def addSrcsFITS(sL,GD,GDn,ISO,ISOn,oldNames):
model=open(sL.out,'w') #open file in write mode, overwrites other files of same name
file=pyfits.open(sL.srcs) #open source list file and access necessary fields, requires LAT source catalog definitions and names
mask=file[1].data.field('Signif_Avg')>=self.sig
data=file[1].data[mask]
extendedinfo=file['ExtendedSources'].data
extName=extendedinfo.field('Source_Name')
extFile=extendedinfo.field('Spatial_Filename')
name=data.field('Source_Name')
Sigvals=data.field('Signif_Avg')
VarIdx=data.field('Variability_Index')
EName=data.field('Extended_Source_Name')
ra=data.field('RAJ2000')
dec=data.field('DEJ2000')
flux=data.field('Flux_Density')
pivot=data.field('Pivot_Energy')
index=data.field('Spectral_Index')
cutoff=data.field('Cutoff')
expIndex=data.field('Exp_Index')
spectype=data.field('SpectrumType')
beta=data.field('Beta')
model.write('<?xml version="1.0" ?>\n')
model.write('<source_library title="source library">\n')
model.write('\n<!-- Point Sources -->\n')
step=(sL.roi[2]+sL.ER)/5. #divide ROI radius plus ExtraRadius degrees into 5 steps for ordering of sources
i=1
radii=[]
ptSrcNum=0
extSrcNum=0
Sources={}#dictionary for sources, useful for creating region file later.
while i<6:
if i*step<=sL.roi[2]+sL.ER:
radii+=[step*i]
else:
radii+=[sL.roi[2]+sL.ER] #just in case of rounding errors
i+=1
for x in radii:
if x==sL.roi[2]+sL.ER:
model.write('\n<!-- Sources between [%s,%s] degrees of ROI center -->\n' %(x-step,x))
else:
model.write('\n<!-- Sources between [%s,%s) degrees of ROI center -->\n' %(x-step,x))
for n,f,i,r,d,p,c,t,b,TS,ei,vi,En in zip(name,flux,index,ra,dec,pivot,cutoff,spectype,beta,Sigvals,expIndex,VarIdx,EName):
E=(True if n[-1]=='e' else False)
dist=angsep(sL.roi[0],sL.roi[1],r,d) #check that source is within ROI radius + 10 degress of ROI center
if r==sL.roi[0] and d==sL.roi[1]:
dist=0.0
if (dist<x and dist>=x-step) or (x==sL.roi[2]+10. and dist==x):
if E and not sL.psF:
Sources[En]={'ra':r,'dec':d,'stype':t,'E':E}
extSrcNum+=1
Name='<source ROI_Center_Distance="%.3f" name="%s" type="DiffuseSource">\n' %(dist,En)
else:
if E:#even if forcing all to point sources, use extended name
Sources[En]={'ra':r,'dec':d,'stype':t,'E':E}
Name='<source ROI_Center_Distance="%.3f" name="%s" type="PointSource">\n' %(dist,En)
else:
Sources[n]={'ra':r,'dec':d,'stype':t,'E':E}
if oldNames:
srcname='_'
for N in n.split(' '):
srcname+=N
Name='<source ROI_Center_Distance="%.3f" name="%s" type="PointSource">\n' %(dist,srcname)
else:
Name='<source ROI_Center_Distance="%.3f" name="%s" type="PointSource">\n' %(dist,n)
ptSrcNum+=1
if t=='PowerLaw':
fixAll=(True if n=='3FGL J0534.5+2201i' or En in ['Cygnus Cocoon','Vela X','MSH 15-52','gamma Cygni'] else False)
spec,free=PLspec(sL,f,i,p,dist,TS,vi,fixAll)
elif t=='PowerLaw2':#no value for flux from 100 MeV to 100 GeV in fits file
if i!=1.:#so calculate it by integrating PowerLaw spectral model
F=f*p**i/(-i+1.)*(1.e5**(-i+1.)-1.e2**(-i+1.))
