add flags debugflagpr and debugflagstubs
add method THcDC::PrintStubs
modify THcDC::PrintSpacePoints
Set THcDC::LinkStubs() to only set fNDCTracks=0 and retrun when
  fNDCTracks>10 for HMS style chambers to match engine.

In CalcFptime changes for loop to use  fNScinGoodHits
In calcFptime if not a good hit ( both PMT within time window) set to -10000.
In Clear set fpTime=-10000.

  Removed not yet ready THcHodoscope::CalcBeta while merging.

Class for an Cherenkov detector consisting of two PMT's.
Fourth pull request. January 30 2014.
No need to cahnge the Map file.
New parameter hcer_tot_pmts = 2 is added to the hcana.param file
This code is for the coarse process of THcCherenkov class.
Names of all the variables are in lower case.

Variable Name   Description
phototubes      Nuber of Cherenkov photo tubes
adc             Raw ADC values
adc_p           Pedestal Subtracted ADC values
npe             Number of Photo electrons
npesum          Sum of Number of Photo electrons
ncherhit        Number of Hits(Cherenkov)

We have added a new parameter hcer_tot_pmts = 2 in hcana.param file.
It is equal to total number of PMTs in Cherenkov detector. With this
update, the THcCherenkov coarse process is complete. We have Raw adc,
pedestal subtracted adc, number of photo electrons and hits histograms
in the output root file for gas Cherenkov detector.

  Because git under Eclipse messes up soft links
  Use #include directive so desired file gets read

   Update MacOSX readme
   Add README for Eclipse usage on Linux
   Use Markdown markup for GitHub readability

Remove SConstruct softlink; rename SConstruct.py to be SConstruct
Add a README for setting up Eclipse.

SConstruct

  Friend the detector classes that need access to the private members.
  May later want to use member functions to access the data.

  Was hardwired to HMS, so SOS was getting HMS hodoscope data.

variables. Total photo electrons, total hits of adc 1, total hits of adc 2
and total hits. With this update we have transformed the FORTRAN code of
file /engine/HTRACKING/h_trans_cer.f to /hcana/ser/THcCherenkov.cxx

NOTE: The pedestal value in ENGINE is an integer but in hcana it is a
flaoting number. So it changes the pedestal substracted vlues of adc 1
and adc 2 and the number of photo electrons of adc 1 and 2 by very small
fraction. The difference of total photo electrons between ENGINE and hcana
is not more than 0.005.

  Fix from Mark Jones with additional cleanup for
  saw's misunderstanding of space point criterion

Invoked with 'scons checkheaders=1'

Also added cppcheck_report.txt to .gitignore

  Compare wire coordinate, not wire number