# the project directory
wd = git + "/OSImageAnalysis/dtsa2/other-macros/testScripts"
os.chdir(wd)
pyrDir = wd + "/3_testCalDet Results/"
spcDir = git + "/OSImageAnalysis/dtsa2/detectors/2-FEI Sirion"
DataManager.clearSpectrumList()
sDet = "Oxford p4 05eV 2K"
det = findDetector(sDet)
spcFil = spcDir + '/' + "Cu-15kV-P4-10-2K-250s.txt"
spc = wrap(ept.SpectrumFile.open(spcFil)[0])
display(spc)
print(spc.getChannelCount())
mat = jmg.matchDet(spc, det)
cu = material("Cu", density=8.96)
mat.setAsStandard(cu)
display(mat)
print(mat.getChannelCount())
sf = epq.SpectrumFitter8(det, cu, mat)
# print(dir(sf))
rois = sf.getROIS()
print(rois)
# print(epq.FromSI.keV(rois.highEnergy()-rois.lowEnergy())/3.0)
pr = mat.getProperties()
# print(dir(pr))
props = pr.getDetector().getCalibration().getProperties()
pyrDir = wd + "/00_testDetQuant Results/"
DataManager.clearSpectrumList()
spcDir = git + "/OSImageAnalysis/dtsa2/spc/"
sDet = "FEI FIB620 EDAX-RTEM"
det = findDetector(sDet)
pc = 1.0
wrkDist = 17.2 # mm
vkV = [15]
for e0 in vkV:
cuFil = spcDir + "Cu-%g-1.spc" % e0
raw = readSpectrum(cuFil, i=0, det=None)
print(raw.getChannelCount())
cuStdSpc = jmg.matchDet(raw, det)
# try remap to see if it picks up calibration
cuStdSpc = cuStdSpc.remap(det)
cuStdSpc.setAsStandard(epq.Composition(epq.Element.Cu))
cuStdSpc.rename("CuStd")
# set up the standard
print(cuStdSpc.getChannelCount())
display(cuStdSpc)
cuStd = {"Cu":cuStdSpc}
cuFil = spcDir + "Cu-%g-2.spc" % e0
raw = readSpectrum(cuFil, i=0, det=None)
print(raw.getChannelCount())
cuSpc = jmg.matchDet(raw, det)
# try remap to see if it picks up calibration
cuSpc = cuSpc.remap(det)