else:
F=f*p*log(1.e3)
spec,free=PL2spec(sL,F,i,dist,TS,vi)
#spec,free=PL2spec(sL,f100,i,dist,TS,vi)
elif t=='LogParabola':
spec,free=LPspec(sL,f,i,p,b,dist,TS,vi)
else:
spec,free=COspec(sL,f,i,p,c,ei,dist,TS,vi)
if E:
Sources[En]['free']=free
else:
Sources[n]['free']=free
if E and not sL.psF:
#need to fix this
efile=None
for EXTNAME,EXTFILE in zip(extName,extFile):
if En==EXTNAME:
efile=sL.extD+EXTFILE
if efile==None:
print 'could not find a match for',En,'in the list:'
print extName
efile=''
skydir='\t<spatialModel file="%s" map_based_integral="true" type="SpatialMap">\n'%(efile)
print 'Extended source %s in ROI, make sure %s is the correct path to the extended template.'%(En,efile)
skydir+='\t\t<parameter free="0" max="1000" min="0.001" name="Prefactor" scale="1" value="1"/>\n'
skydir+='\t</spatialModel>\n'
else:
skydir='\t<spatialModel type="SkyDirFunction">\n'
skydir+='\t\t<parameter free="0" max="360.0" min="-360.0" name="RA" scale="1.0" value="%s"/>\n' %r
skydir+='\t\t<parameter free="0" max="90" min="-90" name="DEC" scale="1.0" value="%s"/>\n' %d
skydir+='\t</spatialModel>\n'
skydir+='</source>'
(src,)=(Name+spec+skydir,)
ptsrc=pS(src).getElementsByTagName('source')[0]
ptsrc.writexml(model)
model.write('\n')
file.close() #close file
if not sL.psF:
print 'Added %i point sources and %i extended sources'%(ptSrcNum,extSrcNum)
if extSrcNum>0:
print 'If using unbinned likelihood you will need to rerun gtdiffrsp for the extended sources or rerun the makeModel function with optional argument psForce=True'
else:
print 'Added %i point sources, note that any extended sources in ROI were modeled as point sources becaue psForce option was set to True'%ptSrcNum
#add galactic diffuse with PL spectrum, fix index to zero for general use, those who want it to be free can unfreeze parameter manually
model.write('\n<!-- Diffuse Sources -->\n')
Name='\n<source name="%s" type="DiffuseSource">\n' %GDn
spec='\t<spectrum type="PowerLaw" apply_edisp="false">\n'
spec+='\t\t<parameter free="1" max="10" min="0" name="Prefactor" scale="1" value="1"/>\n'
if sL.GIF:
spec+='\t\t<parameter free="1" max="1" min="-1" name="Index" scale="1.0" value="0"/>\n'
else:
spec+='\t\t<parameter free="0" max="1" min="-1" name="Index" scale="1.0" value="0"/>\n'
spec+='\t\t<parameter free="0" max="2e2" min="5e1" name="Scale" scale="1.0" value="1e2"/>\n'
spec+='\t</spectrum>\n'
skydir='\t<spatialModel file="%s" type="MapCubeFunction">\n' %GD
skydir+='\t\t<parameter free="0" max="1e3" min="1e-3" name="Normalization" scale="1.0" value="1.0"/>\n'
skydir+='\t</spatialModel>\n'
skydir+='</source>'
(src,)=(Name+spec+skydir,)
galdiff=pS(src).getElementsByTagName('source')[0]
galdiff.writexml(model)
model.write('\n')
Name='<source name="%s" type="DiffuseSource">\n' %ISOn
spec='\t<spectrum type="FileFunction" file="%s" apply_edisp="false">\n' %ISO
spec+='\t\t<parameter free="1" max="10" min="1e-2" name="Normalization" scale="1" value="1"/>\n'
spec+='\t</spectrum>\n'
skydir='\t<spatialModel type="ConstantValue">\n'
skydir+='\t\t<parameter free="0" max="10.0" min="0.0" name="Value" scale="1.0" value="1.0"/>\n'
skydir+='\t</spatialModel>\n'
skydir+='</source>'
(src,)=(Name+spec+skydir,)
iso=pS(src).getElementsByTagName('source')[0]
iso.writexml(model)
model.write('\n</source_library>')
model.close()
if sL.reg:
BuildRegion(sL,Sources)
return
def addSrcs2(sL, GD, GDn, ISO, ISOn, signif):
model = open(
sL.out,
'w') #open file in write mode, overwrites other files of same name
file = pyfits.open(
sL.srcs
) #open source list file and access necessary fields, requires LAT source catalog definitions and names
data = file[1].data
extendedinfo = file[4].data
extName = extendedinfo.field('Source_Name')
extFile = extendedinfo.field('Spatial_Filename')
name = data.field('Source_Name')
ExtName = data.field('Extended_Source_Name')
ra = data.field('RAJ2000')
dec = data.field('DEJ2000')
flux = data.field('Flux_Density')
pivot = data.field('Pivot_Energy')
index = data.field('Spectral_Index')
cutoff = data.field('Cutoff')
spectype = data.field('SpectrumType')
beta = data.field('beta')
#extended=data.field('Extended')
sigma = data.field('Signif_Avg')
model.write('<?xml version="1.0" ?>\n')
model.write('<source_library title="source library">\n')
model.write('\n<!-- Point Sources -->\n')
step = (
sL.roi[2] + 5
) / 5 #divide ROI radius plus 5 degrees into 5 steps for ordering of sources, get next highest int for ease
i = 1
radii = []
ptSrcNum = 0
extSrcNum = 0
while i < 6:
if i * step <= sL.roi[2] + 5:
radii += [step * i]
else:
radii += [sL.roi[2] + 5] #just in case of rounding errors
i += 1
for x in radii:
if x == sL.roi[2] + 5.:
model.write(
'\n<!-- Sources between [%s,%s] degrees of ROI center -->\n' %
(x - step, x))
else:
model.write(
'\n<!-- Sources between [%s,%s) degrees of ROI center -->\n' %
(x - step, x))
for n, f, i, r, d, p, c, t, b, S, EN in zip(name, flux, index, ra, dec,
pivot, cutoff, spectype,
beta, sigma, ExtName):
dist = angsep(
sL.roi[0], sL.roi[1], r, d
) #check that source is within ROI radius + 5 degress of ROI center
if r == sL.roi[0] and d == sL.roi[1]:
dist = 0.0
if (dist < x and dist >= x - step) or (x == sL.roi[2] + 5.
