* Incorporate fast raster DEFfiles into appropriate infrastructure

* Tweak DEFfiles to match previous pull request

comp_histos.C does a chi-squared comparision between histograms
  in two root files. Need to create the subdirectory Output
  The execution is
  .x Macros/comp_histos.C("oldfile.root","newfile.root")

  Main purpose is for comparing histograms
  after changes to hcana. Histograms which are exactly the same
  have a chi-square = 0 .
  For histograms that fail the chi-square test, a list of
  names in placed in Output/hist_diff_NoMatch_output.txt
  and the histograms are plotted and the plots saved to
   Output/hist_diff_NoMatchoutput.pdf
  For histograms that pass the chi-square test, a list of
  names in placed in Output/hist_diff_Match_output.txt

Add gscalers.param to PARAM

gscalers.param will have the parameters for converting the BCM scalers into charge and current.

* added HODO EDTM to Maps and Param filrs for HMS/SHMS; Added block T.hms.* in epics_short.def in order to produce HMS Hodo EDTM leaf variable; Added Hodo EDTM to scaler.map

* undo changes in HMS hodo naming schemes for scalers map

* May 26, 2017 -- Long overdue push, some old Calibration Scripts but also the presently working analysis and Calibration scripts in Final Scripts directory.

* Updated Calibration with pulseAmp script.

* root file

* added Rootfiles

* Rewrote pulseAmp analysis, works much better now.
Included Degtiarenko's code to evaluate as a better alternative.
Started the write up for the actual calibration process

* Updated Analysis scripts, started deciphering Fortran code.

* test

* TEST

* test

* bla

* blah

* boring git stuff

* git stuff

* Made the master branch much more organized/presentable

* Finializing directory. Modified how calibration appears/output the calibration constants

* Updated the analysis and visualization scripts for NGC.

* Version of Calibration suitable for the Summer presentation.

* Removed debugging line

* Updating repository with changes made at software workshop

* Added changes to PARAM & DBASE files to take appropriate HGC calibration constants for each run.

* Changed replay output to something more sensible

* Added new Analysis scripts to master

* Removing bloat from merge with branch Ryan

* Removing redundant files from master

* Added properly named, properly formatted calibration scripts to master

* Removed bloat with the README file

* Removed more bloat in data_files

* Updated calibration file

* Updated calibration script to include the NGC as well. Added calibration parameters to PARAM & DBASE in an identical method as the HGC.

* Updated calibraion scripts

* Removed tracking of .gitignore

* Added .gitignore...can't change branches otherwise

* Updated calibration script to include Eric's recommendation of cuting on TracksFired leaf.

* Updated investigation of the integrals of first few photoelectrons

* Updated display to show expected integral based on Poisson statistics

* Updated Calorimeter PARAM CALIB file after discussion with Varden

* Merged efficiencies from development branch to master

* Updated efficiency script to only display info if requested, and will now output the cuts on beta and timing

* Cleaned up efficiencies.C, now in more or less a final stage.
calibration still needs a little cleaning up, especially concerning the poisson/Guassian after processing which yielded little information.

* Updated calibration, much cleaner and sensible

* Added particle ID for tracksfired calibration strategy

* Changed the calibrated histograms to have identical limits/bins. Required merging some bins together from original data...should be okay.

* Updated files to include cut on delta p on all 3 Cherenkovs

* Cleaned up tracksfired calibration strategy

* Added quick README on instructions to run script

* Finialized the quick README.md

* Update README.md

* Update .gitignore

* Deleted unnecessary DBASE files

* Cleaned up Pull request

* Changed Cal Calib run488 file to remove old calib constants

* First hack at setting up coincidence replay

* Add coincidence trigger map

* Update merge list for example purposes

* Add coincidence map

* Create coincidence replay script

* Create separate DBASE directory for SHMS

* Create separate DBASE for SHMS

Fix plethora of issues in HMS replay scripts

* Do not delete onlineDict.h

Small correction to PARAM/SHMS/HODO/CALIB/ptofcalib.param

Set pdumptof = 1

Update PARAM files for hodo calibration

Create two files
htofcalib.param
ptofcalib.param

Each of these files sets the flag to dump the tof calibration
data to a file that is designated in the file.
The user has to add a line
gHcParms->Load("PARAM/HMS/HODO/htofcal.param");

or

gHcParms->Load("PARAM/SHMS/HODO/ptofcal.param");
to the replay script to get the  data files hodo calibration

Remove these parameters from the regular hodo calibration files.

