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build_products_7m.pro
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pro build_products_7m $
, version=version $
, only=only $
, skip=skip $
, start_with=start_with $
, stop_at=stop_at $
, just_array=just_array $
, clear_convolve=do_clear_convolve $
, convolve=do_conv_to_res $
, prelim=do_prelim $
, noise=do_noise $
, mask=do_masks $
, hybrid=do_hybrid $
, collapse=do_collapse $
, highlevel=do_highlevel $
, target_res=target_res
;+
;
; Scripts to build the data cubes into maps and products for release.
;
;-
; THRESHOLDS FOR MOMENT CREATION
mom1_thresh = 2.5d
mom0_thresh = 3.0d
; DIRECTORIES
root_imaging_dir = '../'
if n_elements(version) eq 0 then $
version = '3'
if version eq '3' then begin
vstring = 'v3'
release_dir = root_imaging_dir+'release/'+vstring+'/'
endif else begin
print, "Version not recognized. Returning."
return
endelse
; SAMPLE TABLE
sample_version_string = '1.2'
sample_tab_file = 'phangs_sample_table_v1p2.fits'
sample_tab = mrdfits(sample_tab_file, 1, h)
; GALAXIES
; ... look up the list of galaxies
readcol, 'ms_file_key.txt', comment='#', format='A,X,A' $
, ms_file_gal, ms_file_array, /silent
gals = ms_file_gal[sort(ms_file_gal)]
gals = gals[uniq(gals)]
n_gals = n_elements(gals)
; ... look up the cases with nonstandard directory names
readcol, 'dir_key.txt', comment='#', format='A,A' $
, dir_key_gal, dir_key_dir
dir_for_gal = gals
for ii = 0, n_elements(dir_key_gal)-1 do begin
ind = where(dir_key_gal[ii] eq gals, ct)
if ct eq 0 then continue
dir_for_gal[ind] = (dir_key_dir[ii])
endfor
fullgal_list = [dir_for_gal, gals]
fullgal_list = fullgal_list[sort(fullgal_list)]
fullgal_list = fullgal_list[uniq(fullgal_list)]
n_fullgals = n_elements(fullgal_list)
gal_for_fullgals = fullgal_list
for ii = 0, n_elements(dir_key_gal)-1 do begin
ind = where(dir_key_gal[ii] eq fullgal_list, ct)
if ct eq 0 then continue
gal_for_fullgals[ind] = (dir_key_dir[ii])
endfor
; ARRAYS
array_list = ['7m']
n_array = n_elements(array_list)
fullarray_list = ['7m', '7m+tp']
n_fullarray = n_elements(fullarray_list)
; PRODUCTS
product_list = ['co21']
n_product = n_elements(product_list)
; RESOLUTIONS
if n_elements(target_res) eq 0 then begin
target_res = [-1, 60, 90, 120, 150, 500, 750, 1000, 1250]
endif
n_res = n_elements(target_res)
; PRELIMINARY RESOLUTION FOR MASKING
prelim_res = 1250
; LOW RESOLUTION STRING FOR USE IN BROAD MASKS
lowres_string = '1250pc'
; TUNING PARAMETERS FOR THE VELOCITY FIELD
vfield_reject_thresh = 30.
