* Add utility submodules

* Remove UTIL directories since they are now submodules

* Simplification of hallc-replay to specifically support hallc-online hallc_replay operations.

* Re-add bcm_current_calib files

* Updates to CT kinematics file and macro

* Add utilities directory

* Move shell scripts into utilities directory and symbolicaly link them in the top level directory

Add recon matrix from COSY with Q2 at 20% higher for
 the defocussed run.

When using need to modify the pcana.param file
and uncomment DATFILES/shms-2011-26cm-monte_q2_p20_rec.dat
and comment out DATFILES/SHMS_fr3_rec__order_5.dat

* Include select PID & golden track leaves to quick replay ROOT files -Eric

* Update COIN kinematics file

* Update template files

* Updates to kinematics DB

In THcDC.cxx the method EfficiencyPerWire is called
which for the Golden track calculates which wire in each plane
"should" have been hit ( fills wirenumber in H.dc.wireHitShould[planenum]
and also calculates which wire "did" get hit by the track ( fills
wirenumber in H.dc.wireHitDid[planenum]) .

As an example of HMS histograms was created in
DEF-files/HMS/PRODUCTION/DC/hdc_eff_histos.def
which creates two sets of histograms for each plane
of the "should" and "did" wire numbers.

Updated hstackana_production.def to include
hdc_eff_histos.def and a newly created TEST_STANDS/DC/hdc_resid.def

For onlineGUI create UTIL/GEN/dcwire_efficiency.C for taking
ratio of the "did" and "should" histograms
and as exmaple HMS/TEST_STANDS/DC/hdc_wireeff.cfg for plotting
the histograms.

* Remove ROOT file

* Utilize #include directives in SHMS

* Update SHMS replay scripts accordingly

* Remove trailing white space

* Do the same for the HMS

* Replecate changes for coincidence replays

* Implement #include cut files correctly

* Update CT monitoring script

made new files for HMS/SHMS Coarsetracking and reconstruction
sections that were cut out of the hstackana and pstackana.
Then include them separately.

Move the Goldentrack to go after the ExtTarCor,
sinc ExtTarCor modifies the target quantities.

* Update template files

* Modify ROOT file name

* Update coin monitoring

* Update kinematics files

* Add cuts

* Update standard kinematic

* Update coin monitoring scripts

* Update kinematics files

* Add more scaler event types

* Updates to CT monitoring

* Update to BCM gains and offsets

Add back last scaler read

modified online gui source code to take logxy argument so we are now able to plot a 2D histos with simultaneous lo x and y

added 'NO EDTM' cuts to single and coincidence def cuts files: Users will not have to cut EDTM events via software, as it is already being done starting from the Decode Method

* Update scaler maps

* Update singles and coin report files

* Update hodo calib

* Add Dipankgar's monitoring scripts