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build_cubes.pro
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pro build_cubes $
, version=version $
, only=only $
, skip=skip $
, just_array=just_array $
, reset=do_reset $
, copy=do_copy $
, pbcorr=do_pbcorr $
, roundbeam=do_roundbeam $
, singledish=do_singledish $
, stagefeather=do_stage_feather $
, feather=do_copy_feather $
, prepmerge=do_mergeprep $
, stagemerge=do_stagemerge $
, merge=do_merge $
, sanitize=do_sanitize
;+
;
;Scripts to build the imaged data into data cubes suitable for
;analysis. Steps are: copy and primary beam correct, convolve to a
;round beam, align single dish to
;
;-
; DIRECTORIES
root_imaging_dir = '../'
data_dir = 'data_files/'
version_tag = '3.4'
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
; GALAXIES
; ... look up the list of galaxies
readcol, data_dir+'ms_file_key.txt' $
, comment='#', format='A,X,A' $
, ms_file_gal, ms_file_array
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, data_dir+'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', '12m', '12m+7m']
n_array = n_elements(array_list)
fullarray_list = ['7m', '7m+tp', '12m', '12m+tp', '12m+7m', '12m+7m+tp']
n_fullarray = n_elements(fullarray_list)
; PRODUCTS
valid_products = ['co21','c18o21','13co21']
if n_elements(product_list) eq 0 then begin
product_list = ['co21']
endif
n_product = n_elements(product_list)
for ii = 0, n_product-1 do begin
this_product = product_list[ii]
if total(this_product eq valid_products) eq 0 then begin
print, "Illegal product in product list: ", this_product
print, "Stopping."
stop
endif
endfor
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
; RESET THE DIRECTORY STRUCTURE
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
if keyword_set(do_reset) then begin
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'RESETTING RELEASE', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
spawn, 'rm -rf '+release_dir+'raw/'
spawn, 'mkdir '+release_dir+'raw/'
spawn, 'rm -rf '+release_dir+'process/'
spawn, 'mkdir '+release_dir+'process/'
spawn, 'rm -rf '+release_dir+'products/'
spawn, 'mkdir '+release_dir+'products/'
spawn, 'rm -rf '+release_dir+'feather/'
spawn, 'mkdir '+release_dir+'feather/'
spawn, 'rm -rf '+release_dir+'delivery/'
spawn, 'mkdir '+release_dir+'delivery/'
endif
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
; COPY DATA
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
if keyword_set(do_copy) then begin
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'COPYING DATA', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'I am copying the raw data to build a release.', /info
ext_to_copy = $
['_pb.fits' $
, '_residual.fits' $
, '.fits' $
, '_dirty.fits']
n_ext = n_elements(ext_to_copy)
for ii = 0, n_gals-1 do begin
if n_elements(only) gt 0 then $
if total(only eq gals[ii]) eq 0 then continue
if n_elements(skip) gt 0 then $
if total(skip eq gals[ii]) gt 0 then continue
message, '... copying data for '+gals[ii], /info
this_gal = gals[ii]
this_dir = dir_for_gal[ii]
for jj = 0, n_array - 1 do begin
this_array = array_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_copy[ll]
in_file = root_imaging_dir+this_dir+'/'+this_gal+$
'_'+this_array+'_'+this_product+$
this_ext
out_file = release_dir+'raw/.'
