Fix onlineGUI logy-start-at-zero bug and update SHMS production
monitoring

* HMS TEST_STANDS ONLINE MONITORING

* HMS PRODUCTION ONLINE MONITORING

* changes to overlay and script files

* DC script changed to original

* more Script and DEF-file changes

* more changes

With the new HMS chambers, need to have separate HMS KPP
  replay script.

Also add gscalers.param to the HMS/GEN/general.param

1. cratemap added tdc in slot 2 .
2. Copied old cratemaps to KPP_spring_2017
3. DC map updated for 12 GeV chamber hdc.map and hdc_htrig.map
4. Add perl scripts under make_dc_maps for making map files
5. Updated hdc_histos.def

- The omission causes replay errors with the (unmodified) scripts
- This would seem to complete the changes started on the SHMS side
  in commit 1321191f

* fixed stash print

* as designed hms dc param

* new hms dc param to be used

* update hms dc plots and monitoring

* Add optional title to overlay2.C macro

* SHMS test stand update

* Fix SHMS calorimeter onlineGUI config

Needs https://github.com/JeffersonLab/hcana_gem installed and built
  in ../hcana_gem and thishcana_gem.sh or thishcana_gem.csh to have been
  sourced.

* Add SHMS FADC reference time signal

* Modify report files and templates to better quantify the deadtimes

* Push initial changes for Steve

* Include failed state of HMS scalers replay script

* Include proper(?) method for obtaining event 129 scaler reads

* Ensure that trigger apparatus cut file has similar flow to stack and production to avoid confusion

* Remove reference time which serves as a reference time for the trigger apparatus

* Update maps corresponding to previous commit

* Ignore # files

* Update test stand cuts file to match production and stack

* Update test stand cuts file to match production and stack on HMS side

* Update cuts files to handle new event type stucture corresponding to mulitple triggers

* Make cuts only HMS specific

* Do the same for the SHMS and correct the template files

* Correct template files

* Add pedestal event because of historical reasons (needs to be fixed)

* Do the same for the SHMS

* Add SHMS FADC reference time signal

* Modify report files and templates to better quantify the deadtimes

* Push initial changes for Steve

* Include failed state of HMS scalers replay script

* Include proper(?) method for obtaining event 129 scaler reads

* Ensure that trigger apparatus cut file has similar flow to stack and production to avoid confusion

* Remove reference time which serves as a reference time for the trigger apparatus

* Update maps corresponding to previous commit

* Ignore # files

* Update test stand cuts file to match production and stack

* Update test stand cuts file to match production and stack on HMS side

* Add ignore stuff

* Include TI trigger inputs into scalers

* Add TI trigger inputs to param files

* Add TI trigger inputs to trigger maps

* Add HMS trigger apparatus variables to trigger test stand

* Remove raster from trigger apparatus map

Update HMS maps to include new TI trigger inputs

* Remove fast raster from trigger apparatus map

* Add TI trigger inputs to SHMS maps

* Incorporate fast raster DEFfiles into appropriate infrastructure

* Tweak DEFfiles to match previous pull request

* 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

* 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

* 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

* 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

-shortened shms config gui titles
-renamed some histo axes labels on calo/hgc def files (shorten axes label)

-Update the SHMS config files with these new histos

* -Added new config file for shms hodo test stand replay
-Modified config file for HGC/NGC/AERO

* -Added new SHMS Calo Confi file
-Minor histo name fix in SHMS CALO Def File

* Added Error flag histograms, and relabelled some histogram axes for clarity in
SHMS Hodo test stand DEF-File

* Put some comments

Rename some axes labels and put useful comments regarding the cuts made to obtain GOOD Variables (#159)

Rename some axes labels for SHMS Aero DEF Files, and included som useful comments regarding the cuts made to get good variables (#158)

included block T.shms.* in the calorimeter test stand def file, and relabbeled som axes for clarity (#157)

-Rename some axes labels for clarity, and put useful comments regarding the cuts that were made to obtain good variables (#156)