dustem_myisrf_example.pro
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PRO dustem_myisrf_example,model=model $
,sed_file=sed_file $
,isrf_file=isrf_file $
,Nitermax=Nitermax $
,postscript=postscript $
,fits_save_and_restore=fits_save_and_restore $
,wait=wait $
,verbose=verbose $
,help=help
;+
; NAME:
; dustem_fit_myisrf_example
;
; PURPOSE: This routine is an example of how to fit an observational
; SED (StokesI only) with DustEM and DustEMWrap. The objective is to
; illustrate how to use dustem_plugin_modify_isrf and not to do
; science -- the fit obtained by running this example is likely to be
; poor.
;
; For this example, the code uses the SED in the file example_SED_2.xcat,
; which is distributed in the Data/EXAMPLE_OBSDATA/ directory
;
; The example SED has Stokes I photometric data points from
; IRAC, MIPS and IRAS. Examples illustrating running DustEMWrap to
; fit spectral data, polarisation data and extinction data
; are provided in other _example routines in the src/idl/
; directory. See the DustEMWrap User Guide for more information.
;
; CATEGORY:
; DustEMWrap, Distributed, High-Level, User Example
;
; CALLING SEQUENCE:
; dustem_fit_myisrf_example[,model=][,sed_file=][,isrf_file=][,postscript=][,Nitermax=][,fits_save_and_restore=][,/help,/wait,/verbose]
;
; INPUTS:
; sed_file = file in .xcat format containing observational SED
; isrf_file = text file describing ISRF
;
; OPTIONAL INPUT PARAMETERS:
; None
;
; OUTPUTS:
; None
;
; OPTIONAL OUTPUT PARAMETERS:
; Plots, results structure in binary FITS table format
;
; ACCEPTED KEY-WORDS:
; model = specifies the interstellar dust mixture used by DustEM
; 'MC10' model from Compiegne et al 2010
; 'DBP90' model from Desert et al 1990
; 'DL01' model from Draine & Li 2001
; 'WD01_RV5p5B' model from Weingartner & Draine 2002 with Rv=5.5
; 'DL07' model from Draine & Li 2007
; 'J13' model from Jones et al 2013, as updated in
; Koehler et al 2014
; sed_file = string naming the path to text file in .xcat format that
; describes the observational SED. If not set, the file
; 'Data/EXAMPLE_OBSDATA/example_SED_2.xcat' is used.
; postscript = if set, final plot is saved as postscript in the
; current working directory
; Nitermax = maximum number of fit iterations. Default is 5.
; fits_save_and_restore = if set, save the fit results in a binary
; FITS file. The code then restore this file and plots
; the results using the saved results information.
; help = if set, print this help
; wait = if set, wait this many seconds between each step of
; the code (for illustration purposes)
; verbose = if set, subroutines will run in verbose mode
;
; COMMON BLOCKS:
; None
;
; SIDE EFFECTS:
; None
;
; RESTRICTIONS:
; The DustEM fortran code must be installed
; The DustEMWrap IDL code must be installed
;
; PROCEDURES AND SUBROUTINES USED:
;
;
; EXAMPLES
; dustem_fit_stellarpopisrf_example
; dustem_fit_stellarpopisrf_example,Nitermax=1,fits_save_and_restore='/tmp/mysavefile.fits'
; dustem_fit_stellarpopisrf_example,model='DBP90'
;
; MODIFICATION HISTORY:
; Evolution details on the DustEMWrap gitlab.
; See http://dustemwrap.irap.omp.eu/ for FAQ and help.
;-
IF keyword_set(help) THEN BEGIN
doc_library,'dustem_myisrf_example'
goto,the_end
END
IF keyword_set(model) THEN BEGIN
use_model=strupcase(model)
ENDIF ELSE BEGIN
use_model='DL07' ;Default is last dustem model
ENDELSE
use_verbose=0
use_polarization=0 ; initialize Dustemwrap in no polarization mode
use_window=2 ; default graphics window number to use for plotting the results
if keyword_set(verbose) then use_verbose=1
use_Nitermax=5 ; maximum number of iterations for the fit
IF keyword_set(Nitermax) THEN use_Nitermax=Nitermax
dustem_define_la_common
;=== Set the (model-dependent) parameters that you want to fit
;=== Refer to the DustEM and DustEMWrap userguides for an explanation
; of the different grain types
;; ;=== AN EXAMPLE FOR DL07 (or DL01 or WD01_RV5P5B)
;; ;=== Here we fit the PAH abundances of the model, and the amplitude
;; ;=== of a user-supplied ISRF.