test = file_search(in_file, count=found)
if found eq 0 then begin
message, 'File '+in_file+' not found.', /info
continue
endif
spawn, '\cp '+ in_file +' '+ out_file
endfor
endfor
endfor
endfor
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'FINISHED COPYING DATA', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
endif
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
; PRIMARY BEAM CORRECTION
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
if keyword_set(do_pbcorr) then begin
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'PRIMARY BEAM CORRECTION', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
for ii = 0, n_gals-1 do begin
if n_elements(only) gt 0 then $
if total(only eq gals[ii]) eq 0 then continue
if n_elements(skip) gt 0 then $
if total(skip eq gals[ii]) gt 0 then continue
this_gal = gals[ii]
this_dir = dir_for_gal[ii]
message, "Applying primary beam correction for "+this_gal, /info
for jj = 0, n_array - 1 do begin
this_array = array_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]
cube_file = $
release_dir+'raw/'+$
this_gal+'_'+this_array+$
'_'+this_product+'.fits'
test = file_search(cube_file, count=found)
if found eq 0 then begin
message, this_gal+" file "+cube_file+" not found.", /info
continue
endif
flat_cube = readfits(cube_file $
, flat_hdr)
pb_cube = readfits(release_dir+'raw/'+$
this_gal+'_'+this_array+$
'_'+this_product+'_pb.fits' $
, pb_hdr)
; Primary beam correct and blank outside the primary beam
; limit. Determine the primary beam limit from the primary
; beam cube.
pb_limit = min(pb_cube, /nan)
blank_ind = where(pb_cube lt pb_limit)
flat_cube[blank_ind] = !values.f_nan
; Write to the products directory.
sxaddpar, flat_hdr, 'ARRAY', this_array
writefits, release_dir+'process/'+$
this_gal+'_'+this_array+$
'_'+this_product+'_flat.fits' $
, flat_cube, flat_hdr
pbcorr_cube = flat_cube/pb_cube
pbcorr_hdr = flat_hdr
writefits, release_dir+'process/'+$
this_gal+'_'+this_array+$
'_'+this_product+'_pbcorr.fits' $
, pbcorr_cube, pbcorr_hdr
endfor
endfor
endfor
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'FINISHED PRIMARY BEAM CORRECTION', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
endif
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
; ROUND BEAM
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
if keyword_set(do_roundbeam) then begin
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'CONVOLUTION TO ROUND BEAM', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
ext_to_convolve = $
['flat' $
, 'pbcorr']
n_ext = n_elements(ext_to_convolve)
for ii = 0, n_gals-1 do begin
if n_elements(only) gt 0 then $
if total(only eq gals[ii]) eq 0 then continue
if n_elements(skip) gt 0 then $
if total(skip eq gals[ii]) gt 0 then continue
this_gal = gals[ii]
this_dir = dir_for_gal[ii]
message, "Convolving to a round beam for "+this_gal, /info
for jj = 0, n_array - 1 do begin
this_array = array_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]
flat_infile = $
release_dir+'process/'+$
this_gal+'_'+this_array+'_'+$
this_product+'_flat.fits'
test = file_search(flat_infile, count=found)
if found eq 0 then begin
message, 'File '+flat_infile+' not found.', /info
continue
endif
hdr = headfits(flat_infile)
bmaj = sxpar(hdr, 'BMAJ')*3600.
pix = abs(sxpar(hdr,'CDELT1'))
target_bmaj = sqrt(bmaj^2+(pix*2.*3600.)^2)
print, "For "+flat_infile+" and related products, I target:"
print, "BMAJ = ", target_bmaj
for ll = 0, n_ext-1 do begin
this_ext = ext_to_convolve[ll]
this_fname = $
release_dir+'process/'+$
this_gal+'_'+this_array+'_'+$
this_product+'_'+this_ext+'.fits'
test = file_search(this_fname, count=found)
if found eq 0 then begin
message, 'File '+this_fname+' not found.', /info
continue
endif
cube = float(readfits(this_fname, hdr))
print, "convolving "+this_fname
sz = size(cube)
conv_with_gauss $
, data=cube $
, hdr=hdr $
, target =[1,1,0.]*target_bmaj $
, out_data=out_cube $
, out_hdr=out_hdr $
, /perbeam
this_outfile = $
release_dir+'process/'+$
this_gal+'_'+this_array+'_'+$
this_product+'_'+this_ext+'_round.fits'
writefits, this_outfile, out_cube, out_hdr
endfor
endfor
endfor
endfor
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'FINISHED CONVOLUTION TO ROUND BEAM', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
