dustem_check_data.pro
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PRO dustem_check_data,data_sed,data_ext,sed,ext,polext,polsed,polfrac,psi_em,qsed,used,qext,uext,psi_ext,fpolext
;WRITE HELP SECTION . URGENT
;NOTA BENE: LargeP has not been debiasied yet.
;+
; NAME:
; dustem_set_data
; PURPOSE:
; ## adapting the data structures to the format used by the fitting algorithm
; Initializes the dustem data structure (!dustem_data) used in the fitting
; Initializes the !dustem_show structure which is either a copy or a more detailed version of !dustem_data
; CATEGORY:
; Dustem
; CALLING SEQUENCE:
; dustem_check_data,data_sed,data_ext,sed,ext,polext,polsed,polfrac,psi_em,qsed,used,qext,uext,psi_ext,fpolext,[/help]
; INPUTS:
; data_sed : Emission dustemwrap structure
; data_ext : Extinction dustemwrap structure
; OPTIONAL INPUT PARAMETERS:
; None
; OUTPUTS:
; ## adapting the data structures to the format used by the fitting algorithm
; sed : emission formatted structure
; ext : extinction formatted structure
; polext : polarized extinction formatted structure
; polsed : polarized emission formatted structure
; polfrac : fractional polarized emission formatted structure
; psi_em : emission polarization angle formatted structure
; qsed : stokesQ emission formatted structure
; used : stokesU emission formatted structure
; qext : stokesQ extinction formatted structure
; uext : stokesU extinction formatted structure
; psi_ext : extinction polarization angle formatted structure
; fpolext : fractional extinction polarization formatted structure
; OPTIONAL OUTPUT PARAMETERS:
; None
; ACCEPTED KEY-WORDS:
; help = If set print this help
; COMMON BLOCKS:
; None
; SIDE EFFECTS:
; Structures
; RESTRICTIONS:
; The dustem idl wrapper must be installed
; PROCEDURE:
; None
; EXAMPLES
; dustem_check_data,data_sed,data_ext,sed,ext,polext,polsed,polfrac,psi_em,qsed,used,qext,uext,psi_ext,fpolext,[/help]
;-
IF keyword_set(help) THEN BEGIN
doc_library,'dustem_check_data'
goto,the_end
ENDIF
;stop
;CHECKING THE FORMAT OF THE SED STRUCTURE
IF KEYWORD_SET(data_sed) THEN BEGIN
ans=''
wavs=data_sed.wave
;=== Impose central wavelengths for photometric channels
ind=where(data_sed.filter NE 'SPECTRUM',count)
IF count NE 0 THEN BEGIN
wavs(ind)=dustem_filter2wav(data_sed(ind).filter)
ENDIF
;=== Initializing observation structure
obs_EM={instru_names:data_sed.instru,filt_names:data_sed.filter,wav:wavs, values:data_sed.StokesI,sigma:sqrt(abs(data_sed.sigmaII))}
;INITIALIZING OUTPUT STRUCTURES
sed = obs_EM
qsed = sed
used = sed
;Test if there is StokesI data. If not move to polsed testing.
ind = where(data_sed.StokesI NE la_undef() and finite(data_sed.StokesI) EQ 1 and data_sed.sigmaII NE la_undef() and finite(data_sed.sigmaII) EQ 1,N_sed) ;Testing if the data and errors are set
IF N_sed EQ 0 THEN BEGIN
sed = ptr_new()
goto, qzone
ENDIF ELSE BEGIN
ind = where(finite(data_sed.StokesI) EQ 0 or finite(data_sed.sigmaII) EQ 0, countnoki) ;Format is not okay if there are nan values but the wrapper recognizes the la_undef() value
IF countnoki NE 0 THEN BEGIN
message, "SED format isn't met. NaN value(s) detected in StokesI data.",/continue
message, 'Without automatic format fitering you cannot proceed.',/continue
;stop
read, ans, prompt='Would you like automatic format filtering? (Y/N):'
IF strupcase(ans) EQ 'N' THEN BEGIN
message,'You have chosen not to use automatic filtering. Please adjust the SED format.',/continue
message, 'Aborting ...'
