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