endif
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
; COPY AND TAPER THE TOTAL POWER WITH THE PRIMARY BEAM
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
if keyword_set(do_singledish) then begin
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'COPYING AND PROCESSING TOTAL POWER DATA', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
readcol $
, data_dir+'singledish_key.txt' $
, format='A,A,A', comment='#' $
, sd_gal, sd_fname, sd_product
for ii = 0, n_gals-1 do begin
if n_elements(only) gt 0 then $
if total(only eq gals[ii]) eq 0 then continue
if n_elements(skip) gt 0 then $
if total(skip eq gals[ii]) gt 0 then continue
this_gal = gals[ii]
for kk = 0, n_product-1 do begin
this_product = product_list[kk]
sd_ind = where(sd_gal eq this_gal and $
sd_product eq this_product $
, sd_ct)
if sd_ct eq 0 then begin
message, 'I did not find a single dish key entry for '+ $
this_gal+' '+this_product, /info
continue
endif
message, "Found a single dish file for "+this_gal+' '+this_product, /info
; Copy to the process/ directory
out_file = release_dir+'process/'+this_gal+'_tp_'+this_product+'.fits'
spawn, 'rm -rf '+ out_file
spawn, 'cp '+sd_fname[sd_ind]+' '+out_file
; Make a couple weaks to the file
cube = readfits(out_file, hdr)
sxaddpar, hdr, 'ARRAY', 'TP'
writefits, out_file, cube, hdr
; Make a Kelvin version
jtok = calc_jtok(hdr=hdr)
hdr_k = hdr
sxaddpar, hdr_k, 'JTOK', jtok
cube_k = cube*jtok
sxaddpar, hdr_k, 'BUNIT', 'K'
writefits $
, release_dir+'process/'+this_gal+'_tp_'+this_product+'_k.fits' $
, cube_k, hdr_k
; Now project a version in Jy/beam on to the astrometry of the
; various interferometric cubes.
for jj = 0, n_array - 1 do begin
this_array = array_list[jj]
if n_elements(just_array) gt 0 then $
if total(just_array eq this_array) eq 0 then continue
pb_file = $
release_dir+'raw/'+$
this_gal+'_'+this_array+ $
'_'+this_product+'_pb.fits'
test = file_search(pb_file, count=found)
if found eq 0 then begin
message, this_gal+" file "+pb_file+ $
" not found. Skipping TP alignment and tapering step.", /info
continue
endif
pb_cube = readfits(pb_file, pb_hdr)
cube_hastrom $
, data = cube $
, hdr_in = hdr $
, outcube = aligned_tp $
, outhdr = new_hdr_tp $
, target_hdr = pb_hdr
writefits $
, release_dir+'process/'+ $
this_gal+'_tp_'+this_product+ $
'_aligned_'+this_array+'.fits' $
, aligned_tp, new_hdr_tp
tapered_tp = pb_cube * aligned_tp
writefits $
, release_dir+'process/'+ $
this_gal+'_tp_'+this_product+ $
'_tapered_'+this_array+'.fits' $
, tapered_tp, new_hdr_tp
endfor
endfor
endfor
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'FINISHED COPYING AND PROCESSING TOTAL POWER DATA', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
endif
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
; COPY TO STAGE THE FEATHERING
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
if keyword_set(do_stage_feather) then begin
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'STAGING FEATHER CALL', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
spawn, 'rm -rf '+release_dir+'feather/'
spawn, 'mkdir '+release_dir+'feather/'
in_dir = release_dir+'process/'
out_dir = release_dir+'feather/'
for jj = 0, n_array - 1 do begin
this_array = array_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]
gal_list = []
for ii = 0, n_gals-1 do begin
if n_elements(only) gt 0 then $
if total(only eq gals[ii]) eq 0 then continue
if n_elements(skip) gt 0 then $
if total(skip eq gals[ii]) gt 0 then continue
this_gal = gals[ii]
this_dir = dir_for_gal[ii]
interf_infile = $
release_dir+'process/'+this_gal+'_'+this_array+ $
'_'+this_product+'_flat_round.fits'
test = file_search(interf_infile, count=found)
if found eq 0 then begin
message, 'File '+interf_infile+' not found. Skipping feathering.', /info
continue
endif
tp_infile = $
release_dir+'process/'+this_gal+'_tp_'+ $
this_product+'_tapered_'+this_array+'.fits'
test = file_search(tp_infile, count=found)
if found eq 0 then begin
message, 'File '+tp_infile+' not found. Skipping feathering.', /info
continue
endif
gal_list = [gal_list, this_gal]
spawn, 'cp -r '+interf_infile+' '+release_dir+'feather/.'