ENDIF
ENDIF
IF strupcase(ans) EQ 'Y' THEN message, 'You have chosen automatic format filtering. Removal of undefined data points...',/continue $
ELSE message, 'Data format is met. Removal of undefined data points...',/continue
tdaerri=where((data_sed.sigmaII EQ la_undef() and data_sed.StokesI NE la_undef()) or (data_sed.sigmaII NE la_undef() and data_sed.StokesI EQ la_undef()),ctdaerri)
IF ctdaerri NE 0 THEN BEGIN
message, 'Data and errors do not match. Undefinded data detected. Aborting...',/continue
ENDIF
testi=where(data_sed.sigmaII NE 0. and finite(data_sed.sigmaII) EQ 1 and data_sed.sigmaII NE la_undef() and data_sed.StokesI NE la_undef() and finite(data_sed.StokesI) EQ 1,ctesti)
IF ctesti NE 0 THEN BEGIN
instru_names = sed.instru_names(testi)
filt_names = sed.filt_names(testi)
wav = sed.wav(testi)
values = sed.values(testi)
sigma = sed.sigma(testi)
sed={instru_names:instru_names,filt_names:filt_names,wav:wav,values:values,sigma:sigma}
ENDIF
ENDELSE
qzone:
ans=''
qsed.values=data_sed.StokesQ
qsed.sigma=sqrt(abs(data_sed.sigmaQQ))
;Testig if there is StokesQ data. If not move to used data
ind = where(data_sed.StokesQ NE la_undef() and finite(data_sed.StokesQ) EQ 1 and data_sed.sigmaQQ NE la_undef() and finite(data_sed.sigmaQQ) EQ 1,NQ)
IF NQ EQ 0 THEN BEGIN
qsed = ptr_new()
goto, uzone
ENDIF ELSE BEGIN
ind = where(finite(data_sed.StokesQ) EQ 0 or finite(data_sed.sigmaQQ) EQ 0, countnokq) ;Format is not okay if there are nan values but the wrapper recognizes the la_undef() value
IF countnokq NE 0 THEN BEGIN
message, "SED format isn't met. NaN value(s) detected in StokesQ data.",/continue
message, 'Without automatic format fitering you cannot proceed.',/continue
read, ans, prompt='Would you like automatic format filtering? (Y/N):'
IF strupcase(ans) EQ 'N' THEN BEGIN
message,'You have chosen not to use automatic filtering. Please adjust the SED format.',/continue
message, 'Aborting ...'
ENDIF
ENDIF
IF strupcase(ans) EQ 'Y' THEN message, 'You have chosen automatic format filtering. Removal of undefined data points...',/continue $
ELSE message, 'Data format is met. Removal of undefined data points...',/continue
tdaerrq=where((data_sed.sigmaQQ EQ la_undef() and data_sed.StokesQ NE la_undef()) or (data_sed.sigmaQQ NE la_undef() and data_sed.StokesQ EQ la_undef()),ctdaerrq)
IF ctdaerrq NE 0 THEN BEGIN
message, 'Data and errors in Stokes Q do not match. Undefinded data detected for these filters:',/continue
print,data_sed[tdaerrq].filter
;message, 'Data and errors do not match. Undefinded data detected. Aborting...',/continue
stop
ENDIF
testq=where(data_sed.sigmaQQ NE 0. and finite(data_sed.sigmaQQ) EQ 1 and data_sed.sigmaQQ NE la_undef() and data_sed.StokesQ NE la_undef() and finite(data_sed.StokesQ) EQ 1,ctestq)
IF ctestq NE 0 THEN BEGIN
instru_names = qsed.instru_names(testq)
filt_names = qsed.filt_names(testq)
wav = qsed.wav(testq)
values = qsed.values(testq)
sigma = qsed.sigma(testq)
qsed={instru_names:instru_names,filt_names:filt_names,wav:wav,values:values,sigma:sigma}
ENDIF
ENDELSE
uzone:
ans=''
used.values=data_sed.StokesU
used.sigma=sqrt(abs(data_sed.sigmaUU))
;Testig if there is StokesU data. If not return empty value and end loop.