mom0_thresh_for_mom1 = 2.0
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
; IF REQUESTED, WIPE PREVIOUS VERSIONS OF THE CONVOLUTION
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
if keyword_set(do_clear_convolve) then begin
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'REMOVING PREVIOUS VERSIONS OF THE CONVOLUTION', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
dir = release_dir+'process/'
tol = 0.1
s = gal_data(gal_for_fullgals)
ext_to_process = $
['flat_round_k' $
, 'pbcorr_round_k']
n_ext = n_elements(ext_to_process)
first = 0B
last = 0B
for ii = 0, n_fullgals-1 do begin
if n_elements(only) gt 0 then $
if total(only eq fullgal_list[ii]) eq 0 then continue
if n_elements(skip) gt 0 then $
if total(skip eq fullgal_list[ii]) gt 0 then continue
this_gal = fullgal_list[ii]
if n_elements(start_with) gt 0 then begin
if this_gal eq start_with then first = 1B
if first eq 0 then continue
endif
if n_elements(stop_at) gt 0 then begin
if this_gal eq stop_at then last = 1B
if last eq 1B then continue
endif
message, "Wiping convolved cubes for "+this_gal, /info
for jj = 0, n_fullarray - 1 do begin
this_array = fullarray_list[jj]
if n_elements(just_array) gt 0 then $
if total(just_array eq this_array) eq 0 then continue
flist = file_search(release_dir+'process/'+ $
this_gal+'_'+this_array+'_*pc.fits' $
, count=fct)
if fct eq 0 then continue
for kk = 0, fct-1 do begin
command = 'rm -rf '+flist[kk]
print, command
spawn, command
endfor
endfor
endfor
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'DONE CLEARING PREVIOUS CONVOLUTIONS', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
endif
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
; CONVOLVE TO SPECIFIC RESOLUTION
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
if keyword_set(do_conv_to_res) then begin
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'CONVOLVING TO FIXED PHYSICAL RESOLUTION', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
dir = release_dir+'process/'
tol = 0.1
s = gal_data(gal_for_fullgals)
ext_to_process = $
['flat_round_k' $
, 'pbcorr_round_k']
n_ext = n_elements(ext_to_process)
first = 0B
last = 0B
for ii = 0, n_fullgals-1 do begin
if n_elements(only) gt 0 then $
if total(only eq fullgal_list[ii]) eq 0 then continue
if n_elements(skip) gt 0 then $
if total(skip eq fullgal_list[ii]) gt 0 then continue
this_gal = fullgal_list[ii]
sample_ind = where(s[ii].pgc eq sample_tab.pgc, sample_ct)
if sample_ct eq 0 then begin
print, "Galaxy not found in sample file. Stopping."
endif
adopted_distance = sample_tab[sample_ind].dist
if n_elements(start_with) gt 0 then begin
if this_gal eq start_with then first = 1B
if first eq 0 then continue
endif
if n_elements(stop_at) gt 0 then begin
if this_gal eq stop_at then last = 1B
if last eq 1B then continue
endif
message, "Convolving the cubes for "+this_gal, /info
for jj = 0, n_fullarray - 1 do begin
this_array = fullarray_list[jj]
if n_elements(just_array) gt 0 then $
if total(just_array eq this_array) eq 0 then continue
for kk = 0, n_product-1 do begin
this_product = product_list[kk]
for ll = 0, n_ext-1 do begin
this_ext = ext_to_process[ll]
in_file = release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+'_'+this_ext+'.fits'
test = file_search(in_file, count=found)
if found eq 0 then begin
message, 'File '+in_file+' not found.', /info
continue
endif
cube = readfits(in_file, hdr)
sxaddpar, hdr, 'SAMPVER', sample_version_string
sxaddpar, hdr, 'SAMPTAB', sample_tab_file
sxaddpar, hdr, 'DIST', adopted_distance, 'MPC / USED IN CONVOLUTION'
current_res_pc = adopted_distance*!dtor*sxpar(hdr, 'BMAJ')*1d6
for zz = 0, n_res -1 do begin
res_str = strcompress(str(target_res[zz]),/rem)+'pc'
out_file = release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+'_'+this_ext+'_'+res_str+'.fits'
target_res_as = target_res[zz]/(adopted_distance*1d6)/!dtor*3600.d
if current_res_pc gt (1.0+tol)*target_res[zz] then begin
print, strupcase(this_gal)+": Resolution too coarse. Skipping."