spawn, 'cp -r '+tp_infile+' '+release_dir+'feather/.'
endfor
if n_elements(gal_list) eq 0 then $
continue
; Write the feathering script
get_lun, lun
openw, lun, release_dir+'feather/feather_script_'+this_array+'_'+ $
this_product+'.py'
printf, lun, 'gal_list = ['
for ii = 0, n_elements(gal_list)-1 do $
printf, lun, ' "'+gal_list[ii]+'",'
printf, lun, ' ]'
printf, lun,'for gal in gal_list:'
printf, lun,' print "Importing "+gal'
printf, lun,' importfits(fitsimage=gal+"_'+this_array+'_'+this_product+'_flat_round.fits",'
printf, lun,' imagename=gal+"_'+this_array+'_'+this_product+'_flat_round.image",'
printf, lun,' zeroblanks=True, overwrite=True)'
printf, lun,' importfits(fitsimage=gal+"_tp_'+this_product+'_tapered_'+this_array+'.fits",'
printf, lun,' imagename=gal+"_tp_'+this_product+'_tapered_'+this_array+'.image",'
printf, lun,' zeroblanks=True,overwrite=True)'
printf, lun,'for gal in gal_list:'
printf, lun,' print "Feathering "+gal '
printf, lun,' feather(imagename=gal+"_'+this_array+'_'+this_product+'_feathered.image",'
printf, lun,' highres=gal+"_'+this_array+'_'+this_product+'_flat_round.image",'
printf, lun,' lowres=gal+"_tp_'+this_product+'_tapered_'+this_array+'.image")'
printf, lun,'for gal in gal_list:'
printf, lun,' print "Exporting "+gal'
printf, lun,' exportfits(imagename=gal+"_'+this_array+'_'+this_product+'_feathered.image",'
printf, lun,' fitsimage=gal+"_'+this_array+'_'+this_product+'_feathered.fits",'
printf, lun,' velocity=True, dropdeg=True, dropstokes=True,'
printf, lun,' overwrite=True, bitpix=16)'
close, lun
endfor
endfor
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'FINISHED STAGING FEATHER CALL - NOW RUN THE SCRIPT!', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
endif
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
; COPY FEATHERED AND SINGLE DISH DATA INTO THE DIRECTORY
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
if keyword_set(do_copy_feather) then begin
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'COPYING FEATHERED DATA TO PROCESSED DIRECTORY', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
in_dir = release_dir+'feather/'
out_dir = release_dir+'process/'
for ii = 0, n_gals-1 do begin
if n_elements(only) gt 0 then $
if total(only eq gals[ii]) eq 0 then continue
if n_elements(skip) gt 0 then $
if total(skip eq gals[ii]) gt 0 then continue
this_gal = gals[ii]
this_dir = dir_for_gal[ii]
message, 'Copying feathered data for '+this_gal, /info
for jj = 0, n_array - 1 do begin
this_array = array_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]
feathered_infile = $
release_dir+'feather/'+$
this_gal+'_'+this_array+'_'+$
this_product+'_feathered.fits'
test = file_search(feathered_infile, count=found)
if found eq 0 then begin
message, 'File '+feathered_infile+' not found.', /info
continue
endif
cube = readfits(feathered_infile, hdr)
interf_infile = $
release_dir+'process/'+this_gal+'_'+this_array+ $
'_'+this_product+'_flat_round.fits'
interf_cube = readfits(interf_infile, interf_hdr)
blank_ind = where(finite(interf_cube) eq 0 or $
abs(cube - sxpar(hdr,'BLANK')) lt 1d-6, blank_ct)
if blank_ct gt 0 then $
cube[blank_ind] = !values.f_nan
sxaddpar, hdr, 'ARRAY', strupcase(this_array)+'+TP'
writefits, $
out_dir+this_gal+'_'+this_array+'+tp_'+this_product+ $
'_flat_round.fits' $
, cube, hdr
pb_cube = readfits(release_dir+'raw/'+$
this_gal+'_'+this_array+$
'_'+this_product+'_pb.fits' $
, pb_hdr)
cube = cube/pb_cube
writefits, $
out_dir+this_gal+'_'+this_array+'+tp_'+this_product+ $
'_pbcorr_round.fits' $
, cube, hdr
endfor
endfor
endfor
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'FINISHED COPYING FEATHERED DATA.', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
endif
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
; HOMOGENIZE THE RESOLUTION OF MULTI-FIELD CUBES
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
; Loop over all parts of each multi-part cube, read the pixel scale
; and beam size, and then convolve all parts to a common resolution
; for future linear mosaicking. Write the results to disk as an
; intermediate product.