ind = where(data_sed.StokesU NE la_undef() and finite(data_sed.StokesU) EQ 1 and data_sed.sigmaUU NE la_undef() and finite(data_sed.sigmaUU) EQ 1,NU)
IF NU EQ 0 THEN BEGIN
used = ptr_new()
goto, psiemzone
ENDIF ELSE BEGIN
ind = where(finite(data_sed.StokesU) EQ 0 or finite(data_sed.sigmaUU) EQ 0, countnoku) ;Format is not okay if there are nan values but the wrapper recognizes the la_undef() value
IF countnoku NE 0 THEN BEGIN
message, "SED format isn't met. NaN value(s) detected in StokesU data.",/continue
message, 'Without automatic format fitering you cannot proceed.',/continue
read, ans, prompt='Would you like automatic format filtering? (Y/N):'
IF strupcase(ans) EQ 'N' THEN BEGIN
message,'You have chosen not to use automatic filtering. Please adjust the SED format.',/continue
message, 'Aborting ...'
ENDIF
ENDIF
IF strupcase(ans) EQ 'Y' THEN message, 'You have chosen automatic format filtering. Removal of undefined data points...',/continue $
ELSE message, 'Data format is met. Removal of undefined data points...',/continue
tdaerru=where((data_sed.sigmaUU EQ la_undef() and data_sed.StokesU NE la_undef()) or (data_sed.sigmaUU NE la_undef() and data_sed.StokesU EQ la_undef()),ctdaerru)
IF ctdaerru NE 0 THEN BEGIN
message, 'Data and errors in Stokes U do not match. Undefinded data detected for these filters:',/continue
print,data_sed[tdaerru].filter
stop
ENDIF
testu=where(data_sed.sigmaUU NE 0. and finite(data_sed.sigmaUU) EQ 1 and data_sed.sigmaUU NE la_undef() and data_sed.StokesU NE la_undef() and finite(data_sed.StokesU) EQ 1,ctestu)
IF ctestu NE 0 THEN BEGIN
instru_names = used.instru_names(testu)
filt_names = used.filt_names(testu)
wav = used.wav(testu)
values = used.values(testu)
sigma = used.sigma(testu)
used={instru_names:instru_names,filt_names:filt_names,wav:wav,values:values,sigma:sigma}
ENDIF
ENDELSE
psiemzone:
if nu eq 0 and nq eq 0 then goto, end_sed
degtorad = !pi/180
;Generation of POLFRAC,POLSED and PSI data by default
;Testing on the presence of covariances otherwise an error is returned
;The testing happens here because covariances are needed for the error estimation of P,p and PSI.
tstcovu = where((data_sed(testu).sigmaIU) EQ la_undef() or (data_sed(testu).sigmaQU) EQ la_undef(), ctcovu)
if ctcovu NE 0 then BEGIN
;message, 'Covariance data is missing in StokesU data. Data, errors and covariances do not match. Aborting...',/continue
message, 'IU or QU Covariance data is missing in StokesU data. Data, errors and covariances do not match for the following filters.',/continue
print,data_sed[testu[tstcovu]].filter
stop
ENDIF
tstcovq = where((data_sed(testq).sigmaIQ) EQ la_undef() or (data_sed(testq).sigmaQU) EQ la_undef(), ctcovq)
if ctcovq NE 0 then BEGIN
message, 'IQ or QU Covariance data is missing in StokesQ data. Data, errors and covariances do not match for the following filters.',/continue
print,data_sed[testq[tstcovq]].filter
stop
ENDIF
;Matching both filter and spectrum points
match2,used.wav,qsed.wav,qpts,upts
;removing -1 values from the indices (qpts & upts)
indnotq = where(qpts eq -1, cnotq)
