* 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

* 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

* -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

* 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

* 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

* 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

* Add summer 2017 software analysis workshop example

* Add summer 2017 software analysis workshop example for real this time

* 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

* -Modified HMS Calorimeter Def-File Based on SHMS Calo Def File

* -Minor Fix to hms calo def file
-added h_fadc_debug.param to HMS Calorimeter general Parameters
-loaded fadc_debug param file in hms calorimeter test stand replay script

-added hms_cer f_adc_debug.param to hms_cer gen param
-added hms_cer f_adc_debug option to the hms_cer_replay script.

* modified SHMS HGCER Def File and created new Congig File for HGCER onlineGUI test stand

* modified histos in NGC Def Files and created a test stand NGC configuration file for the onlineGUI

* Added new histograms for SHMA Aero DEF Files and created Config script for
aerogel online GUI test stand

* Modified SHMS HGC, NGC and AERO DEF Files Histogram Titles and Binning.
Modified SHMS AERO replay script to include f_adc_debug_param option.

Added files
------------
DBASE/db_HSScalerevt.dat : scaler database for HMS
DBASE/db_PSScalerevt.dat : scaler database for SHMS
DBASE/make_scaler_db.py  : Python script to make HMS and SHMS
                           database files from xscaler scaler.map
SCRIPTS/HMS/replay_hms_scalers.C : script to replay HMS scalers only
SCRIPTS/SHMS/replay_shms_scalers.C : script to replay SHMS scalers only
DEF-files/HMS/EPICS/epics_short.def : List of EPICS variables to include in Tree
                                      used in scaler scripts as an example
onlineGUI/Config/hms_scaler.cfg  : configuration file to plot HMS scalers
onlineGUI/Macros/plot_hms_scaler.C  : Macro used by hms_scaler.cfg

onlineGUI/Config/shms_scaler.cfg  : configuration file to plot SHMS scalers
onlineGUI/Macros/plot_shms_scaler.C  : Macro used by shms_scaler.cfg

Loaded f_adc_debug param file to the test stand replay script for NGC.
Added new 1D and 2D Histograms to the test stand NGC def files.

so far). This flag will add histograms that fall under the 'debug'
category from the source code.
-Loaded the fadc_debug parameter file to the test stand replay scripts (for
SHMS H.G.Cerenkov so far), to be used by experts ONLY.
-Added new 1D and 2D Histograms to the DEF files for SHMS H.G.Cerenkov so far.

Vardan calibrated the HMS (run 303) and SHMS (run 464) gain parameters
Add cuts on the ADC time
Updated the positions for SHMS preshower and fly's eye array
Have examples of histograms in hstackana_report.def and
  pstackana_report.def with cuts in hstackana_report_cuts.def and
  pstackana_report_cuts.def

Files for hodo calibration, updated HMS and SHMS hodo parameters  and new scripts for output reports
Add scripts for hms and shms which output report files
Updated cuts files to produce the test needs for the reports.
Created TEMPLATE directory with templates for the reports
Created CALIBRATION/hodo_calib directory for hodoscope calibration

Made replay_hms_report.C which expands on replay_hms.C
Need to create REPORT_OUTPUT directory

Eliminate g_decode_map_filename in standard.database
since not used by any scripts.
Eliminate loading hgoldtrack.param
Modify hdc_tdc_min_win and hdc_tdc_max_win to reasonable values

Removed single stub tracking for HMS.
Uncommented all detector leaves from hstackana definition file.
Harmonized output ROOT file names in replay scripts.