if keyword_set(do_mergeprep) then begin
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'PREPARING MULTI-PART MOSAICS FOR LINEAR MOSAICKING', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, '', /info
message, 'Moving all parts of a galaxy to a common resolution.', /info
message, '', /info
dir = release_dir+'process/'
readcol $
, data_dir+'multipart_fields.txt', format='A,F,F,F,F,I' $
, merge_name, merge_ra, merge_dec, merge_dra, merge_ddec, merge_copy_tp $
, comment='#'
in_dir = release_dir+'process/'
out_dir = release_dir+'process/'
n_merge = n_elements(merge_name)
ext_to_merge = $
['flat_round' $
, 'pbcorr_round' $
]
n_ext = n_elements(ext_to_merge)
tol_for_beam = 1.00
; LOOP OVER MERGING GALAXIES
for ii = 0, n_merge-1 do begin
if n_elements(only) gt 0 then $
if total(only eq merge_name[ii]) eq 0 then continue
if n_elements(skip) gt 0 then $
if total(skip eq merge_name[ii]) gt 0 then continue
this_merge_gal = merge_name[ii]
gal_ind = where(dir_for_gal eq this_merge_gal, n_part)
if n_part lt 2 then begin
message, 'Found less than 2 parts for '+this_merge_gal, /info
continue
endif
; LOOP OVER DATA PRODUCTS
for kk = 0, n_product-1 do begin
this_product = product_list[kk]
; LOOP OVER ARRAYS
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
; LOOP OVER EXTENSIONS
for ll = 0, n_ext-1 do begin
this_ext = ext_to_merge[ll]
; -=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
; LOOP OVER PARTS FOR THIS GALAXY TO GET A COMMON RESOLUTION
; -=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
found = 0B
for mm = 0, n_part-1 do begin
this_gal_part = gals[gal_ind[mm]]
this_infile = $
release_dir+'process/'+ $
this_gal_part+'_'+ $
this_array+'_'+this_product+'_'+$
this_ext+'.fits'
if file_test(this_infile) eq 0 then begin
continue
endif
if found eq 0B then begin
first = 1B
found = 1B
endif else begin
first = 0B
endelse
this_hdr = headfits(this_infile)
this_bmaj = sxpar(this_hdr,'BMAJ')*3600.
this_pix = abs(sxpar(this_hdr,'CDELT1'))*3600.
print, this_infile, " has beam ", this_bmaj, " and pixel ", this_pix
if first then begin
bmaj_list = [this_bmaj]
pix_list = [this_pix]
hdr_list = [this_hdr]
endif else begin
bmaj_list = [bmaj_list, this_bmaj]
pix_list = [pix_list, this_pix]
hdr_list = [hdr_list, this_hdr]
endelse
endfor
if found eq 0B then begin
print, "No data found for this extension plus products. Continuing."