;; ;=== The other grain parameters are fixed to their default values.
;; ;=== The free parameters are all lower-bounded at zero.
;; use_model='DL07' ; you should specify this above, or in the command line
pd = [ $
'(*!dustem_params).grains(0).mdust_o_mh',$ ;PAH0 mass fraction
'(*!dustem_params).grains(1).mdust_o_mh',$ ;PAH1 mass fraction
'dustem_plugin_modify_isrf_1', $ ; Ampitude of user-defined ISRF
'dustem_plugin_synchrotron_2'] ;Synchrotron amplitude at 10 mm
iv = [5.4e-4, 5.4e-4,0.1, 0.01]
Npar=n_elements(pd)
ulimed=replicate(0,Npar)
llimed=replicate(1,Npar)
llims=replicate(0.,Npar)
; fpd=['(*!dustem_params).G0']
; fiv=[1.e-10]
if keyword_set(wait) then begin
message,'Finished setting dust model and plug-in parameters: '+use_model,/info
wait,wait
end
dustem_init,model=use_model,polarization=use_polarization
!dustem_nocatch=1
!dustem_verbose=use_verbose
;== Fill a structure with default inputs to the model. This
;== includes the default ISRF, which we want here just for plotting a
;comparison to the ISRF that we construct.
dir_in=!dustem_soft_dir
st_model=dustem_read_all(dir_in)
;=== CREATE A DIFFERENT ISRF AND DUMP TO FILE
if not keyword_set(isrf_file) then begin
mywaves=[]
my_isrf_file='./myisrf_3bb_8000K.dat'
myisrf=dustem_create_rfield([8000,8000,8000],wdil=[1.d-11,1.d-11,1.d-11],isrf=0,fname=my_isrf_file,x=mywaves)
;myisrf=dustem_create_rfield([3500,4000,5500,6500,8000],wdil=[1.d-13,1.d-13,1.d-13,1.d-13,1.d-13],isrf=1,fname='./myisrf_mathis_5bb.dat',x=mywaves)
;myisrf=dustem_create_rfield([3500,4000,5500,6500,8000],wdil=[1.d-13,1.d-13,1.d-13,1.d-13,1.d-13],isrf=2,fname='./myisrf_habing_5bb.dat',x=mywaves)
;myisrf=dustem_create_rfield([3500,4000,5500,6500,8000],wdil=[1.d-13,1.d-13,1.d-13,1.d-13,1.d-13],isrf=0,fname='./myisrf_5bb.dat',x=mywaves)
isrf_file=my_isrf_file
endif
;=== PLOT AS A SANITY CHECK
xtit=textoidl('\lambda (\mum)')
ytit=textoidl('log ISRF [4 \pi I_\nu (erg/cm^2/s/Hz)]')
tit='DUSTEM MYISRF EXAMPLE'
yr=[min(st_model.isrf.isrf) < min(myisrf),5.*(max(st_model.isrf.isrf)>max(myisrf))]
xr=[0.001,1e6]
window,use_window,xs=600,ys=400,tit=tit & use_window=use_window+2
cgplot,st_model.isrf.lambisrf,st_model.isrf.isrf $
,yr=yr,/ysty,xr=xr,/xsty,/xlog,/ylog $
,title=tit,xtit=xtit,ytit=ytit,color=cgcolor('black'),/nodata
oplot,st_model.isrf.lambisrf,st_model.isrf.isrf,col=cgcolor('black'),thick=2
oplot,mywaves,myisrf,col=cgcolor('red'),thick=2
al_legend,/top,/right,clear=0,box=0 $
,['default ISRF','my ISRF'] $
,linsize=0.5,lines=0 $
,color=[cgcolor('black'),cgcolor('red')] $
,thick=2,charsize=1.3
;=== READ THE ISRF
if keyword_set(isrf_file) then !dustem_isrf_file=ptr_new(isrf_file)
;=== READ EXAMPLE SED DATA:
dir=!dustem_wrap_soft_dir+'/Data/EXAMPLE_OBSDATA/'
file=dir+'example_SED_1.xcat'
IF keyword_set(sed_file) THEN file=sed_file
sed=read_xcat(file,/silent)
if keyword_set(wait) then begin
message,'Finished reading SED data: '+file,/info
wait,wait
end
;== SET THE OBSERVATIONAL STRUCTURE
;== sed is passed twice -- the first occurrence is the SED that you
;== wish to fit, the second occurrence is the SED that you wish to visualise.
