makecube.generate_header(49.209553,-0.277137,naxis1=308,naxis2=205,pixsize=15,naxis3=int(naxis3),cd3=cd3,crval3=crval3,clobber=True,
restfreq=linefreq, author='Adam Ginsburg')
cubename = '/Users/adam/work/h2co/maps/w51/W51_%slpha_cube_supersampled' % linename
makecube.make_blank_images(cubename,clobber=True)
for date in ('0910','0911','0912','0915',):
fn = '/Users/adam/observations/arecibo/2012{date}/W51_{line}_spectra_{date}.fits'.format(line=linename,date=date)
if not os.path.exists(fn):
fn = '/Users/adam/observations/arecibo/20120910/W51_{line}_spectra_{date}.fits'.format(line=linename,date=date)
log.info(" ".join([str(x) for x in (fn, velocityrange, linename, linefreq)]))
if os.path.exists(fn):
makecube.add_file_to_cube(fn,
cubename+'.fits',
add_with_kernel=True,
kernel_fwhm=20./3600.,
nhits=cubename+'_nhits.fits',
velocityrange=velocityrange,
excludefitrange=[vmin,vmax],
linefreq=linefreq,
progressbar=True,
chmod=True) # security risk, but too many files!
else:
raise IOError("Did not find file {0}".format(fn))
flat_vrange = [20,100]
if os.path.exists(cubename+".fits"):
makecube.runscript(cubename)
makecube.make_flats(cubename,vrange=flat_vrange,noisevrange=[-50,-1])
#makecube.make_flats(cubename,vrange=flat_vrange,noisevrange=[-50,-1],suffix='.fits')
else:
'15B_129_1_77to134_D1_5_F1.fits',
'15B_129_1_149to194_D1_5_F1.fits',
'15B_129_1_196to242_D1_5_F1.fits',
'15B_129_1_248to305_D1_5_F1.fits',
'15B_129_1_306to352_D1_5_F1.fits',
'15B_129_1_19to76_D2_5_F1.fits',
'15B_129_1_77to134_D2_5_F1.fits',
'15B_129_1_149to194_D2_5_F1.fits',
'15B_129_1_196to242_D2_5_F1.fits',
'15B_129_1_248to305_D2_5_F1.fits',
'15B_129_1_306to352_D2_5_F1.fits',
)
]
for fn in files:
makecube.add_file_to_cube(fn,
cubename+'.fits',nhits=cubename+'_nhits.fits',
chmod=True,
add_with_kernel=True,
kernel_fwhm=20./3600.,
velocityrange=[-200,200],
excludefitrange=[-25,150],
diagnostic_plot_name=fn.replace('.fits','_data_scrubbed.png'),
progressbar=True
)
#os.system(os.path.join(outpath,'CMZ_East_H2CO22_cube_starlink.sh'))
makecube.make_flats(cubename,vrange=[-20,60],noisevrange=[250,300])
#cd3 = 1.0 # Arecibo is limited to 0.64 because one of the receivers went bad at hi-res mode once
#naxis3 = int(np.ceil((velocityrange[1]-velocityrange[0])/cd3))+4 # +4 is BAD! don't do that.
naxis3 = int((velocityrange[1]-velocityrange[0]) / cd3) + 1 # +1 is good: include -50
crval3 = 50.0
# dumb debug stuff
vels = crval3+cd3*(np.arange(naxis3)+1-naxis3/2-1)