and dist == x):
sn = ''
for N in n.split(' '):
sn += N
if EN != '' and not sL.psF:
extSrcNum += 1
if EN[0].isdigit(
): #use the extended source name to set these apart even further
Name = '<source name="_%s" type="DiffuseSource">\n' % EN
else:
Name = '<source name="%s" type="DiffuseSource">\n' % EN
else:
ptSrcNum += 1
if sn[0].isdigit():
Name = '<source name="_%s" type="PointSource">\n' % sn
else:
Name = '<source name="%s" type="PointSource">\n' % sn
if EN != 'Vela X' and EN != 'MSH 15-52':
if t == 'PowerLaw':
spec = PLspec(sL, f, i, p, dist, S, signif)
elif t == 'PowerLaw2': #no value for flux from 100 MeV to 100 GeV in fits file0
if i != 1.: #so calculate it by integrating PowerLaw spectral model
F = f * p**i / (-i + 1) * (1.e5**(-i + 1) -
1.e2**(-1 + 1))
else:
F = f * p * log(1.e3)
spec = PL2spec(sL, F, i, dist, S, signif)
elif t == 'LogParabola':
spec = LPspec(sL, f, i, p, b, dist, S, signif)
else:
spec = COspec(sL, f, i, p, c, dist, S, signif)
else:
if EN == 'Vela X':
spec = VXspec(sL, i, dist)
else:
spec = MSHspec(sL, i, dist)
if EN != '' and not sL.psF:
eFile = None
for exN, exf in zip(extName, extFile):
if exN == EN:
if len(sL.extD) > 0:
if sL.extD[-1] == '/':
eFile = sL.extD + exf
else:
eFile = sL.extD + '/' + exf
else:
eFile = exf
break
if eFile == None:
skydir = '\t<spatialModel file="%s" type="SpatialMap">\n' % sL.extD
print 'Extended source %s (%s) in ROI, could not find name of matching template file.' % (
EN, sn)
else:
skydir = '\t<spatialModel file="%s" type="SpatialMap">\n' % eFile
print 'Extended source %s (%s) in ROI, verify that %s is the correct path.' % (
EN, sn, eFile)
skydir += '\t\t<parameter free="0" max="1000" min="0.001" name="Prefactor" scale="1" value="1"/>\n'
skydir += '\t</spatialModel>\n'
else:
skydir = '\t<spatialModel type="SkyDirFunction">\n'
skydir += '\t\t<parameter free="0" max="360.0" min="-360.0" name="RA" scale="1.0" value="%s"/>\n' % r
skydir += '\t\t<parameter free="0" max="90" min="-90" name="DEC" scale="1.0" value="%s"/>\n' % d
skydir += '\t</spatialModel>\n'
skydir += '</source>'
(src, ) = (Name + spec + skydir, )
ptsrc = pS(src).getElementsByTagName('source')[0]
ptsrc.writexml(model)
model.write('\n')
file.close() #close file
if not sL.psF:
print 'Added %i point sources and %i extended sources' % (ptSrcNum,
extSrcNum)
if extSrcNum > 0:
print 'If using unbinned likelihood you will need to rerun gtdiffrsp for the extended sources or rerun the makeModel function with optional argument psForce=True'
else:
print 'Added %i point sources, note that any extended sources in ROI were modeled as point sources becaue psForce option was set to True' % ptSrcNum
#add galactic diffuse with PL spectrum, fix index to zero for general use, those who want it to be free can unfreeze parameter manually
model.write('\n<!-- Diffuse Sources -->\n')
Name = '\n<source name="%s" type="DiffuseSource">\n' % GDn
spec = '\t<spectrum type="PowerLaw">\n'
spec += '\t\t<parameter free="1" max="10" min="0" name="Prefactor" scale="1" value="1"/>\n'
spec += '\t\t<parameter free="0" max="1" min="-1" name="Index" scale="1.0" value="0"/>\n'
spec += '\t\t<parameter free="0" max="2e2" min="5e1" name="Scale" scale="1.0" value="1e2"/>\n'
spec += '\t</spectrum>\n'
skydir = '\t<spatialModel file="%s" type="MapCubeFunction">\n' % GD
skydir += '\t\t<parameter free="0" max="1e3" min="1e-3" name="Normalization" scale="1.0" value="1.0"/>\n'
skydir += '\t</spatialModel>\n'
skydir += '</source>'
(src, ) = (Name + spec + skydir, )
galdiff = pS(src).getElementsByTagName('source')[0]
galdiff.writexml(model)
model.write('\n')
if ISO == None: #null means no file so assume user wants an isotropic power law component
Name = '<source name="%s" type="DiffuseSource">\n' % ISOn
spec = '\t<spectrum type="PowerLaw">\n'
spec += '\t\t<parameter free="1" max="1e3" min="1e-3" name="Prefactor" scale="1e-7" value="1"/>\n'
spec += '\t\t<parameter free="1" max="-1.0" min="-3.5" name="Index" scale="1.0" value="-2.1"/>\n'
spec += '\t\t<parameter free="0" max="2e2" min="5e1" name="Scale" scale="1.0" value="1e2"/>\n'
spec += '\t</spectrum>\n'
else: #if a file is given assume it is an isotropic template