* -Modified shms dc calib scripts in accord with the recent hallc replay restructure
-updated Drift Chamber Calib parameters for run 488 after making the changes to the calibration code

* removed tzero offsets from geom param file

* Ignor header file

* Fix typo in map file and get rid of debug statement

* Adapt shms scaler online GUI for new naming scheme

* Remove deprecated config files

Move scaler config files to own directory

* Fix scalers replay script so it does not seg fault

* Modify online GUI for HMS scalers to function with new naming scheme

* Auto-indent

* Move staggaling files to examples

* Add directory structure to online GUI

* Fix naming scheme and histo names to be consistant with the rest of the repo

* Same fix as previous commit but for HMS

* Modify production replay scripts to keep naming convention consistant with previous commits

* Apparently THaVhist cannot handle LaTeX alphabets

* Turn off tzero per wire param causing replay to crash and burn

* Uncomment event/trigger types.  Needs to be cleaned up later

* Remove deprecated detector directories

* Remove deprecated map files

* Exclude trigger histo with no real variable

* Include raster into stack map

* Uncomment lines which were causing a bajillion errors

Needs to be cleaned up at some point

* Remove deprecated parameter files

* Remove deprecated replay scripts

* Remove deprecated template file

Updated SHMS Pre/Shower gain constants for run 488

* -added primary kin to HMS single arm production replay script
-Minor fix in shms production replay script

* Minor addition in replay_production_hms.C

* -change primary kine names in hms/shms replay scripts

* -added elec_KIN/ dir. for electron kinematics DEF-files for HMS/SHMS
-include new def files in mergelist and update production def file

* Re-structure the PARAM files for HMS and added raster variables to thms.param

* restructure hallc_replay DBASE for HMS param files; add hodo/cer kpp_spring_2017 calibration directories and parameter files

* restructure HMS detector maps directory; add hms run 303 to standard.database

* -added Raster to HMS trigger map
-minor fix in commented raster names
-minor fix in name for HMS to SHMS in an shms map file

* -Include only one spectrometer in 'g.evtyp' variable for HMS/SHMS report file cuts (for the moment ...)

* -added new 'PRODUCTION' directory for HMS where all def files with 'good' variables are included
-copied python script/list from SHMS 'PRODUCTION' directory to HMS.
(This script combines individual detector def files into one)

* -added STACK directory in HMS Def-files dir, which includes only stack histograms (excludes EPICS variables)

* -added TEST_STANDS directory in HMS Def-Files to include raw and good
detector histograms

* -excluded hms Aerogel from def files (for now . . .)

* -updated HMS templates for scalers, stack and production

* Re-structure the PARAM files for HMS and added raster variables to thms.param

* restructure hallc_replay DBASE for HMS param files; add hodo/cer kpp_spring_2017 calibration directories and parameter files

* restructure HMS detector maps directory; add hms run 303 to standard.database

* -added Raster to HMS trigger map
-minor fix in commented raster names
-minor fix in name for HMS to SHMS in an shms map file

* -Include only one spectrometer in 'g.evtyp' variable for HMS/SHMS report file cuts (for the moment ...)

* -added new 'PRODUCTION' directory for HMS where all def files with 'good' variables are included
-copied python script/list from SHMS 'PRODUCTION' directory to HMS.
(This script combines individual detector def files into one)

* -added STACK directory in HMS Def-files dir, which includes only stack histograms (excludes EPICS variables)

* -added TEST_STANDS directory in HMS Def-Files to include raw and good
detector histograms

* -excluded hms Aerogel from def files (for now . . .)