if cnotq ne 0 then remove, indnotq, qpts
indnotu = where(upts eq -1, cnotu)
if cnotu ne 0 then remove, indnotu, upts
match2, sed.wav, qsed.wav(qpts), qtmp, sedpts
indnoti = where(sedpts eq -1, cnoti)
if cnoti ne 0 then remove, indnoti, sedpts
instru_names = used.instru_names(upts)
filt_names = used.filt_names(upts)
wav = used.wav(upts)
values = 0.5*atan(used.values(upts),qsed.values(qpts))/degtorad
polar_variance_iqu2ippsi,sed.values(sedpts),qsed.values(qpts),used.values(upts),(data_sed(testi).sigmaII)(sedpts),(data_sed(testq).sigmaQQ)(qpts),(data_sed(testu).sigmaUU)(upts),(data_sed(testi).sigmaIQ)(sedpts),(data_sed(testi).sigmaIU)(sedpts),(data_sed(testi).sigmaQU)(sedpts),variance_smallp,variance_psi,variance_largep
sigma = sqrt(variance_psi)
psi_em={instru_names:instru_names,filt_names:filt_names,wav:wav,values:values,sigma:sigma}
polsed = psi_em
polsed.values = sqrt(used.values(upts)^2+qsed.values(qpts)^2)
polsed.sigma = sqrt(variance_largep)
polfrac = psi_em
polfrac.values = polsed.values/sed.values(sedpts)
polfrac.sigma = sqrt(variance_smallp)
goto, end_sed
end_sed:
ENDIF
;EXTINCTION HASN'T BEEN TREATED YET
;SMALLL ISSUE .. POLEXTFRAC is not present. Let's create it for completness
IF KEYWORD_SET(data_ext) THEN begin
ans=''
wavs=data_ext.wave
;=== Impose central wavelengths for photometric channels
ind=where(data_ext.filter NE 'SPECTRUM',count)
IF count NE 0 THEN BEGIN
wavs(ind)=dustem_filter2wav(data_ext(ind).filter)
ENDIF
;=== define observations structure
obs_EXT={instru_names:data_ext.instru,filt_names:data_ext.filter,wav:wavs, values:data_ext.EXT_I,sigma:sqrt(abs(data_ext.sigextII))}
;INITIALIZING OUTPUT STRUCTURES
ext = obs_EXT
qext = ext
uext = ext
ind = where(data_ext.EXT_I NE la_undef() and finite(data_ext.EXT_I) EQ 1 and data_ext.sigextII NE la_undef() and finite(data_ext.sigextII) EQ 1,N_ext) ;Testing if the data and errors are set
IF N_ext EQ 0 THEN BEGIN
ext = ptr_new()
goto, qexzone
ENDIF ELSE BEGIN
ind = where(finite(data_ext.EXT_I) EQ 0 or finite(data_ext.sigextII) EQ 0, countnokex) ;Format is not okay if there are nan values but the wrapper recognizes the la_undef() value
IF countnokex NE 0 THEN BEGIN
message, "SED format isn't met. NaN value(s) detected in EXT_I data.",/continue
message, 'Without automatic format fitering you cannot proceed.',/continue
ans=''
read, ans, prompt='Would you like automatic format filtering? (Y/N):'
IF strupcase(ans) EQ 'N' THEN BEGIN
message,'You have chosen not to use automatic filtering. Please adjust the SED format.',/continue
message, 'Aborting ...'
ENDIF
ENDIF
IF strupcase(ans) EQ 'Y' THEN message, 'You have chosen automatic format filtering. Removal of undefined data points...',/continue $
ELSE message, 'Data format is met. Removal of undefined data points...',/continue
tdaerrex=where((data_ext.sigextII EQ la_undef() and data_ext.EXT_I NE la_undef()) or (data_ext.sigextII NE la_undef() and data_ext.EXT_I EQ la_undef()),ctdaerrex)
IF ctdaerrex NE 0 THEN message, 'Data and errors do not match. Undefinded data detected. Aborting...'
