surfdens_radial_profile(gal, mom0=mom0,
pa_bounds=Angle([-0.5 * np.pi * u.rad,
0.5 * np.pi * u.rad]),
dr=dr, restfreq=hi_freq)
# There is a ~1.5 global scaling factor b/w Arecibo and VLA + Arecibo
# Not needed with the corrected cube!
# scale_factor = 1.451
scale_factor = 1.0
# Add in creating a radial profile of the archival and the Arecibo
# Also CO? I guess these should be on the same grid/resolution...
# Arecibo
# arecibo_file = arecibo_HI_data_path("14B-088_items/M33_14B-088_HI_model.fits")
arecibo_file = arecibo_HI_data_path("M33only_jy_stokes_vrad.fits")
arecibo_cube = \
SpectralCube.read(arecibo_file)
# Cut down to extents of the other cube
# arecibo_cube = \
# arecibo_cube.subcube(xlo=cube.longitude_extrema[0],
# xhi=cube.longitude_extrema[1],
# yhi=cube.latitude_extrema[0],
# ylo=cube.latitude_extrema[1])
arecibo_mom0 = arecibo_cube.moment0()
rs_arec, sd_arec, sd_sigma_arec = \
surfdens_radial_profile(gal, cube=arecibo_cube, mom0=arecibo_mom0,
dr=dr,
restfreq=hi_freq)
# Archival HI
'''
Sum over all spectra above 3 sigma. Overplot with single-dish Arecibo.
And produce the summed spectra of the rotation subtracted cube.
'''
# You know what's great? Making an install script!
execfile(os.path.expanduser("~/Dropbox/code_development/BaSiCs/basics/utils.py"))
# Needed sig_clip.
cube = \
SpectralCube.read(fourteenB_HI_data_path(cube_name))
mask = fits.open(fourteenB_HI_data_path(mask_name))[0]
cube = cube.with_mask(mask.data > 0)
arecibo = SpectralCube.read(arecibo_HI_data_path("14B-088_items/M33_14B-088_HI_model.fits"))
arecibo = arecibo.spectral_slab(*cube.spectral_extrema)
arecibo = arecibo.subcube(ylo=cube.latitude_extrema[1],
yhi=cube.latitude_extrema[0],
xlo=cube.longitude_extrema[0],
xhi=cube.longitude_extrema[1])
# noise_sigma = sig_clip(cube[-1].value, nsig=10) * u.Jy
# cube = cube.with_mask(cube > 3 * noise_sigma)
# Using sum on two axes of a cube is super slow (and wrong? All NaNs?).
# I'll just loop through each channel to do this
total_spectrum = np.empty((cube.shape[0]))
total_spectrum_arecibo = np.empty((cube.shape[0]))
for chan in ProgressBar(range(cube.shape[0])):