Name = '<source name="%s" type="DiffuseSource">\n' % ISOn
spec = '\t<spectrum type="FileFunction" file="%s">\n' % ISO
spec += '\t\t<parameter free="1" max="10" min="1e-2" name="Normalization" scale="1" value="1"/>\n'
spec += '\t</spectrum>\n'
#both of the above options use the same spatial model
skydir = '\t<spatialModel type="ConstantValue">\n'
skydir += '\t\t<parameter free="0" max="10.0" min="0.0" name="Value" scale="1.0" value="1.0"/>\n'
skydir += '\t</spatialModel>\n'
skydir += '</source>'
(src, ) = (Name + spec + skydir, )
iso = pS(src).getElementsByTagName('source')[0]
iso.writexml(model)
model.write('\n</source_library>')
model.close()
return
def addSrcs2(sL,GD,GDn,ISO,ISOn,signif):
model=open(sL.out,'w') #open file in write mode, overwrites other files of same name
file=pyfits.open(sL.srcs) #open source list file and access necessary fields, requires LAT source catalog definitions and names
data=file[1].data
extendedinfo=file[4].data
extName=extendedinfo.field('Source_Name')
extFile=extendedinfo.field('Spatial_Filename')
name=data.field('Source_Name')
ExtName=data.field('Extended_Source_Name')
ra=data.field('RAJ2000')
dec=data.field('DEJ2000')
flux=data.field('Flux_Density')
pivot=data.field('Pivot_Energy')
index=data.field('Spectral_Index')
cutoff=data.field('Cutoff')
spectype=data.field('SpectrumType')
beta=data.field('beta')
#extended=data.field('Extended')
sigma=data.field('Signif_Avg')
model.write('<?xml version="1.0" ?>\n')
model.write('<source_library title="source library">\n')
model.write('\n<!-- Point Sources -->\n')
step=(sL.roi[2]+5)/5 #divide ROI radius plus 5 degrees into 5 steps for ordering of sources, get next highest int for ease
i=1
radii=[]
ptSrcNum=0
extSrcNum=0
while i<6:
if i*step<=sL.roi[2]+5:
radii+=[step*i]
else:
radii+=[sL.roi[2]+5] #just in case of rounding errors
i+=1
for x in radii:
if x==sL.roi[2]+5.:
model.write('\n<!-- Sources between [%s,%s] degrees of ROI center -->\n' %(x-step,x))
else:
model.write('\n<!-- Sources between [%s,%s) degrees of ROI center -->\n' %(x-step,x))
for n,f,i,r,d,p,c,t,b,S,EN in zip(name,flux,index,ra,dec,pivot,cutoff,spectype,beta,sigma,ExtName):
dist=angsep(sL.roi[0],sL.roi[1],r,d) #check that source is within ROI radius + 5 degress of ROI center
if r==sL.roi[0] and d==sL.roi[1]:
dist=0.0
if (dist<x and dist>=x-step) or (x==sL.roi[2]+5. and dist==x):
sn=''
for N in n.split(' '):
sn+=N
if EN!='' and not sL.psF:
extSrcNum+=1
if EN[0].isdigit():#use the extended source name to set these apart even further
Name='<source name="_%s" type="DiffuseSource">\n' %EN
else:
Name='<source name="%s" type="DiffuseSource">\n' %EN
else:
ptSrcNum+=1
if sn[0].isdigit():
Name='<source name="_%s" type="PointSource">\n' %sn
else:
Name='<source name="%s" type="PointSource">\n' %sn
if EN!='VelaX' and EN!='MSH15-52':
if t=='PowerLaw':
spec=PLspec(sL,f,i,p,dist,S,signif)
elif t=='PowerLaw2':#no value for flux from 100 MeV to 100 GeV in fits file0
if i!=1.:#so calculate it by integrating PowerLaw spectral model
F=f*p**i/(-i+1)*(1.e5**(-i+1)-1.e2**(-1+1))
else:
F=f*p*log(1.e3)
spec=PL2spec(sL,F,i,dist,S,signif)
elif t=='LogParabola':
spec=LPspec(sL,f,i,p,b,dist,S,signif)
else:
spec=COspec(sL,f,i,p,c,dist,S,signif)
else:
if EN=='VelaX':
spec=VXspec(sL,i,dist)
else:
spec=MSHspec(sL,i,dist)
if EN!='' and not sL.psF:
eFile=None
for exN,exf in zip(extName,extFile):
if exN.replace(' ','')==EN:
if len(sL.extD)>0:
if sL.extD[-1]=='/':
eFile=sL.extD+exf
else:
eFile=sL.extD+'/'+exf
else:
eFile=exf
break
if eFile==None:
skydir='\t<spatialModel file="%s" type="SpatialMap">\n'%sL.extD
print 'Extended source %s (%s) in ROI, could not find name of matching template file.'%(EN,sn)
else:
skydir='\t<spatialModel file="%s" type="SpatialMap">\n'%eFile
print 'Extended source %s (%s) in ROI, verify that %s is the correct path.'%(EN,sn,eFile)
skydir+='\t\t<parameter free="0" max="1000" min="0.001" name="Prefactor" scale="1" value="1"/>\n'
skydir+='\t</spatialModel>\n'
else:
skydir='\t<spatialModel type="SkyDirFunction">\n'
skydir+='\t\t<parameter free="0" max="360.0" min="-360.0" name="RA" scale="1.0" value="%s"/>\n' %r
skydir+='\t\t<parameter free="0" max="90" min="-90" name="DEC" scale="1.0" value="%s"/>\n' %d