* -updated HMS templates for scalers, stack and production

* -Restructurization of replay scripts in HMS

* Minor fixes in shms replay scripts

* -moved replay scripts to new directories

Scripts and DEF files for using THcPrimaryKine

* Modify naming scheme and aesthetic chaqnges to map

* Move scaler map file and modify naming scheme

* Remove deprecated data base files and relocate them

* Remove depreacted scaler map files in MAPS directory

* Add symbolic links to scaler database files

* Modify scaler prefixes

* Modify templates to utilize new naming convention

* Include trigger apparatus to scaler replay

* Add rate, live time, and dead time to scalers template

* Add rate, live time, and dead time to all template

* Rename ALL to PROD for production

* Move test stand DEF-files into TEST_STAND directory

* Change from PROD to PRODUCTION to be consistant

* Include trigger apparatus to scaler replay

* Add rate, live time, and dead time to scalers template

* Add rate, live time, and dead time to all template

* Rename ALL to PROD for production

* Move test stand DEF-files into TEST_STAND directory

* Rename directories to be consistent with previous framework

* Make directory names consistent

* Add directory stucture for report outputs

* Add directory structure for templates

* Add directory structure to SCRIPTS directory

* Remove templates from old directory stucture

* Create SHMS EPICS directory

* Configure stack and scaler replay

Add directroy structure to scripts directory

* Add directories for stack and scalers for report output

* Modify locations of replay scripts, def-files, and templates

* Incoporate fast raster into trigger apparatus and stack map

* Add directory structure to maps

Reconfigure test stand scripts to point to new map loactions

* Add fast raster histograms and aesthetic changes

* Tweak stack & all DEF-files

Rename cut files

Configure separate replay scripts

* Remove REPORT_OUTPUT directory from framework since this file should be sym linked to the RAID disk

* Uncomment histos

* Re-work DEF-file directory structure so that one DEF-file exists for each stack component

Include python script to cat individual DEF-files into single DEF-file

* Add new paramter structure of the NGC

* Add new paramter structure of the HGC

* Add new paramter structure of the aerogel

* Add new paramter structure of the calorimeter

* Add new paramter structure of the hodoscope

* Add new paramter structure of the drift chambers

* remove deprecated paramter files

* Remove deprecated parameter files

* Add calibration steering files for run specific calibrations

Remove deprecated general parameter files

* Include calibration steering files

* Include calibiration files for all replay scripts

* Include CALIB directory in path

* Add directory stucture for report outputs

* Add directory structure for templates

* Add directory structure to SCRIPTS directory

* Remove templates from old directory stucture

* Create SHMS EPICS directory

* Configure stack and scaler replay

Add directroy structure to scripts directory

* Add directories for stack and scalers for report output

* Modify locations of replay scripts, def-files, and templates

* Incoporate fast raster into trigger apparatus and stack map

* Add directory structure to maps

Reconfigure test stand scripts to point to new map loactions

* Add fast raster histograms and aesthetic changes

* Tweak stack & all DEF-files

Rename cut files

Configure separate replay scripts

* Remove REPORT_OUTPUT directory from framework since this file should be sym linked to the RAID disk

* Uncomment histos

* Re-work DEF-file directory structure so that one DEF-file exists for each stack component

Include python script to cat individual DEF-files into single DEF-file

Updated report cuts DEF files

* Add various run specific gain calibration constants for the SHMS HGC & NGC

* Add KPP specific Chrenkov parameter files

* Default to KPP run 488 for now

* Include directory structure for databases

Add specific KPP runs to general database

* Remove deprecated database files

* Modify shms stack analyzer script to handle new DB structure

* Include new DB structure to various replay scripts

* Include calibration constants for the SHMS calorimeter

Add low momentum run to kinematics file

* Add calibration constants for good kpp calo runs