# this will probably cause an error but I must insist..
#if velocityrange[0]<=vels.min() or velocityrange[1]>=vels.max():
# raise ValueError("Add more points. Something's going to be out of range for stupid star stupid link")
makecube.generate_header(49.209553, -0.277137, naxis1=192, naxis2=128,
pixsize=24, naxis3=naxis3, cd3=cd3, crval3=crval3,
clobber=True, restfreq=14.488479e9)
makecube.make_blank_images(cubename_lores,clobber=True)
for fn in [filename]:
print "Adding file %s" % fn
fullfn = fn
makecube.add_file_to_cube(fullfn,
cubename_lores+".fits",
add_with_kernel=True,
kernel_fwhm=50./3600.,
nhits=cubename_lores+"_nhits.fits",
diagnostic_plot_name=fullfn.replace('.fits','_data_scrubbed.png'),
velocityrange=velocityrange,excludefitrange=[40,75],noisecut=1.0)
# more aggressive noisecut
makecube.runscript(cubename_lores)
makecube.make_flats(cubename_lores,vrange=[45,75],noisevrange=[-15,30])
makecube.make_taucube(cubename_lores,cubename_lores+"_continuum.fits",etamb=0.886)
for obsrun in scanranges
for scan1, scan2 in scanranges[obsrun]
for x in [
os.path.join(
outpath, fntemplate.format(scan1, scan2, samplers[ii], sampler_feeds[samplers[ii][0]], obsrun=obsrun)
)
for ii in range(len(samplers))
]
]
iterator = makecube.freq_iterator if ctype3 == "FREQ" else makecube.velo_iterator
for fn in files:
makecube.add_file_to_cube(
fn,
cubename + ".fits",
nhits=cubename + "_nhits.fits",
add_with_kernel=True,
chmod=True,
velo_iterator=iterator,
kernel_fwhm=20.0 / 3600.0,
default_unit=u.Unit(cunit3),
progressbar=True,
linefreq=restfreq,
flatheader=cubename + "flatheader.txt",
cubeheader=cubename + "cubeheader.txt",
)
if ctype3 == "VRAD":
makecube.make_flats(cubename, vrange=[-20, 80], noisevrange=[150, 200])
makecube.make_blank_images(cubename,clobber=True)
#makecube.make_blank_images(cubename_discrete,clobber=True)
files = [outpath+'12B_221_6to21_A13_F1.fits',
outpath+'12B_221_6to21_A9_F1.fits',
# there was one noisy scan, so the whole damned thing gets commented out
#outpath+'12B_221_22to32_A13_F1.fits',
#outpath+'12B_221_22to32_A9_F1.fits',
]
for fn in files:
makecube.add_file_to_cube(fn,
cubename+'.fits', nhits=cubename+'_nhits.fits',
wcstype='V',
chmod=True,
add_with_kernel=True,
kernel_fwhm=90./3600.,
velocityrange=[-400, 400],
excludefitrange=[-225, 250],
diagnostic_plot_name=fn.replace('.fits','_data_scrubbed.png'),
smoothto=2)
fstr = outpath+'12B_221_{0}to{1}_{2}_F1.fits'
cn_fmt = cubename+"_{0}_sr{1}-{2}"
for sr in ([6,21],[22,32]):
for sampler in ('A9','A13'):
cn = cn_fmt.format(sampler,sr[0],sr[1])
fn = fstr.format(sr[0],sr[1],sampler)
makecube.make_blank_images(cn,clobber=True)
makecube.add_file_to_cube(fn,
cn+'.fits',nhits=cn+'_nhits.fits',wcstype='V',
add_with_kernel=True,
files = [
"W51_h213coW_spectra_0910.fits",
"W51_h213coW_spectra_0911.fits",
"W51_h213coW_spectra_0912.fits",
"W51_h213coW_spectra_0915.fits",
]
for fn in files:
fullfn = fix_TDIM_in_header(prefix + fn)
makecube.add_file_to_cube(
fullfn,
cubename_supersampled + ".fits",
add_with_kernel=True,
kernel_fwhm=20.0 / 3600.0,
nhits=cubename_supersampled + "_nhits.fits",
diagnostic_plot_name=fullfn.replace(".fits", "_data_scrubbed.png"),
velocityrange=velocityrange,
excludefitrange=[vmin, vmax],
linefreq=linefreq,
)
flat_vrange = [45, 75]
makecube.runscript(cubename_supersampled)
makecube.make_flats(cubename_supersampled, vrange=flat_vrange, noisevrange=[-50, -1])
makecube.make_taucube(
cubename_supersampled, continuum=cubename_supersampled + "_continuum.fits", linefreq=linefreq
) # etamb accounted for already , etamb=0.51)
makecube.make_flats(
cubename_supersampled.replace("cube", "taucube"), vrange=flat_vrange, noisevrange=[-50, -1], suffix=".fits"
ra,dec = W.wcs_pix2sky(x,y,0)
yield ra,dec
def velo_iterator(data,linefreq=None, **kwargs):
for x,y in zip(xinds.ravel(),yinds.ravel()):
yield wavel
if prefilter:
fn = filter(fn)
# this is where all the magic happens
# add_with_kernel adds each pixel as a gaussian instead of just doing
# nearest-neighbor interpolation
# this will avoid empty stripes
makecube.add_file_to_cube(fn,
