# source:sans/Dev/trunk/NCNR_User_Procedures/SANS/Analysis/Models/PolyCoreShellRatio_v40.ipf@379

Last change on this file since 379 was 379, checked in by srkline, 14 years ago

Removed Angstrom symbol (Mac code) and replaced it with simply a capital "A" so strange symbols won't appear anymore on Win.

File size: 8.1 KB
Line
1#pragma rtGlobals=1             // Use modern global access method.
2#pragma IgorVersion = 6.0
3
4////////////////////////////////////////////////
5// GaussUtils.proc and PlotUtils.proc MUST be included for the smearing calculation to compile
6// Adopting these into the experiment will insure that they are always present
7////////////////////////////////////////////////
8//
9// this function is for the form factor of a polydisperse spherical particle, with a core-shell structure
10// the polydispersity of the overall (core+shell) radius is described by a Schulz distribution
11// the ratio R(core)/ R (total) is constant
12//
13// 06 NOV 98 SRK
14////////////////////////////////////////////////
15
16Proc PlotPolyCoreShellRatio(num,qmin,qmax)
17        Variable num=128,qmin=0.001,qmax=0.7
18        Prompt num "Enter number of data points for model: "
19        Prompt qmin "Enter minimum q-value (A^-1) for model: "
20        Prompt qmax "Enter maximum q-value (A^-1) for model: "
21
22        Make/O/D/n=(num) xwave_pcr,ywave_pcr
23        xwave_pcr = alog(log(qmin) + x*((log(qmax)-log(qmin))/num))
24        Make/O/D coef_pcr = {1.,60,10,.2,1e-6,2e-6,3e-6,0.001}
25        Make/O/t parameters_pcr = {"scale","avg core rad (A)","avg shell thickness (A)","overall polydisp (0,1)",,"SLD core (A-2)","SLD shell (A-2)","SLD solvent (A-2)","bkg (cm-1)"}
26        Edit parameters_pcr,coef_pcr
27        Variable/G root:g_pcr
28        g_pcr := PolyCoreShellRatio(coef_pcr,ywave_pcr,xwave_pcr)
29//      ywave_pcr := PolyCoreShellRatio(coef_pcr,xwave_pcr)
30        Display ywave_pcr vs xwave_pcr
31        ModifyGraph log=1,marker=29,msize=2,mode=4
32        Label bottom "q (A\\S-1\\M)"
33        Label left "Intensity (cm\\S-1\\M)"
34        AutoPositionWindow/M=1/R=\$(WinName(0,1)) \$WinName(0,2)
35
37End
38
39///////////////////////////////////////////////////////////
40// - sets up a dependency to a wrapper, not the actual SmearedModelFunction
41Proc PlotSmearedPolyCoreShellRatio(str)
42        String str
43        Prompt str,"Pick the data folder containing the resolution you want",popup,getAList(4)
44
45        // if any of the resolution waves are missing => abort
46        if(ResolutionWavesMissingDF(str))               //updated to NOT use global strings (in GaussUtils)
47                Abort
48        endif
49
50        SetDataFolder \$("root:"+str)
51
52        // Setup parameter table for model function
53        Make/O/D smear_coef_pcr = {1.,60,10,.2,1e-6,2e-6,3e-6,0.001}
54        make/o/t smear_parameters_pcr = {"scale","avg core rad (A)","avg shell thickness (A)","overall polydisp (0,1)",,"SLD core (A-2)","SLD shell (A-2)","SLD solvent (A-2)","bkg (cm-1)"}
55        Edit smear_parameters_pcr,smear_coef_pcr
56
57        // output smeared intensity wave, dimensions are identical to experimental QSIG values
58        // make extra copy of experimental q-values for easy plotting
59        Duplicate/O \$(str+"_q") smeared_pcr,smeared_qvals                               //**** mod
60        SetScale d,0,0,"1/cm",smeared_pcr                                                       //**** mod
61
62        Variable/G gs_pcr=0
63        gs_pcr := fSmearedPolyCoreShellRatio(smear_coef_pcr,smeared_pcr,smeared_qvals)  //this wrapper fills the STRUCT
64
65        Display smeared_pcr vs smeared_qvals
66        ModifyGraph log=1,marker=29,msize=2,mode=4
67        Label bottom "q (A\\S-1\\M)"
68        Label left "Intensity (cm\\S-1\\M)"
69        AutoPositionWindow/M=1/R=\$(WinName(0,1)) \$WinName(0,2)
70
71        SetDataFolder root:
73End
74
75
76//AAO version
77Function PolyCoreShellRatio(cw,yw,xw) : FitFunc
78        Wave cw,yw,xw
79
80#if exists("PolyCoreShellRatioX")
81        yw = PolyCoreShellRatioX(cw,xw)
82#else
83        yw = fPolyCoreShellRatio(cw,xw)
84#endif
85        return(0)
86End
87
88///////////////////////////////////////////////////////////////
89// unsmeared model calculation
90///////////////////////////
91//C     CALC'S THE FORM FACTOR FOR A MONOMODAL
92//c     POPULATION OF POLYDISPERSE SHERES WITH A
93//c     CORE AND SHELL TYPE SLD DISTRIBUTION. IT
