irischang020 / xtc1to2

Converts xtc1 to xtc2 files

Converts xtc1 to xtc2 file

Installation:
git clone --recurse-submodules [email protected]:monarin/xtc1to2.git

For SPI (spinifel/cmtip), Input: experiment id, run number
Output: xtc2 file with intensities and photon energy

Note:
List of experiments:
https://www.nature.com/articles/s41597-020-00745-2/tables/3

Spinifel hdf5 file contains:

• pixel_position_reciprocal
• pixel_index_map
• intensities
• orientations
• volume
  Obtain photon energy:
  Note from Chuck:
  https://github.com/lcls-psana/psocake/blob/7d21e96961c04f149c64e9c810a8eff7f60d5982/psocake/peakFinderClient.py#L183
  Code possibly needed:

1. Photon Energy
   es = ps.ds.env().epicsStore()
   try:
   md.small.wavelength = es.value('SIOC:SYS0:ML00:AO192')
   except:
   md.small.wavelength = 0
   ebeamDet = psana.Detector('EBeam')
   ebeam = ebeamDet.get(ps.evt)
   try:
   photonEnergy = ebeam.ebeamPhotonEnergy()
   pulseEnergy = ebeam.ebeamL3Energy() # MeV
   except:
   photonEnergy = 0
   pulseEnergy = 0
   if md.small.wavelength > 0:
   h = 6.626070e-34 # J.m
   c = 2.99792458e8 # m/s
   joulesPerEv = 1.602176621e-19 # J/eV
   photonEnergy = (h / joulesPerEv * c) / (md.small.wavelength * 1e-9)
2. Intensities