cubefilename,
flatheader='flat.hdr',
cubeheader='cube.hdr',
nhits=nhitsfilename,
data_iterator=data_iterator,
coord_iterator=coord_iterator,
velo_iterator=velo_iterator,
allow_smooth=False,
progressbar=True,
add_with_kernel=True,
kernel_fwhm=1.0/3600.,
default_unit=u.um,
debug=1)
print "Completed file %s" % fn
for fn in filelist+filelist2:
log.info("Adding file %s" % fn)
fullfn = '/Users/adam/observations/gbt/W51map/'+fn
d = pyfits.getdata(fullfn)
pl.clf()
pl.imshow(d['DATA'],norm=asinh_norm.AsinhNorm())
pl.savefig(fullfn.replace(".fits","_data.png"))
pl.clf()
dsub = d['DATA']-np.median(d['DATA'],axis=1)[:,None]
pl.imshow(dsub)
pl.savefig(fullfn.replace(".fits","_data_subbed.png"))
makecube.add_file_to_cube(fullfn,
cubename_lores_supersampled+".fits",
add_with_kernel=True,
kernel_fwhm=20./3600.,
nhits=cubename_lores_supersampled+"_nhits.fits",
diagnostic_plot_name=fullfn.replace('.fits','_data_scrubbed.png'),
velocityrange=velocityrange,excludefitrange=[40,75],noisecut=np.inf,
continuum_prefix=cubename_lores_supersampled+fn.replace(".fits",''),
progressbar=True,
chmod=True,
linefreq=linefreq,
negative_mean_cut=-1)
makecube.runscript(cubename_lores_supersampled)
makecube.make_flats(cubename_lores_supersampled, vrange=[45,75],
noisevrange=[-15,30])
makecube.make_taucube(cubename_lores_supersampled,
cubename_lores_supersampled+"_continuum.fits",
etamb=0.886, linefreq=linefreq*u.Hz, tex=0)
'14A_110_04_6to32_A13_F2.fits',
'14A_110_04_32to72_A9_F1.fits',
'14A_110_04_32to72_A13_F2.fits',
'14A_110_04_73to99_A9_F1.fits',
'14A_110_04_73to99_A13_F2.fits',
'14A_110_04_99to113_A9_F1.fits',
'14A_110_04_99to113_A13_F2.fits',
]
]
for fn in files:
makecube.add_file_to_cube(fn,
cubename+'.fits',nhits=cubename+'_nhits.fits',
chmod=True,
add_with_kernel=True,
kernel_fwhm=10./3600.,
velocityrange=[-250,250],
excludefitrange=[0,50],
diagnostic_plot_name=fn.replace('.fits','_data_scrubbed.png'),
smoothto=2)
os.system(os.path.join(outpath,'LimaBean_H2CO33_cube_starlink.sh'))
makecube.make_flats(cubename,vrange=[-20,60],noisevrange=[150,200])
sampler_feeds = {'A10': 1,
'A14': 2,
'B17': 1,
'B18': 1,
'B21': 2,
naxis1=192,
naxis2=128,
pixsize=24,
naxis3=naxis3,
cd3=cd3,
crval3=crval3,
clobber=True,
restfreq=14.488479e9)
makecube.make_blank_images(cubename_lores, clobber=True)
for fn in [filename]:
print "Adding file %s" % fn
fullfn = fn
makecube.add_file_to_cube(fullfn,
cubename_lores + ".fits",
add_with_kernel=True,
kernel_fwhm=50. / 3600.,
nhits=cubename_lores + "_nhits.fits",
diagnostic_plot_name=fullfn.replace(
'.fits', '_data_scrubbed.png'),
velocityrange=velocityrange,
excludefitrange=[40, 75],
noisecut=1.0)
# more aggressive noisecut
makecube.runscript(cubename_lores)
makecube.make_flats(cubename_lores, vrange=[45, 75], noisevrange=[-15, 30])
makecube.make_taucube(cubename_lores,
cubename_lores + "_continuum.fits",
etamb=0.886)
crval3=crval3, clobber=True,
restfreq=linefreq, author='Adam Ginsburg')
makecube.make_blank_images(cubename_supersampled,clobber=True)
files = ['W51_h2coW_spectra_0910.fits',
'W51_h2coW_spectra_0911.fits',
'W51_h2coW_spectra_0912.fits',
'W51_h2coW_spectra_0915.fits',
]
for fn in files:
fullfn = fix_TDIM_in_header(prefix+fn)
makecube.add_file_to_cube(fullfn,
cubename_supersampled+'.fits',
add_with_kernel=True,
kernel_fwhm=20./3600.,
nhits=cubename_supersampled+'_nhits.fits',
diagnostic_plot_name=fullfn.replace('.fits','_data_scrubbed.png'),
velocityrange=velocityrange,excludefitrange=[vmin,vmax],linefreq=linefreq)
flat_vrange = [45,75]
makecube.runscript(cubename_supersampled)
makecube.make_flats(cubename_supersampled,vrange=flat_vrange,noisevrange=[-50,-1])
makecube.make_taucube(cubename_supersampled,
continuum=cubename_supersampled+"_continuum.fits",
linefreq=linefreq, tex=0) # etamb accounted for already , etamb=0.51)
makecube.make_flats(cubename_supersampled.replace("cube","taucube"),
vrange=flat_vrange,noisevrange=[-50,-1],suffix='.fits')