dustem_set_data,sed,sed
; ;== SET INITIAL VALUES AND LIMITS OF THE PARAMETERS THAT WILL BE
; ;== ADJUSTED DURING THE FIT
dustem_init_params,use_model,pd,iv,fpd=fpd,fiv=fiv,ulimed=ulimed,llimed=llimed,ulims=ulims,llims=llims
if keyword_set(wait) then begin
message,'Finished initializing DustEMWrap, including plugins and fixed parameters',/info
wait,wait
end
;== RUN THE FIT
tol=1.e-16
use_Nitermax=5 ;maximum number of iterations.
IF keyword_set(Nitermax) THEN use_Nitermax=Nitermax
xr = [1.,5e5]
yr = [5e-8,1.00e6]
tit='MYISRF EXAMPLE'
ytit=textoidl('I_\nu (MJy/sr) for N_H=10^{20} H/cm^2')
xtit=textoidl('\lambda (\mum)')
t1=systime(0,/sec)
res=dustem_mpfit_data(tol=tol,Nitermax=use_Nitermax,gtol=gtol $
,/xlog,/ylog,xr=xr,yr=yr,xtit=xtit,ytit=ytit,title=tit $
,legend_xpos=legend_xpos,legend_ypos=legend_ypos $
,errors=errors,chi2=chi2,rchi2=rchi2,show_plot=show_plot)
t2=systime(0,/sec)
if keyword_set(wait) then begin
message,'Finished running DustEMWrap, using Niters: '+strtrim(string(use_Nitermax),2),/info
message,'Time taken [sec]: '+sigfig(t2-t1,2,/sci),/info
wait,wait
end
;=== MAKE THE FINAL PLOT
IF keyword_set(postscript) THEN BEGIN
dir_ps='./'
set_plot,'PS'
ps_file=dir_ps+postscript
device,filename=ps_file,/color
ENDIF
IF !dustem_noobj THEN BEGIN
dustemwrap_plot_noobj,*(*!dustem_fit).CURRENT_PARAM_VALUES,dummy,xr=xr,/xstyle,yr=yr,/ysty,/ylog,/xlog,title=tit+' (Final fit)'
ENDIF ELSE BEGIN
dustemwrap_plot,*(*!dustem_fit).CURRENT_PARAM_VALUES,dummy,xr=xr,/xstyle,yr=yr,/ysty,/ylog,/xlog,title=tit+' (Final fit)'
ENDELSE
IF keyword_set(postscript) THEN BEGIN
set_plot,'X'
device,/close
message,'Wrote '+ps_file,/info
ENDIF
if keyword_set(wait) then begin
message,'Made the plot of the final results',/info
wait,wait
end
IF keyword_set(fits_save_and_restore) THEN BEGIN
message,'Writing out results structure: '+fits_save_and_restore,/info
dustem_write_fits_table,filename=fits_save_and_restore,help=help
;=== At this point, you could erase all dustem system variables, or exit idl... all the
;=== information needed to recover the results and remake the plots has been saved in the FITS table
;stop
dustem_read_fits_table,filename=fits_save_and_restore,dustem_st=dustem_spectra_st
;==== plot result taken from the saved fits table
res=*(*!dustem_fit).CURRENT_PARAM_VALUES
IF !dustem_noobj THEN BEGIN
dustemwrap_plot_noobj,res,dustem_spectra_st,xr=xr,/xstyle,yr=yr,/ysty,/ylog,/xlog,title=tit+' (From Saved FITS file)'
ENDIF ELSE BEGIN
dustemwrap_plot,res,dustem_spectra_st,xr=xr,/xstyle,yr=yr,/ysty,/ylog,/xlog,title=tit+' (From Saved FITS file)'
ENDELSE
IF keyword_set(wait) THEN BEGIN
message,'Saved the results as FITS in the file: '+fits_save_and_restore+', and made a plot using the data in this file',/info
wait,wait
ENDIF
ENDIF
message,'Finished dustem_myisrf_example',/info
the_end:
END