testex=where(data_ext.sigextII NE 0. and finite(data_ext.sigextII) EQ 1 and data_ext.sigextII NE la_undef() and data_ext.EXT_I NE la_undef() and finite(data_ext.EXT_I) EQ 1,ctestex)
IF ctestex NE 0 THEN BEGIN
instru_names = ext.instru_names(testex)
filt_names = ext.filt_names(testex)
wav = ext.wav(testex)
values = ext.values(testex)
sigma = ext.sigma(testex)
ext={instru_names:instru_names,filt_names:filt_names,wav:wav,values:values,sigma:sigma}
ENDIF
ENDELSE
qexzone:
ans=''
qext.values=data_ext.EXT_Q
qext.sigma=sqrt(abs(data_ext.sigextQQ))
;Testig if there is EXT_P data. If not move to EXT_U testing
ind = where(data_ext.EXT_Q NE la_undef() and finite(data_ext.EXT_Q) EQ 1 and data_ext.sigextQQ NE la_undef() and finite(data_ext.sigextQQ) EQ 1,NQ_ext) ;Testing if the data and errors are set
;dustem_set_data.prostop
IF NQ_ext EQ 0 THEN BEGIN
qext = ptr_new()
goto, uexzone
ENDIF ELSE BEGIN
ind = where(finite(data_ext.EXT_Q) EQ 0 or finite(data_ext.sigextQQ) EQ 0, countnokqex) ;Format is not okay if there are nan values but the wrapper recognizes the la_undef() value
IF countnokqex NE 0 THEN BEGIN
message, "SED format isn't met. NaN value(s) detected in EXT_Q data.",/continue
message, 'Without automatic format fitering you cannot proceed.',/continue
ans=''
read, ans, prompt='Would you like automatic format filtering? (Y/N):'
IF strupcase(ans) EQ 'N' THEN BEGIN
message,'You have chosen not to use automatic filtering. Please adjust the SED format.',/continue
message, 'Aborting ...'
ENDIF
ENDIF
IF strupcase(ans) EQ 'Y' THEN message, 'You have chosen automatic format filtering. Removal of undefined data points...',/continue $
ELSE message, 'Data format is met. Removal of undefined data points...',/continue
tdaerrqex=where((data_ext.sigextQQ EQ la_undef() and data_ext.EXT_Q NE la_undef()) or (data_ext.sigextQQ NE la_undef() and data_ext.EXT_Q EQ la_undef()),ctdaerrqex)
IF ctdaerrqex NE 0 THEN message, 'Data and errors do not match. Undefinded data detected. Aborting...'
testqex=where(data_ext.sigextQQ NE 0. and finite(data_ext.sigextQQ) EQ 1 and data_ext.sigextQQ NE la_undef() and data_ext.EXT_Q NE la_undef() and finite(data_ext.EXT_Q) EQ 1,ctestqex)
IF ctestqex NE 0 THEN BEGIN
instru_names = qext.instru_names(testqex)
filt_names = qext.filt_names(testqex)
wav = qext.wav(testqex)
values = qext.values(testqex)
sigma = qext.sigma(testqex)
qext={instru_names:instru_names,filt_names:filt_names,wav:wav,values:values,sigma:sigma}
ENDIF
ENDELSE
uexzone:
ans=''
uext.values=data_ext.EXT_U
uext.sigma=sqrt(abs(data_ext.sigextUU))
;Testig if there is EXT_P data. If not return empty value and end loop.
ind = where(data_ext.EXT_U NE la_undef() and finite(data_ext.EXT_U) EQ 1 and data_ext.sigextUU NE la_undef() and finite(data_ext.sigextUU) EQ 1,NU_ext) ;Testing if the data and errors are set
IF NU_ext EQ 0 THEN BEGIN
uext = ptr_new()
goto, psiexzone
ENDIF ELSE BEGIN
ind = where(finite(data_ext.EXT_U) EQ 0 or finite(data_ext.sigextUU) EQ 0, countnokuex) ;Format is not okay if there are nan values but the wrapper recognizes the la_undef() value
IF countnokuex NE 0 THEN BEGIN
message, "SED format isn't met. NaN value(s) detected in EXT_U data.",/continue
message, 'Without automatic format fitering you cannot proceed.',/continue
ans=''
read, ans, prompt='Would you like automatic format filtering? (Y/N):'
IF strupcase(ans) EQ 'N' THEN BEGIN
message,'You have chosen not to use automatic filtering. Please adjust the SED format.',/continue
message, 'Aborting ...'