skydir+='\t</spatialModel>\n'
skydir+='</source>'
(src,)=(Name+spec+skydir,)
ptsrc=pS(src).getElementsByTagName('source')[0]
ptsrc.writexml(model)
model.write('\n')
file.close() #close file
if not sL.psF:
print 'Added %i point sources and %i extended sources'%(ptSrcNum,extSrcNum)
if extSrcNum>0:
print 'If using unbinned likelihood you will need to rerun gtdiffrsp for the extended sources or rerun the makeModel function with optional argument psForce=True'
else:
print 'Added %i point sources, note that any extended sources in ROI were modeled as point sources becaue psForce option was set to True'%ptSrcNum
#add galactic diffuse with PL spectrum, fix index to zero for general use, those who want it to be free can unfreeze parameter manually
model.write('\n<!-- Diffuse Sources -->\n')
Name='\n<source name="%s" type="DiffuseSource">\n' %GDn
spec='\t<spectrum type="PowerLaw">\n'
spec+='\t\t<parameter free="1" max="10" min="0" name="Prefactor" scale="1" value="1"/>\n'
spec+='\t\t<parameter free="0" max="1" min="-1" name="Index" scale="1.0" value="0"/>\n'
spec+='\t\t<parameter free="0" max="2e2" min="5e1" name="Scale" scale="1.0" value="1e2"/>\n'
spec+='\t</spectrum>\n'
skydir='\t<spatialModel file="%s" type="MapCubeFunction">\n' %GD
skydir+='\t\t<parameter free="0" max="1e3" min="1e-3" name="Normalization" scale="1.0" value="1.0"/>\n'
skydir+='\t</spatialModel>\n'
skydir+='</source>'
(src,)=(Name+spec+skydir,)
galdiff=pS(src).getElementsByTagName('source')[0]
galdiff.writexml(model)
model.write('\n')
if ISO==None: #null means no file so assume user wants an isotropic power law component
Name='<source name="%s" type="DiffuseSource">\n' %ISOn
spec='\t<spectrum type="PowerLaw">\n'
spec+='\t\t<parameter free="1" max="1e3" min="1e-3" name="Prefactor" scale="1e-7" value="1"/>\n'
spec+='\t\t<parameter free="1" max="-1.0" min="-3.5" name="Index" scale="1.0" value="-2.1"/>\n'
spec+='\t\t<parameter free="0" max="2e2" min="5e1" name="Scale" scale="1.0" value="1e2"/>\n'
spec+='\t</spectrum>\n'
else: #if a file is given assume it is an isotropic template
Name='<source name="%s" type="DiffuseSource">\n' %ISOn
spec='\t<spectrum type="FileFunction" file="%s">\n' %ISO
spec+='\t\t<parameter free="1" max="10" min="1e-2" name="Normalization" scale="1" value="1"/>\n'
spec+='\t</spectrum>\n'
#both of the above options use the same spatial model
skydir='\t<spatialModel type="ConstantValue">\n'
skydir+='\t\t<parameter free="0" max="10.0" min="0.0" name="Value" scale="1.0" value="1.0"/>\n'
skydir+='\t</spatialModel>\n'
skydir+='</source>'
(src,)=(Name+spec+skydir,)
iso=pS(src).getElementsByTagName('source')[0]
iso.writexml(model)
model.write('\n</source_library>')
model.close()
return
def addSrcs1(sL, GD, GDn, ISO, ISOn, signif):
model = open(
sL.out,
'w') #open file in write mode, overwrites other files of same name
file = pyfits.open(
sL.srcs
) #open source list file and access necessary fields, requires LAT source catalog definitions and names
data = file[1].data
try:
name = data.field('Source_Name')
except:
name = data.field('NickName')
ra = data.field('RA')
dec = data.field('DEC')
flux = data.field('Flux_Density')
pivot = data.field('Pivot_Energy')
index = data.field('Spectral_Index')
sigma = data.field('Signif_Avg')
model.write('<?xml version="1.0" ?>\n')
model.write('<source_library title="source library">\n')
model.write('\n<!-- Point Sources -->\n')
step = (
sL.roi[2] + 5
) / 5 #divide ROI radius plus 5 degrees into 5 steps for ordering of sources, get next highest int for ease
i = 1
radii = []
while i < 6:
if i * step <= sL.roi[2] + 5:
radii += [step * i]
else:
radii += [sL.roi[2] + 5] #just in case of rounding errors
i += 1
for x in radii:
if x == sL.roi[2] + 5.:
model.write(
'\n<!-- Sources between [%s,%s] degrees of ROI center -->\n' %
(x - step, x))
else:
model.write(
'\n<!-- Sources between [%s,%s) degrees of ROI center -->\n' %
(x - step, x))
for n, f, i, r, d, p, s in zip(name, flux, index, ra, dec, pivot,
sigma):
dist = angsep(
sL.roi[0], sL.roi[1], r, d
) #check that source is within ROI radius + 5 degress of ROI center
if (dist < x and dist >= x - step) or (x == sL.roi[2] + 5.