continue
endif
if abs(current_res_pc - target_res[zz])/target_res[zz] lt tol then begin
print, strupcase(this_gal)+": I will call ", current_res_pc, " ", target_res[zz]
writefits, out_file, cube, hdr
endif else begin
print, strupcase(this_gal)+": I will convolve ", current_res_pc $
, " to ", target_res[zz]
conv_with_gauss $
, data=cube $
, hdr=hdr $
, target_beam=target_res_as*[1,1,0] $
, out_file=out_file
endelse
endfor
endfor
endfor
endfor
endfor
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'CONVOLVING TO FIXED PHYSICAL RESOLUTION', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
endif
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
; GENERATE A LOW RESOLUTION MASK FROM THE FLAT CUBE
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
if keyword_set(do_prelim) then begin
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'PRELIMINARY MASK', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
ext_to_process = $
['flat_round_k']
n_ext = n_elements(ext_to_process)
first = 0B
last = 0B
for ii = 0, n_fullgals-1 do begin
if n_elements(only) gt 0 then $
if total(only eq fullgal_list[ii]) eq 0 then continue
if n_elements(skip) gt 0 then $
if total(skip eq fullgal_list[ii]) gt 0 then continue
this_gal = fullgal_list[ii]
if n_elements(start_with) gt 0 then begin
if this_gal eq start_with then first = 1B
if first eq 0 then continue
endif
if n_elements(stop_at) gt 0 then begin
if this_gal eq stop_at then last = 1B
if last eq 1B then continue
endif
message, "A low res initial mask for "+this_gal, /info
for jj = 0, n_fullarray - 1 do begin
this_array = fullarray_list[jj]
if n_elements(just_array) gt 0 then $
if total(just_array eq this_array) eq 0 then continue
for kk = 0, n_product-1 do begin
this_product = product_list[kk]
for ll = 0, n_ext-1 do begin
this_ext = ext_to_process[ll]
res_str = '_'+strcompress(str(prelim_res),/rem)+'pc'
print, "Resolution "+res_str
in_file = release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+'_'+this_ext+res_str+'.fits'
test = file_search(in_file, count=found)
if found eq 0 then begin
message, 'File '+in_file+' not found.', /info
continue
endif
cube = readfits(in_file, cube_hdr)
make_noise_cube $
, cube_in = cube $
, out_cube = rms $
, /zero_only $
, /show $
, /iterate
ppbeam = calc_pixperbeam(hdr=cube_hdr)
make_cprops_mask $
, indata=cube $
, inrms = rms $
, lo_thresh = 2 $
, hi_thresh = 3.5 $
, hi_nchan = 3 $
, min_area = ppbeam $
, outmask=prelim_mask
out_file = $
release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
'prelim_mask.fits'
writefits, out_file, prelim_mask, cube_hdr
endfor
endfor
endfor
endfor
endif
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
; ESTIMATE THE NOISE FOR EACH CUBE
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
if keyword_set(do_noise) then begin
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'ESTIMATE NOISE', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
ext_to_process = $
['flat_round_k']
n_ext = n_elements(ext_to_process)
first = 0B
last = 0B
for ii = 0, n_fullgals-1 do begin
if n_elements(only) gt 0 then $
if total(only eq fullgal_list[ii]) eq 0 then continue
if n_elements(skip) gt 0 then $
if total(skip eq fullgal_list[ii]) gt 0 then continue
this_gal = fullgal_list[ii]
if n_elements(start_with) gt 0 then begin
if this_gal eq start_with then first = 1B
if first eq 0 then continue
endif
if n_elements(stop_at) gt 0 then begin
if this_gal eq stop_at then last = 1B
if last eq 1B then continue
endif
message, "Estimating noise for for "+this_gal, /info
for jj = 0, n_fullarray - 1 do begin
this_array = fullarray_list[jj]
if n_elements(just_array) gt 0 then $
if total(just_array eq this_array) eq 0 then continue
prelim_mask_file = $
release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
'prelim_mask.fits'
for kk = 0, n_product-1 do begin
this_product = product_list[kk]
for ll = 0, n_ext-1 do begin
this_ext = ext_to_process[ll]
for zz = 0, n_res -1 do begin
if target_res[zz] eq -1 then begin
res_str = ''
print, "Native resolution."
