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sdss.py
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#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""
Help: none, you're on your own.
"""
import pylab as P
import numpy as N
import pyfits as F
from db import *
from numpy.ma import masked_where
from math import pi
# CONSTANTS
#
# units:
# velocity: km/s
# wavelength: Angstrom
lambHA=N.array([6562.7797852000003],'Float32')
sol=N.array([299792.458],'Float32')
c=sol
H0=N.array([70.],'Float32')
Grav=N.array([6.6726E-11*1.989E30/1000**3],'Float32') ### in solar masses and km
pc=N.array([3.086E13],'Float32') ## in km
def splitfits(fits):
primHDU=fits[0]
head=primHDU.header
spec=primHDU.data[0,:]
contsubspec=primHDU.data[1,:]
noise=primHDU.data[2,:]
mask=primHDU.data[3,:]
sky=primHDU.data[4,:]
return head,spec,noise
def calcHaW(Ha_cont,Ha_h,Ha_s):
return 2.5066 * Ha_s * Ha_h / Ha_cont
def Ang2KMS(ang,z,restlamb=lambHA):
return ang/(1+z)/restlamb*sol
def Kms2Ang(kms,z,restlamb=lambHA):
return kms*(1+z)*restlamb/sol
def fixSigmaInDB(curs,which='Ha_s',restlamb=lambHA):
query=curs.execute("SELECT objID,%s,z from sdss WHERE (%s NOTNULL) AND (z NOTNULL) "%(which,which))
all=query.fetchall()
for id,sig,z in all:
curs.execute("UPDATE sdss SET %s=%e WHERE (objID=%s)"%(which,Ang2KMS(sig,z,restlamb),id))
print "Dont forget to commit!"
def extcorr(ec,filt):
if filt == 'u': const=0.7156
elif filt == 'g': const=0.5031
elif filt == 'r': const=0.3518
elif filt == 'i': const=0.3013
elif filt == 'z': const=0.2313
else:
print "Unknown filter"
return False
return 2.5*const*ec
def absmag(m,z):
return m-(5*N.log10((z*3E5)/72))-25
def stasinska(x):
return (-30.787 + (1.1358 * x) + (0.27297 * (x**2))) * N.tanh(5.7409 * x) - 31.093
def kauffman(x):
return 0.61/(x-0.05)+1.3
def lee(x):
return 0.61/(x-0.25)+1.25
def mylee(x):
return 0.71/(x-0.25)+1.25
def anna1(x):
return 0.8/x + 1.1
def anna2(x):
return 0.4/x + 1.1
def schechterBlanton(m):
"""
returns the luminosity function on unit magnitudes
as blanton etal http://iopscience.iop.org/1538-3881/121/5/2358/fulltext
fitted it to sdss data
"""
phi0 = 1.46E-2 # +- 0.12E-2; units h^3 / Mpc^3
phi0 *= 0.7**3
M0 = -20.83 # +. 0.03
alpha = -1.20 # +- 0.03
phi = 0.4 * N.log(10) * phi0
phi *= 10**(-0.4*(m-M0)*(alpha+1))
phi *= N.exp(-10**(-0.4*(m-M0)))
return phi
def decideAGN(curs):
ids,x,y,sig=gettable(curs,cols='objid,NII_h/Ha_h,O5008_h/Hb_h,Ha_s',where='(Ha_h >0) AND (Hb_h>0) AND (O5008_h>0) AND (NII_h>0)',table='sdss')