and dist == x):
fscale = int(floor(log10(f)))
sn = ''
for N in n.split(' '):
sn += N
if sn[0].isdigit():
Name = '<source name="_%s" type="PointSource">\n' % sn
else:
Name = '<source name="%s" type="PointSource">\n' % sn
spec = '\t<spectrum type="PowerLaw">\n'
spec += '\t<!-- Source is %s degrees away from ROI center -->\n' % dist
if (dist > sL.roi[2]
): #if beyond ROI, shouldn't attempt to fit parameters
spec += '\t<!-- Source is outside ROI, all parameters should remain fixed -->\n'
spec += '\t\t<parameter free="0" max="1e4" min="1e-4" name="Prefactor" scale="1e%i" value="%s"/>\n' % (
fscale, f / 10**fscale)
spec += '\t\t<parameter free="0" max="5.0" min="0.0" name="Index" scale="-1.0" value="%s"/>\n' % i
elif (dist > sL.radLim):
spec += '\t<!-- Source is outside specified radius limit of %s -->\n' % sL.radLim
spec += '\t\t<parameter free="0" max="1e4" min="1e-4" name="Prefactor" scale="1e%i" value="%s"/>\n' % (
fscale, f / 10**fscale)
spec += '\t\t<parameter free="0" max="5.0" min="0.0" name="Index" scale="-1.0" value="%s"/>\n' % i
elif s < signif:
spec += '\t<!-- Source significance %s is less than specified limit of %s -->\n' % (
s, signif)
spec += '\t\t<parameter free="0" max="1e4" min="1e-4" name="Prefactor" scale="1e%i" value="%s"/>\n' % (
fscale, f / 10**fscale)
spec += '\t\t<parameter free="0" max="5.0" min="0.0" name="Index" scale="-1.0" value="%s"/>\n' % i
else:
spec += '\t\t<parameter free="1" max="1e4" min="1e-4" name="Prefactor" scale="1e%i" value="%s"/>\n' % (
fscale, f / 10**fscale)
spec += '\t\t<parameter free="1" max="5.0" min="0.0" name="Index" scale="-1.0" value="%s"/>\n' % i
spec += '\t\t<parameter free="0" max="5e5" min="30" name="Scale" scale="1.0" value="%f"/>\n' % p
spec += '\t</spectrum>\n'
skydir = '\t<spatialModel type="SkyDirFunction">\n'
skydir += '\t\t<parameter free="0" max="360.0" min="-360.0" name="RA" scale="1.0" value="%s"/>\n' % r
skydir += '\t\t<parameter free="0" max="90" min="-90" name="DEC" scale="1.0" value="%s"/>\n' % d
skydir += '\t</spatialModel>\n'
skydir += '</source>'
(src, ) = (Name + spec + skydir, )
ptsrc = pS(src).getElementsByTagName('source')[0]
ptsrc.writexml(model)
model.write('\n')
file.close() #close file
#add galactic diffuse with PL spectrum, fix index to zero for general use, those who want it to be free can unfreeze parameter manually
model.write('\n<!-- Diffuse Sources -->\n')
Name = '\n<source name="CO" type="DiffuseSource">\n'
spec = '\t<spectrum type="PowerLaw2">\n'
spec += '\t\t<parameter free="1" max="1e4" min="1e-4" name="Integral" scale="1e-8" value="1.8"/>\n'
spec += '\t\t<parameter free="0" max="1" min="-4" name="Index" scale="1.0" value="-2"/>\n'
spec += '\t\t<parameter free="0" max="200000.0" min="20.0" name="LowerLimit" scale="1.0" value="%s" />\n' % Inputs[
'emin'][1]
spec += '\t\t<parameter free="0" max="200000.0" min="20.0" name="UpperLimit" scale="1.0" value="%s"/>\n' % Inputs[
'emax'][1]
spec += '\t</spectrum>\n'
skydir = '\t<spatialModel file="%s" type="SpatialMap">\n' % fl['COmp']
skydir += '\t\t<parameter free="0" max="1e3" min="1e-3" name="Prefactor" scale="1.0" value="1.0"/>\n'
skydir += '\t</spatialModel>\n'
skydir += '</source>'
(src, ) = (Name + spec + skydir, )
galdiff = pS(src).getElementsByTagName('source')[0]
galdiff.writexml(model)
model.write('\n')
Name = '\n<source name="HI" type="DiffuseSource">\n'
spec = '\t<spectrum type="PowerLaw2">\n'
spec += '\t\t<parameter free="1" max="1e4" min="1e-4" name="Integral" scale="1e-6" value="1.8"/>\n'
spec += '\t\t<parameter free="0" max="1" min="-4" name="Index" scale="1.0" value="-2"/>\n'
spec += '\t\t<parameter free="0" max="200000.0" min="20.0" name="LowerLimit" scale="1.0" value="%s" />\n' % Inputs[
