* Update templates so that scalers and production are calculating the computer live time in the same manner

* Update replay scripts to include the configuration event handler and correct event types in the scaler replays

* Update various DEFfiles so that the report file quantities are consistent

Add THaReactionPoint to calculate z-position along target

Change THaRun to THcRun

change THcHallCSpectrometer to by THcHallCSpectormeter object

Add scaler event type 129

* Include new trigger types in the trigger apparatus

* Add new trigger types to scaler maps and database

* Include new trigger types in trigger maps

* Update scaler templates and def files

* Update maps to include new trigger types

* Set scaler event handlers to point at event 129 scaler reads

* Minor changes to pscaler cuts

Made SHMS stack map file for KPP

Made TRIG parameter file for KPP

Made replay_production_shms_kpp.C

* fixed typos and changed files for PRODUCTION

* Update replay_production_coin.C

* Minor changes to SHMS maps

* Minor changes to HMS maps

* Update merge list

* Update crate 3 map for coin

* Update coin maps

* Initial attempt at coincidence replay

* Update coin maps and replay script

- This closes a few-minute long race window where a file will be on tape
  (and moved out of raw/ to raw.copiedtotape/), but is not yet in
  cache/.  This can be hit by online-replay folks who fire off replay a
  immediately after ending a run.

* Incorporate event 129 into scaler reads

* Add configuration event handler

* Add pre-scale values and factors, also had HMS hodoscope scaler info

* Fix typo

* 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

* 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

* Add vim lint to .gitignore

* Update replay scripts to search in a list of paths

- NOTE: This requires the podd submodule be updated to include
  modifcations to the THaRun constructor that can search a pathList.

- The default './raw' and './cache' pathnames that are searched here
  should generally be symlinks to the relevant local path on the Hall C
  cluster, and the /cache/mss/hallc/.../raw/ path, respectively. For
  example:
    cd hallc_replay
    ln -s /net/cdaq/cdaql3data/coda/data/raw raw
    ln -s /cache/mss/hallc/spring17/raw      cache

- FWIW: The batch filtering of the replay scripts was done with
  this perl script:
    cd SCRIPTS/
    find . -name '*.C' -exec ./filter.pl {} \;
  --- filter.pl ---
  #!/usr/bin/perl

  use File::Slurp;

  my $file = read_file($ARGV[0]);

  $file =~ s/\Qchar RunFileName[100];\E\W*\Qsprintf(RunFileName, RunFileNamePattern, RunNumber);\E\W*\QTHaRun* run = new THaRun(RunFileName);\E/THaRun* run = new THaRun( pathList, Form(RunFileNamePattern, RunNumber) );/s;

  $file =~ s/\Qconst char* RunFileNamePattern = "\E.*?\/(.*?\.dat)";/const char* RunFileNamePattern = "$1";\n  vector<TString> pathList;\n    pathList.push_back(".");\n    pathList.push_back(".\/raw");\n    pathList.push_back(".\/cache");\n/s;

  write_file("$ARGV[0]", $file);
  ---

* Include consolidated SHMS TI trigger inputs into HMS trigger maps

* Include SHMS TI trigger inputs into HMS test stand maps

* Include consolidated HMS TI trigger inputs into SHMS trigger maps

* Include HMS TI trigger inputs into SHMS test stand maps

* Point HMS DC test stand to 6 GeV chamber histos

* Update scaler map and database to include mixed HMS and SHMS triggers

* 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