correction

Add in offsets for xptar, yptar and delta

Add in delta correction as function of xpfp and central
  momentum for HMS. This corrects for a problem in setting Q3 current.
  There was an unknown zero offset in the Q3 current.
  This was determined by T. Horn in 2003.

Previous was trying to return the reconstructed target
quantities as values which was totaly wrong.

Changed so that the references are returned. Now get the
reconstructed target quantities properly.

This method calculates the target quantities using the focal
plane quantities and the optics matrix. Previously
this was done in THcHallCSpectrometer::FindVertices.
Now in THcHallCSpectrometer::FindVertices there is
a call to CalculateTargetQuantities


This method will be called by THcExtTarCor
to do the xtar correction.

When making changes to support THcPrimaryKine added line
track->SetEnergy
which set the track energy to energy determined from
measurement of spectrometer delta.
But this energy should be the energy measured by the
Shower calorimeter.
Deleted the line in THcHallCSpectrometer since it is not
needed anyway.

Add class THcPrimaryKine to calculate physics kinematics quantities for single arm

Modified  THcHallCSpectrometer so that it would fill track energy and momentum 3 vector

The purpose is to add a call in THcHallCSpectrometer:TrackCalc
to fill variables in THcDC for the golden track.

THcHallCSpectrometer.h
----------------------
1) Add object THcDC* fDC
2) Eliminate object fShower since it was not being used.

THcHallCSpectrometer.cxx
----------------------
1) in ReadDatabase method cast fDC in detector "dc" is defined
2) in FindVertices method add call
    to fDC->SetFocalPlaneBestTrack(hit_gold_track)
    where hit_gold_track is the HaTracks array index
    of the golden track

THcDC.h
-------
1) Add method SetFocalPlaneBestTrack

THcDC.cxx
---------
1) Eliminate filling of best focal plane quantities
   in CoarseTrack which defined "best" by lowest chi2
2) Create method SetFocalPlaneBestTrack
   a)fills the best focal plane quantities using the golden track
   b) fills fResiduals using golden track

The change was made so that NonTrackingDetector could have information
on the "best" track in their FineProcess method.

In THcHallCSpectrometer::FindVertices the "best" track will be selected
and the Track object will its SetIndex method to set the index to 0 for
the best track. The other track will have index=1 or greater.

In the NonTrackingDetector FineProcess, the track that is selected to
be the "best" can be found by looping through the tracks checking
track index using Track.GetIndex() for find the track with Index=0.

In  the NonTrackingDetector's CoarseProcess they need to set quantities
for the Track object needed for selection of "best" track for the
"prune" and "usingscin" track selection methods.

1) In THcHallCSpectrometer:
  a) Moved selection methods of "best" track from TrackCalc to FindVertices.
  b) Removed setting of Golden Track in the selection methods.
  c) Add setting of Track Index=0 for "best" track in each selection method.
  d) Modified TrackCalc method to loop through Track object and find
     the track with Index=0 and set the Golden Track equal to this Track.

2) In THcHodoscope.cxx
  a) Moved all calculations in FineProcess into CoarseProcess
  b) CoarseProcess calculates the scintillator Beta for each Track
     and does Track->SetBeta.
  c) In determination "zcor" for corrected hits times
      use fBetaNominal instead fBetap from track. Still use Track
      to get distance.
  c) Eliminate fBetap variable which was using the Track momentum
  d) Add variable fBeta which is just from scintillator times.
  e) In FineProcess fill fBeta with the the beta associated
     with the "best" track determined by selecting Track with index=0

  Enforce variable conventions
  Default using_scin and using_prune selection to off
  Break different track selection methods into different class methods

section of THcHallCSpectrometer to be clearer.
Does not follow the fortran in detail, but should be doing the same
thing.

  There is some unclear code in the track selection that could
  do with improvement.

  Don't start variables that are not member variables with f
  Declare temporary variables as locally as possible
  Remove some unused member variables from THcHodoscope.h

    THcHallCSpectrometer inherits from THaSpectrometer which has method
    GetPcentral and a member fPcentral.
     THcHallCSpectrometer had been using fPCentral but decided to
    use fPcentral.
    Delete fPCentral in THcHallCSpectrometer.h
    Replace all fPCentral  by fPcentral in ReadDatabase and FindVertices methods.

  For the most part this is making sure that the loop variable in
  a for loop is of the same type as the variable that it is compared
  against (Often a UInt_t).

This reverts commit e9ce1040.

Conflicts:
	src/THcHallCSpectrometer.cxx

  For the most part this is making sure that the loop variable in
  a for loop is of the same type as the variable that it is compared
  against (Often a UInt_t).

Add THaSpectrometer::DefineVariables( mode );
to define those tree variables

  Convert some arrays that were fixed length to vectors.
  Since these arrays are only used local to the method
  ThcHallCSpectrometer::TrackCalc(), they were moved out of the class
  into the method.
  The affected arrays are fX2D, fY2D, f2XHits and f2YHits

      Selection of golden track using prune method is added.
      A bug is also fixed in THcHodoscope class
      Number of pmts hits, focal plane time, good time for plane 4
      and good time for plane 3 are set to the tracks in
      THcHodoscope class.

  This insures that 5th exponent is zero if not specified on recon file