'emin'][1]
spec += '\t\t<parameter free="0" max="200000.0" min="20.0" name="UpperLimit" scale="1.0" value="%s"/>\n' % Inputs[
'emax'][1]
spec += '\t</spectrum>\n'
skydir = '\t<spatialModel file="%s" type="SpatialMap">\n' % fl['HImp']
skydir += '\t\t<parameter free="0" max="1e3" min="1e-3" name="Prefactor" scale="1.0" value="1.0"/>\n'
skydir += '\t</spatialModel>\n'
skydir += '</source>'
(src, ) = (Name + spec + skydir, )
galdiff = pS(src).getElementsByTagName('source')[0]
galdiff.writexml(model)
model.write('\n')
if ISO == None: #null means no file so assume user wants an isotropic power law component
Name = '<source name="%s" type="DiffuseSource">\n' % ISOn
spec = '\t<spectrum type="PowerLaw">\n'
spec += '\t\t<parameter free="1" max="1e3" min="1e-3" name="Prefactor" scale="1e-7" value="1"/>\n'
spec += '\t\t<parameter free="1" max="-1.0" min="-3.5" name="Index" scale="1.0" value="-2.1"/>\n'
spec += '\t\t<parameter free="0" max="2e2" min="5e1" name="Scale" scale="1.0" value="1e2"/>\n'
spec += '\t</spectrum>\n'
else: #if a file is given assume it is an isotropic template
Name = '<source name="%s" type="DiffuseSource">\n' % ISOn
spec = '\t<spectrum type="FileFunction" file="%s">\n' % ISO
spec += '\t\t<parameter free="1" max="10" min="1e-2" name="Normalization" scale="1" value="1"/>\n'
spec += '\t</spectrum>\n'
#both of the above options use the same spatial model
skydir = '\t<spatialModel type="ConstantValue">\n'
skydir += '\t\t<parameter free="0" max="10.0" min="0.0" name="Value" scale="1.0" value="1.0"/>\n'
skydir += '\t</spatialModel>\n'
skydir += '</source>'
(src, ) = (Name + spec + skydir, )
iso = pS(src).getElementsByTagName('source')[0]
iso.writexml(model)
model.write('\n</source_library>')
model.close()
return
def addSrcs1(sL,GD,GDn,ISO,ISOn,signif):
model=open(sL.out,'w') #open file in write mode, overwrites other files of same name
file=pyfits.open(sL.srcs) #open source list file and access necessary fields, requires LAT source catalog definitions and names
data=file[1].data
try:
name=data.field('Source_Name')
except:
name=data.field('NickName')
ra=data.field('RA')
dec=data.field('DEC')
flux=data.field('Flux_Density')
pivot=data.field('Pivot_Energy')
index=data.field('Spectral_Index')
sigma=data.field('Signif_Avg')
model.write('<?xml version="1.0" ?>\n')
model.write('<source_library title="source library">\n')
model.write('\n<!-- Point Sources -->\n')
step=(sL.roi[2]+5)/5 #divide ROI radius plus 5 degrees into 5 steps for ordering of sources, get next highest int for ease
i=1
radii=[]
while i<6:
if i*step<=sL.roi[2]+5:
radii+=[step*i]
else:
radii+=[sL.roi[2]+5] #just in case of rounding errors
i+=1
for x in radii:
if x==sL.roi[2]+5.:
model.write('\n<!-- Sources between [%s,%s] degrees of ROI center -->\n' %(x-step,x))
else:
model.write('\n<!-- Sources between [%s,%s) degrees of ROI center -->\n' %(x-step,x))
for n,f,i,r,d,p,s in zip(name,flux,index,ra,dec,pivot,sigma):
dist=angsep(sL.roi[0],sL.roi[1],r,d) #check that source is within ROI radius + 5 degress of ROI center
if (dist<x and dist>=x-step) or (x==sL.roi[2]+5. and dist==x):
fscale=int(floor(log10(f)))
sn=''
for N in n.split(' '):
sn+=N
if sn[0].isdigit():
Name='<source name="_%s" type="PointSource">\n' %sn
else:
Name='<source name="%s" type="PointSource">\n' %sn
spec='\t<spectrum type="PowerLaw">\n'
spec+='\t<!-- Source is %s degrees away from ROI center -->\n' %dist
if(dist>sL.roi[2]): #if beyond ROI, shouldn't attempt to fit parameters
spec+='\t<!-- Source is outside ROI, all parameters should remain fixed -->\n'
spec+='\t\t<parameter free="0" max="1e4" min="1e-4" name="Prefactor" scale="1e%i" value="%s"/>\n' %(fscale,f/10**fscale)