continue
endif
max_bmaj = max(bmaj_list, /nan)
max_pix = max(pix_list, /nan)
print, "Maximum beam size is: ", max_bmaj
target_bmaj = sqrt(max_bmaj^2+(2.0*max_pix)^2)
print, "I will target: ", target_bmaj
; -=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
; CONVOLVE THIS COMMON RESOLUTION
; -=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
for mm = 0, n_part-1 do begin
this_gal_part = gals[gal_ind[mm]]
this_infile = $
release_dir+'process/'+ $
this_gal_part+'_'+ $
this_array+'_'+this_product+'_'+$
this_ext+'.fits'
if file_test(this_infile) eq 0 then begin
continue
endif
this_outfile = $
release_dir+'process/'+ $
this_gal_part+'_'+ $
this_array+'_'+this_product+'_'+$
this_ext+'_tomerge.fits'
this_hdr = headfits(this_infile)
this_bmaj = sxpar(this_hdr,'BMAJ')*3600.
if this_bmaj*tol_for_beam ge target_bmaj then begin
print, "... resolution within specified tolerance of "+str(tol_for_beam)+". I will copy the data."
spawn, 'rm -rf '+this_outfile
spawn, 'cp '+this_infile+' '+this_outfile
endif else begin
print, "... resolution not within specified tolerance. I will convolve the data."
conv_with_gauss $
, data=this_infile $
, target =[1,1,0.]*target_bmaj $
, out_file=this_outfile $
, /perbeam $
, worked=worked
endelse
endfor
endfor
endfor
endfor
endfor
endif
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
; BUILD A COMMON HEADER AND REPROJECT THE CUBES ONTO IT
; &%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%
; Loop over all parts of each multi-part cube, build a target header
; with specifications set by a user input file, and then reproject
; both the cubes and the associated primary beam files onto this
; astrometry. The primary beam will be used as a weight.
if keyword_set(do_stagemerge) then begin
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, 'STAGING MULTI-PART MOSAICS FOR LINEAR MOSAICKING', /info
message, '%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&%&', /info
message, '', /info
message, 'Building a target header and reprojecting onto it.', /info
message, '', /info
dir = release_dir+'process/'
readcol $
, data_dir+'multipart_fields.txt', format='A,F,F,F,F,I' $
, merge_name, merge_ra, merge_dec, merge_dra, merge_ddec, merge_copy_tp $
, comment='#'
in_dir = release_dir+'process/'
out_dir = release_dir+'process/'
n_merge = n_elements(merge_name)
ext_to_merge = $
['flat_round' $
, 'pbcorr_round' $
]
n_ext = n_elements(ext_to_merge)
; LOOP OVER MERGING GALAXIES
for ii = 0, n_merge-1 do begin
if n_elements(only) gt 0 then $
if total(only eq merge_name[ii]) eq 0 then continue
if n_elements(skip) gt 0 then $
if total(skip eq merge_name[ii]) gt 0 then continue
this_merge_gal = merge_name[ii]
gal_ind = where(dir_for_gal eq this_merge_gal, n_part)
if n_part lt 2 then begin
message, 'Found less than 2 parts for '+this_merge_gal, /info
continue
endif
; LOOP OVER DATA PRODUCTS
for kk = 0, n_product-1 do begin
this_product = product_list[kk]
; LOOP OVER ARRAYS
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
array_for_pb = this_array
if array_for_pb eq '7m+tp' then array_for_pb = '7m'
if array_for_pb eq '12m+7m+tp' then array_for_pb = '12m+7m'
; LOOP OVER EXTENSIONS
for ll = 0, n_ext-1 do begin
this_ext = ext_to_merge[ll]
; -=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
; LOOP OVER PARTS FOR THIS GALAXY TO BUILD A TARGET HEADER
; -=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
found = 0B
for mm = 0, n_part-1 do begin
this_gal_part = gals[gal_ind[mm]]
this_infile = $
release_dir+'process/'+ $
this_gal_part+'_'+ $
this_array+'_'+this_product+'_'+$
this_ext+'_tomerge.fits'
if file_test(this_infile) eq 0 then begin
continue
endif
if found eq 0B then begin
first = 1B
found = 1B