ENDIF
ENDIF
IF strupcase(ans) EQ 'Y' THEN message, 'You have chosen automatic format filtering. Removal of undefined data points...',/continue $
ELSE message, 'Data format is met. Removal of undefined data points...',/continue
tdaerruex=where((data_ext.sigextUU EQ la_undef() and data_ext.EXT_U NE la_undef()) or (data_ext.sigextUU NE la_undef() and data_ext.EXT_U EQ la_undef()),ctdaerruex)
IF ctdaerruex NE 0 THEN message, 'Data and errors do not match. Undefinded data detected. Aborting...'
testuex=where(data_ext.sigextUU NE 0. and finite(data_ext.sigextUU) EQ 1 and data_ext.sigextUU NE la_undef() and data_ext.EXT_U NE la_undef() and finite(data_ext.EXT_U) EQ 1,ctestuex)
IF ctestuex NE 0 THEN BEGIN
instru_names = uext.instru_names(testuex)
filt_names = uext.filt_names(testuex)
wav = uext.wav(testuex)
values = uext.values(testuex)
sigma = uext.sigma(testuex)
uext={instru_names:instru_names,filt_names:filt_names,wav:wav,values:values,sigma:sigma}
ENDIF
ENDELSE
psiexzone: ;Starting the analogy here.
if NU_EXT eq 0 and NQ_EXT eq 0 then goto, end_ext
degtorad = !pi/180
;Generation of POLEXT and PSI_EXT data by default
;Testing on the presence of covariances otherwise an error is returned
;The testing happens here because covariances are needed for the error estimation of EXT_P,PSI_EXT.
tstcovuex = where((data_ext(testuex).sigextIU) EQ la_undef() or (data_ext(testuex).sigextQU) EQ la_undef(), ctcovuex)
if ctcovuex NE 0 then message, 'Covariance data is missing in the extinction data pertaining to the StokesU parameter. Data, errors and covariances do not match. Aborting...'
tstcovqex = where((data_ext(testqex).sigextIQ) EQ la_undef() or (data_ext(testqex).sigextQU) EQ la_undef(), ctcovqex)
if ctcovqex NE 0 then message, 'Covariance data is missing in the extinction pertaining to the StokesQ parameter. Data, errors and covariances do not match. Aborting...'
;Matching both filter and spectrum points
match2,uext.wav,qext.wav,qexpts,uexpts
;removing -1 values from the indices (qpts & upts)
indnotqex = where(qexpts eq -1, cnotqex)
if cnotqex ne 0 then remove, indnotqex, qexpts
indnotuex = where(uexpts eq -1, cnotuex)
if cnotuex ne 0 then remove, indnotuex, uexpts
match2, ext.wav, qext.wav(qexpts), qextmp, extpts
indnotx = where(extpts eq -1, cnotx)
if cnotx ne 0 then remove, indnotx, extpts
instru_names = uext.instru_names(uexpts)
filt_names = uext.filt_names(uexpts)
wav = uext.wav(uexpts)
values = 0.5*atan(uext.values(uexpts),qext.values(qexpts))/degtorad
polar_variance_iqu2ippsi,ext.values(extpts),qext.values(qexpts),uext.values(uexpts),(data_ext(testex).sigextII)(extpts),(data_ext(testqex).sigextQQ)(qexpts),(data_ext(testuex).sigextUU)(uexpts),(data_ext(testex).sigextIQ)(extpts),(data_ext(testex).sigextIU)(extpts),(data_ext(testex).sigextQU)(extpts),variance_smallp,variance_psi,variance_largep
sigma = sqrt(variance_psi)
psi_ext={instru_names:instru_names,filt_names:filt_names,wav:wav,values:values,sigma:sigma}
polext = psi_ext
polext.values = sqrt(uext.values(uexpts)^2+qext.values(qexpts)^2)
polext.sigma = sqrt(variance_largep)
fpolext = psi_ext
fpolext.values = polext.values/ext.values(extpts)
fpolext.sigma = sqrt(variance_smallp)
goto, end_ext
end_ext:
ENDIF
the_end:
;stop
; RETURN, 0.
END