spec+='\t\t<parameter free="0" max="5.0" min="0.0" name="Index" scale="-1.0" value="%s"/>\n' %i
elif(dist>sL.radLim):
spec+='\t<!-- Source is outside specified radius limit of %s -->\n'%sL.radLim
spec+='\t\t<parameter free="0" max="1e4" min="1e-4" name="Prefactor" scale="1e%i" value="%s"/>\n' %(fscale,f/10**fscale)
spec+='\t\t<parameter free="0" max="5.0" min="0.0" name="Index" scale="-1.0" value="%s"/>\n' %i
elif s<signif:
spec+='\t<!-- Source significance %s is less than specified limit of %s -->\n' %(s,signif)
spec+='\t\t<parameter free="0" max="1e4" min="1e-4" name="Prefactor" scale="1e%i" value="%s"/>\n' %(fscale,f/10**fscale)
spec+='\t\t<parameter free="0" max="5.0" min="0.0" name="Index" scale="-1.0" value="%s"/>\n' %i
else:
spec+='\t\t<parameter free="1" max="1e4" min="1e-4" name="Prefactor" scale="1e%i" value="%s"/>\n' %(fscale,f/10**fscale)
spec+='\t\t<parameter free="1" max="5.0" min="0.0" name="Index" scale="-1.0" value="%s"/>\n' %i
spec+='\t\t<parameter free="0" max="5e5" min="30" name="Scale" scale="1.0" value="%f"/>\n' %p
spec+='\t</spectrum>\n'
skydir='\t<spatialModel type="SkyDirFunction">\n'
skydir+='\t\t<parameter free="0" max="360.0" min="-360.0" name="RA" scale="1.0" value="%s"/>\n' %r
skydir+='\t\t<parameter free="0" max="90" min="-90" name="DEC" scale="1.0" value="%s"/>\n' %d
skydir+='\t</spatialModel>\n'
skydir+='</source>'
(src,)=(Name+spec+skydir,)
ptsrc=pS(src).getElementsByTagName('source')[0]
ptsrc.writexml(model)
model.write('\n')
file.close() #close file
#add galactic diffuse with PL spectrum, fix index to zero for general use, those who want it to be free can unfreeze parameter manually
model.write('\n<!-- Diffuse Sources -->\n')
Name='\n<source name="%s" type="DiffuseSource">\n' %GDn
spec='\t<spectrum type="PowerLaw">\n'
spec+='\t\t<parameter free="1" max="10" min="0" name="Prefactor" scale="1" value="1"/>\n'
spec+='\t\t<parameter free="0" max="1" min="-1" name="Index" scale="1.0" value="0"/>\n'
spec+='\t\t<parameter free="0" max="2e2" min="5e1" name="Scale" scale="1.0" value="1e2"/>\n'
spec+='\t</spectrum>\n'
skydir='\t<spatialModel file="%s" type="MapCubeFunction">\n' %GD
skydir+='\t\t<parameter free="0" max="1e3" min="1e-3" name="Normalization" scale="1.0" value="1.0"/>\n'
skydir+='\t</spatialModel>\n'
skydir+='</source>'
(src,)=(Name+spec+skydir,)
galdiff=pS(src).getElementsByTagName('source')[0]
galdiff.writexml(model)
model.write('\n')
if ISO==None: #null means no file so assume user wants an isotropic power law component
Name='<source name="%s" type="DiffuseSource">\n' %ISOn
spec='\t<spectrum type="PowerLaw">\n'
spec+='\t\t<parameter free="1" max="1e3" min="1e-3" name="Prefactor" scale="1e-7" value="1"/>\n'
spec+='\t\t<parameter free="1" max="-1.0" min="-3.5" name="Index" scale="1.0" value="-2.1"/>\n'
spec+='\t\t<parameter free="0" max="2e2" min="5e1" name="Scale" scale="1.0" value="1e2"/>\n'
spec+='\t</spectrum>\n'
else: #if a file is given assume it is an isotropic template
Name='<source name="%s" type="DiffuseSource">\n' %ISOn
spec='\t<spectrum type="FileFunction" file="%s">\n' %ISO
spec+='\t\t<parameter free="1" max="10" min="1e-2" name="Normalization" scale="1" value="1"/>\n'
spec+='\t</spectrum>\n'
#both of the above options use the same spatial model
skydir='\t<spatialModel type="ConstantValue">\n'
skydir+='\t\t<parameter free="0" max="10.0" min="0.0" name="Value" scale="1.0" value="1.0"/>\n'
skydir+='\t</spatialModel>\n'
skydir+='</source>'
(src,)=(Name+spec+skydir,)
iso=pS(src).getElementsByTagName('source')[0]
iso.writexml(model)
model.write('\n</source_library>')
model.close()
return