endif else begin
res_str = '_'+strcompress(str(target_res[zz]),/rem)+'pc'
print, "Resolution "+res_str
endelse
in_file = release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+'_'+this_ext+res_str+'.fits'
test = file_search(in_file, count=found)
if found eq 0 then begin
message, 'File '+in_file+' not found.', /info
continue
endif
cube = readfits(in_file, hdr)
if file_test(prelim_mask_file) then begin
prelim_mask = readfits(prelim_mask_file)
endif else begin
prelim_mask = finite(cube) eq 0
endelse
print, in_file
make_noise_cube $
, cube_in = cube $
, out_cube = rms_cube $
, mask_in = prelim_mask $
, box=11, spec_box=5 $
;, twod_only, box=5 $
;, /oned_only, spec_box=2 $
, /show $
, /iterate
out_file = $
release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+'_'+'noise_'+ $
this_ext+res_str+'.fits'
writefits, out_file, rms_cube, cube_hdr
endfor
endfor
endfor
endfor
endfor
endif
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
; BUILD MASKS HOLDING BRIGHT SIGNAL AT EACH RESOLUTION
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
if keyword_set(do_masks) then begin
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'BUILD MASKS', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
first = 0B
last = 0B
for ii = 0, n_fullgals-1 do begin
if n_elements(only) gt 0 then $
if total(only eq fullgal_list[ii]) eq 0 then continue
if n_elements(skip) gt 0 then $
if total(skip eq fullgal_list[ii]) gt 0 then continue
this_gal = fullgal_list[ii]
if n_elements(start_with) gt 0 then begin
if this_gal eq start_with then first = 1B
if first eq 0 then continue
endif
if n_elements(stop_at) gt 0 then begin
if this_gal eq stop_at then last = 1B
if last eq 1B then continue
endif
message, "Estimating noise for for "+this_gal, /info
for jj = 0, n_fullarray - 1 do begin
this_array = fullarray_list[jj]
if n_elements(just_array) gt 0 then $
if total(just_array eq this_array) eq 0 then continue
for kk = 0, n_product-1 do begin
this_product = product_list[kk]
for zz = 0, n_res -1 do begin
if target_res[zz] eq -1 then begin
res_str = ''
print, "Native resolution."
endif else begin
res_str = '_'+strcompress(str(target_res[zz]),/rem)+'pc'
print, "Resolution "+res_str
endelse
noise_file = $
release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+'_'+'noise_flat_round_k'+ $
res_str+'.fits'
test = file_search(noise_file, count=found)
if found eq 0 then begin
message, 'File '+noise_file+' not found.', /info
continue
endif
rms_cube = readfits(noise_file, noise_hdr)
cube_file = $
release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+'_flat_round_k'+ $
res_str+'.fits'
test = file_search(cube_file, count=found)
if found eq 0 then begin
message, 'File '+cube_file+' not found.', /info
continue
endif
cube = readfits(cube_file, cube_hdr)
ppbeam = calc_pixperbeam(hdr=cube_hdr)
make_cprops_mask $
, indata=cube $
, inrms = rms_cube $
, lo_thresh = 2 $
, hi_thresh = 3.5 $
, hi_nchan = 3 $
, min_area = ppbeam $
, outmask=mask
!p.multi=[0,2,1]
viridis
disp, max(cube, dim=3, /nan)
contour, max(mask, dim=3), lev=[1], /overplot
disp, max(cube, dim=2, /nan)
contour, max(mask, dim=2), lev=[1], /overplot
mask_hdr = cube_hdr
sxaddpar, mask_hdr, 'BUNIT', 'MASK'
out_file = $
release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+'_signalmask'+ $
res_str+'.fits'
writefits, out_file $
, mask, mask_hdr
endfor
endfor
endfor
endfor
endif
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
; HYBRIDIZE THE MASKS
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
if keyword_set(do_hybrid) then begin
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'HYBRIDIZE MASKS', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
first = 0B
last = 0B
for ii = 0, n_fullgals-1 do begin
if n_elements(only) gt 0 then $
if total(only eq fullgal_list[ii]) eq 0 then continue
if n_elements(skip) gt 0 then $
if total(skip eq fullgal_list[ii]) gt 0 then continue
this_gal = fullgal_list[ii]
if n_elements(start_with) gt 0 then begin
if this_gal eq start_with then first = 1B
if first eq 0 then continue
endif
if n_elements(stop_at) gt 0 then begin
if this_gal eq stop_at then last = 1B
if last eq 1B then continue
endif
message, "Creating hybrid (cross scale) masks for for "+this_gal, /info
for jj = 0, n_fullarray - 1 do begin
this_array = fullarray_list[jj]
if n_elements(just_array) gt 0 then $
if total(just_array eq this_array) eq 0 then continue
for kk = 0, n_product-1 do begin
this_product = product_list[kk]
lores_fname = $
release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+ $
'_signalmask_'+lowres_string+'.fits'
test = file_search(lores_fname, count=found)
if found eq 0 then begin
message, 'File '+lores_fname+' not found.', /info
continue
endif
mask_lores = readfits(lores_fname)
for zz = 0, n_res -1 do begin
if target_res[zz] eq -1 then begin
res_str = ''
print, "Native resolution."