x=N.log10(x.astype('float64'))
y=N.log10(y.astype('float64'))
limit=mylee(x)
createcolumnifnotexists(curs,'agn')
for i,id in enumerate(ids):
#print id,y[i],limit[i]
if (y[i]>limit[i]) or (sig[i] > 250) or (x[i]>0):
curs.execute("UPDATE sdss SET agn=1 WHERE objid=%s"%(id,))
else:
#print x[i],y[i],limit[i],sig[i]
curs.execute("UPDATE sdss SET agn=0 WHERE objid=%s"%(id,))
def fillExtCorrDB(curs):
filters=['u','g','r','i','z']
ec=gettable(curs,'ec','ec NOTNULL')
for filt in filters:
print extcorr(ec,filt)
def fillM(curs):
createcolumnifnotexists(curs,'Mr')
createcolumnifnotexists(curs,'Mg')
ids,m,z=gettable(curs,cols='objid,m_g-ext_g,z',where='m_g NOTNULL AND z NOTNULL',table='sdss')
for i,id in enumerate(ids):
curs.execute("UPDATE sdss SET Mg=%f WHERE objid=%s"%(absmag(m[i],z[i]),id))
ids,m,z=gettable(curs,cols='objid,m_r-ext_r,z',where='m_r NOTNULL AND z NOTNULL',table='sdss')
for i,id in enumerate(ids):
curs.execute("UPDATE sdss SET Mr=%f WHERE objid=%s"%(absmag(m[i],z[i]),id))
def massG(m,ml):
return ml*10**(-0.4*(m-5.48))
def fillMass(curs,table='sbfit',ml='ML'):
createcolumnifnotexists(curs,'mass',table=table)
curs.execute('select f.ID,f.%s,s.f_g,s.ext_g,s.z from sdss s, %s f where s.specObjID=f.ID'%(ml,table))
data=curs.fetchall()
for id,ml,mg,ext,z in data:
curs.execute("UPDATE %s SET mass=%f WHERE ID=%s"%(table,massG(absmag(mg-ext,z),ml),id))
def z2volume(z):
return (4*P.pi/3)*(z*c/72.)**3
def voldens(Mr):
r=10**(0.2*(17.77-Mr+5))
r/=1E6
v=4.0 * P.pi * (r**3) / 3.0
v/=5.13 # SDSS DR7 spectra cover 19% of the sky
v-=z2volume(0.005) # subtract the local volume
return 1/v
def fillVoldens(curs):
createcolumnifnotexists(curs,'voldens')
ids,r,z=gettable(curs,cols='objid,m_r,z',where='m_r NOTNULL AND z NOTNULL',table='sdss')
for i,id in enumerate(ids):
curs.execute("UPDATE sdss SET voldens=%e WHERE objid=%s"%(voldens(absmag(r[i],z[i])),id))
def fadingR(age):
if age<=1E7: return 3.6
if age>1E7 and age<=1E9: return 3.6-(1.6*(N.log10(age)-7))
else: return 0.0
def fillFading(curs):
createcolumnifnotexists(curs,'fade',table='sbfit')
ids,age,z=gettable(curs,cols='ID,Age,z',where='age NOTNULL',table='sbfit')
for i,id in enumerate(ids):
curs.execute("UPDATE sbfit SET fade=%f WHERE ID=%s"%(fadingR(age[i]),id))
def distanceInMeter(z):
dist=(z * c / H0) * 3.0856776e+22
return dist.astype('Float64')
def arcsec2meter(arcsec,z):
D=distanceInMeter(z)
a=N.radians(arcsec/3600.)