endif else begin
res_str = '_'+strcompress(str(target_res[zz]),/rem)+'pc'
print, "Resolution "+res_str
endelse
hires_fname = $
release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+'_signalmask'+ $
res_str+'.fits'
test = file_search(hires_fname, count=found)
if found eq 0 then begin
message, 'File '+hires_fname+' not found.', /info
continue
endif
mask_hires = readfits(hires_fname, mask_hdr)
hybrid = mask_hires or mask_lores
hybrid_fname= $
release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+'_hybridmask'+ $
res_str+'.fits'
writefits, hybrid_fname $
, hybrid, mask_hdr
endfor
endfor
endfor
endfor
endif
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
; COLLAPSE INTO A SIMPLE SET OF MOMENT MAPS
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
if keyword_set(do_collapse) then begin
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'COLLAPSE INTO MOMENTS USING SIMPLE TECHNIQUES', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
dir = release_dir+'process/'
first = 0B
last = 0B
for ii = 0, n_fullgals-1 do begin
if n_elements(only) gt 0 then $
if total(only eq fullgal_list[ii]) eq 0 then continue
if n_elements(skip) gt 0 then $
if total(skip eq fullgal_list[ii]) gt 0 then continue
this_gal = fullgal_list[ii]
if n_elements(start_with) gt 0 then begin
if this_gal eq start_with then first = 1B
if first eq 0 then continue
endif
if n_elements(stop_at) gt 0 then begin
if this_gal eq stop_at then last = 1B
if last eq 1B then continue
endif
message, "Making moments for "+this_gal, /info
for jj = 0, n_fullarray - 1 do begin
this_array = fullarray_list[jj]
if n_elements(just_array) gt 0 then $
if total(just_array eq this_array) eq 0 then continue
for kk = 0, n_product-1 do begin
this_product = product_list[kk]
for zz = 0, n_res -1 do begin
if target_res[zz] eq -1 then begin
res_str = ''
print, "Native resolution."
endif else begin
res_str = '_'+strcompress(str(target_res[zz]),/rem)+'pc'
print, "Resolution "+res_str
endelse
; Read the noise. Note that this is constructed in the "flat" cube to
; make masking easier, so we need to correct for that. We will do this
; inelegantly by dividing the flat and pbcorr cube at the appropriate
; resolution to construct a correction factor.
; REPLACE THIS WITH THE PRIMARY BEAM CORRECTED VERSION WHEN AVAILABLE
noise_file = $
release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+'_'+'noise_flat_round_k'+ $
res_str+'.fits'
test = file_search(noise_file, count=found)
if found eq 0 then begin
message, 'File '+noise_file+' not found.', /info
continue
endif
rms_cube = readfits(noise_file, noise_hdr)
; Read the cube itself.
cube_file = $
release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+'_pbcorr_round_k'+ $
res_str+'.fits'
test = file_search(cube_file, count=found)
if found eq 0 then begin
message, 'File '+cube_file+' not found.', /info
continue
endif
cube = readfits(cube_file, cube_hdr)
cube_file = $
release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+'_pbcorr_round_k'+ $
res_str+'.fits'
; Now read the mask appropriate for this resolution. For this step, we
; use only the signalmask and construct simple moments.
mask_file = $
release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+'_signalmask'+ $
res_str+'.fits'
test = file_search(mask_file, count=found)
if found eq 0 then begin
message, 'File '+mask_file+' not found.', /info
continue
endif
mask = readfits(mask_file, mask_hdr)
; Blank regions of the moment map with no coverage. This is different
; than zeros, which indicate a region covered but not in the mask.
blank_ind = where(total(finite(cube),3) eq 0)
; Calculate moments.
; For the moment 0, moment 1, and the equivalent width, grow the mask
; by two channels (5 km/s) along the velocity axis.
mom0_mask = $
grow_mask(mask, iters=2, /z_only)
collapse_cube $
, cube=cube $
, hdr=cube_hdr $
, mask=mom0_mask $
, noise=rms_cube $
, mom0 = mom0 $
, e_mom0 = e_mom0 $
, mom1 = mom1 $
, e_mom1 = e_mom1 $
, ew = ew $
, e_ew = e_ew $
, tpeak = tpeak
mom0_hdr = twod_head(cube_hdr)
sxaddpar, mom0_hdr, 'BUNIT', 'K*KM/S'
mom0[blank_ind] = !values.f_nan
mom0_fname = $
release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+'_strict_mom0'+ $
res_str+'.fits'
writefits, mom0_fname, mom0, mom0_hdr
emom0_fname = $
release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+'_strict_emom0'+ $
res_str+'.fits'
writefits, emom0_fname, e_mom0, mom0_hdr
ew_hdr = twod_head(cube_hdr)
sxaddpar, ew_hdr, 'BUNIT', 'KM/S'
ew[blank_ind] = !values.f_nan
ew_fname = $
release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+'_strict_ew'+ $
res_str+'.fits'
writefits, ew_fname, ew, ew_hdr
eew_fname = $
release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+'_strict_eew'+ $
res_str+'.fits'
writefits, eew_fname, e_ew, ew_hdr
; For the moment 2 map use the signal-only version of the cube (i.e.,
; no extension along the velocity axis). Also produce peak-to-edge
; measurements that can be used to correct the line width.
collapse_cube $
, cube=cube $
, hdr=cube_hdr $
, mask=mask $
, noise=rms_cube $
, mom1 = mom1 $
, e_mom1 = e_mom1 $
, mom2 = mom2 $
, e_mom2 = e_mom2 $
, tpeak = tpeak $
, tmin = tmin $
, vquad = vquad $
, e_vquad = e_vquad $
, vpeak = vpeak
peak_to_edge = tpeak/tmin
mom2_fname = $
release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+'_strict_mom2'+ $
res_str+'.fits'
mom2_hdr = twod_head(cube_hdr)
sxaddpar, mom2_hdr, 'BUNIT', 'KM/S'
mom2[blank_ind] = !values.f_nan
writefits, mom2_fname, mom2, mom2_hdr
p2e_fname = $
release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+'_strict_p2e'+ $
res_str+'.fits'
p2e_hdr = twod_head(cube_hdr)
sxaddpar, p2e_hdr, 'BUNIT', 'NONE'
peak_to_edge[blank_ind] = !values.f_nan
writefits, p2e_fname, peak_to_edge, p2e_hdr
mom1_hdr = twod_head(cube_hdr)
sxaddpar, mom1_hdr, 'BUNIT', 'KM/S'
mom1[blank_ind] = !values.f_nan
mom1_fname = $
release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+'_strict_mom1'+ $
res_str+'.fits'
writefits, mom1_fname, mom1, mom1_hdr
emom1_fname = $
release_dir+'process/'+ $
this_gal+'_'+this_array+'_'+ $
this_product+'_strict_emom1'+ $
res_str+'.fits'
writefits, emom1_fname, e_mom1, mom1_hdr
vpeak_hdr = twod_head(cube_hdr)