return a*D
def arcsec2kpc(arcsec,z):
return arcsec2meter(arcsec,z) / 3.0856776e19
def sfr(Ha_h,Ha_s,z,ec=0,corrFac=1):
# || extra -3 because of w/m^2 vs erg/s/cm^2
return corrFac*Ha_h*1E-20 *Kms2Ang(Ha_s,z)*N.sqrt(2*P.pi) *4*P.pi*distanceInMeter(z)**2 / 1.51e34 * (10**(0.4*extcorr(ec,'r')))
def fillSFR(curs):
createcolumnifnotexists(curs,'sfr',table='sbfit')
data=curs.execute('select f.ID,f.log_Haflux,s.z,s.Ha_h,s.Ha_s from sdss s, sbfit f where s.specObjID=f.ID and s.Ha_h >0 AND s.Ha_s>1 AND f.log_Haflux NOTNULL').fetchall()
for id,Ha_lum,z,Ha_h,Ha_s in data:
curs.execute("UPDATE sbfit SET sfr=%f WHERE ID=%s"%(10**Ha_lum / 1.51e34,id))
def mgas(Mg):
return 10**(-0.3536*Mg+2.6374) + 10**(-0.45*Mg+0.35)
def fillMgas(curs):
createcolumnifnotexists(curs,'mgas')
ids,m_g,z=gettable(curs,cols='objid,f_g,z',where='m_g NOTNULL AND z NOTNULL',table='sdss')
for i,id in enumerate(ids):
curs.execute("UPDATE sdss SET mgas=%f WHERE objid=%s"%(mgas(absmag(m_g[i],z[i])),id))
def fillMtot(curs,table='sbfit'):
createcolumnifnotexists(curs,'mtot',table=table)
data=curs.execute('select f.id,f.mass,s.mgas from %s f, sdss s where f.ID=s.specObjID'%table).fetchall()
for id,mass,mgas in data:
curs.execute("UPDATE %s SET mtot=%f WHERE ID=%s"%(table,mgas+mass,id))
def fillBpara2(curs):
createcolumnifnotexists(curs,'bpara2',table='sbfit')
ids,mass,sfr=gettable(curs,cols='ID,mass,sfr',where='mass NOTNULL AND sfr NOTNULL',table='sbfit')
for i,id in enumerate(ids):
curs.execute("UPDATE sbfit SET bpara2=%f WHERE ID=%s"%(sfr[i]/(mass[i]/1E10),id))
def lumfu(X,M,voldens):
y=N.zeros(len(X),dtype='Float64')
for i,x in enumerate(X):
y[i] = N.sum(N.where(M<x,voldens,0.0))
y[1:] = (y[1:] - y[:-1]) #/ (x[0:] - x[:-1])
return y
def averbins(X,orgX,Y,median=True):
mean=N.zeros(len(X),dtype='Float64')
#median=mean.copy()
#sigma=mean.copy()
for i,x in enumerate(X):
tmp=masked_where(orgX<x,Y)
if i<len(X)-1: tmp=masked_where(orgX>=X[i+1],tmp)
print i,x,tmp
if median: mean[i]=N.ma.median(tmp)
else: mean[i]=tmp.mean()
#median[i]=N.median(tmp)
#sigma[i]=tmp.std()
return mean
def corr_sigma_instr(sigma,instrument_sigma=70):
result = N.sqrt(sigma**2 - instrument_sigma**2)
return N.where(N.isnan(result), 0.0, result)
def dynMassDisk(r,sigma):
'r in kpc, sigma in km/s, returns solar masses'
return 7.9E5 * r * corr_sigma_instr(sigma)**2
def dynMassSphere(r,sigma):
'r in kpc, sigma in km/s, returns solar masses'
return 1.1E6 * r * corr_sigma_instr(sigma)**2
def fillDynMasses(curs):
createcolumnifnotexists(curs,'dynMassDisk')
createcolumnifnotexists(curs,'dynMassSphere')
ids,r50,r90,z,sig = gettable(curs,cols='objid,petroR50_r,petroR90_r,z,Ha_s',where='z NOTNULL AND Ha_s NOTNULL',table='sdss')
ms = dynMassSphere(arcsec2kpc(r50,z),sig)
md = dynMassDisk(arcsec2kpc(r90,z),sig)
for i,id in enumerate(ids):
curs.execute("UPDATE sdss SET dynMassDisk=%s, dynMassSphere=%s WHERE objid=%s"%(md[i],ms[i],id))
def fillBpara3(curs):
createcolumnifnotexists(curs,'bpara3',table='sbfit')
data=curs.execute('select f.ID,f.sfr,s.dynMassDisk,s.dynMassSphere from sbfit f, sdss s where f.ID=s.specObjID and f.sfr NOTNULL').fetchall()
for id,sfr,m1,m2 in data:
m=(m1+m2)/2.0
try: b = sfr/(m/1E10)
except: b='NULL'
curs.execute("UPDATE sbfit SET bpara3=%s WHERE ID=%s"%(b,id))
def demo():
print "This file defines some functions. It is not meant to be executed. Import it instead!"
if __name__ == '__main__':
demo()