94//c     ASSUMES THAT THE CORE RADIUS IS A CONSTANT
95//c     FRACTION (P) OF THE SHELL  RADIUS.
96//c
97//c
98//c     REF.:    "DETERMINATION OF THE STRUCTURE AND DYNAMICS OF
99//c              MICELLAR SOLUTIONS BY NEUTRON SMALL-ANGLE SCATTERING"
100//c              BY J.B.HAYTER IN PHYSICS OF AMPHIPHILES--MICELLES,
101//c              VESICLES, AND MICROEMULSIONS ED BY  DEGIORGIO,V;  CORTI,M,
102//c              PP59-93,1983.
103//c
104//c     EQNS: 32-37
105//c
106Function fPolyCoreShellRatio(w,x) : FitFunc
107        Wave w;Variable x
108
109        //assign nice names to the input wave
110        //w[0] = scale
111        //w[1] = core radius [A]
112        //w[2] = shell thickness [A]
113        //w[3] = polydispersity index (0<p<1)
114        //w[4] = SLD core [A^-2]
115        //w[5] = SLD shell  [A^-2]
116        //w[6] = SLD solvent [A^-2]
117        //w[7] = bkg [cm-1]
119        Variable sld1,sld2,sld3,zp1,zp2,zp3,vpoly
120
121        scale = w[0]
122        corrad = w[1]
123        thick = w[2]
124        sig = w[3]
125        sld1 = w[4]
126        sld2 = w[5]
127        sld3 = w[6]
128        bkg = w[7]
129
130        //calculations on input parameters
132        zz = (1/sig)^2-1
133        drho1 = sld1-sld2               //core-shell
134        drho2 = sld2-sld3               //shell-solvent
135        zp1 = zz + 1.
136        zp2 = zz + 2.
137        zp3 = zz + 3.
138        vpoly = 4*Pi/3*zp3*zp2/zp1/zp1*(corrad+thick)^3
139
140        //local variables
141        Variable pi43,c1,c2,form,volume,arg1,arg2
142
143        PI43=4.0/3.0*PI
146        C1=DRHO1*VOLUME
147        C2=DRHO2*VOLUME
148
149        // the beta factor is not calculated
150        // the calculated form factor <f^2> has units [length^2]
151        // and must be multiplied by number density [l^-3] and the correct unit
152        // conversion to get to absolute scale
153
154//      DO 10  I=1,NPTSM
157//       FAVE2=F*F
158
159        arg1 = x*shlrad*pp
160        arg2 = x*shlrad
161
162        FORM=(Pp^6.0)*C1*C1*FNT2(arg1,Zz)
163        form += C2*C2*FNT2(arg2,Zz)
164        form += 2.0*C1*C2*FNT3(arg2,Pp,Zz)
165
166        //convert the result to [cm^-1]
167
168        //scale the result
169        // - divide by the polydisperse volume, mult by 10^8
170        form  /= vpoly
171        form *= 1.0e8
172        form *= scale
173
174        //add in the background
175        form += bkg
176
177        RETURN (form)
178END
179//////////////////////////////////////
180//cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
181//c
182//c      FUNCTION FNT1(Y,Z)
183//c
184        Function FNT1(Yy,Zz)
185        Variable yy,zz
186
187        //local variables
188        Variable z1,z2,uu,vv,ww,term1,term2,fnt1
189
190        Z1=Zz+1.0
191        Z2=Zz+2.0
192        Uu=Yy/Z1
193        Vv=ATAN(Uu)
194        Ww=ATAN(2.0*Uu)
195        TERM1=SIN(Z1*Vv)/((1.0+Uu*Uu)^(Z1/2.0))
196        TERM2=Yy*COS(Z2*Vv)/((1.0+Uu*Uu)^(Z2/2.0))
197        FNT1=3.0/Yy/Yy/Yy*(TERM1-TERM2)
198
199        RETURN (fnt1)
200END
201
202//cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
203//c
204//c      FUNCTION FNT2(Y,Z)
205//c
206FUNCTION FNT2(Yy,Zz)
207        Variable yy,zz
208
209        //local variables
210        Variable z1,z2,z3,uu,ww,term1,term2,term3,fnt2
211
212        Z1=Zz+1.0
213        Z2=Zz+2.0
214        Z3=Zz+3.0
215        Uu=Yy/Z1
216        Ww=ATAN(2.0*Uu)
217        TERM1=COS(Z1*Ww)/((1.0+4.0*Uu*Uu)^(Z1/2.0))
218        TERM2=2.0*Yy*SIN(Z2*Ww)/((1.0+4.0*Uu*Uu)^(Z2/2.0))
219        TERM3=1.0+COS(Z3*Ww)/((1.0+4.0*Uu*Uu)^(Z3/2.0))
220        FNT2=(4.50/Z1/Yy^6.0)*(Z1*(1.0-TERM1-TERM2)+Yy*Yy*Z2*TERM3)
221
222        RETURN (fnt2)
223END
224
225//cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
226//c
227//c      FUNCTION FNT3(Y,P,Z)
228//c
229FUNCTION FNT3(Yy,Pp,Zz)
230        Variable yy,pp,zz
231
232        //local variables
233        Variable z1,z2,z3,yp,yn,up,un,vp,vn,term1,term2,term3,term4,term5,term6,fnt3
234
235        Z1=Zz+1
236        Z2=Zz+2
237        Z3=Zz+3
238        YP=(1.0+Pp)*Yy
239        YN=(1.0-Pp)*Yy
240        UP=YP/Z1
241        UN=YN/Z1
242        VP=ATAN(UP)
243        VN=ATAN(UN)
244        TERM1=COS(Z1*VN)/((1.0+UN*UN)^(Z1/2.0))
245        TERM2=COS(Z1*VP)/((1.0+UP*UP)^(Z1/2.0))
246        TERM3=COS(Z3*VN)/((1.0+UN*UN)^(Z3/2.0))
247        TERM4=COS(Z3*VP)/((1.0+UP*UP)^(Z3/2.0))
248        TERM5=YN*SIN(Z2*VN)/((1.0+UN*UN)^(Z2/2.0))
249        TERM6=YP*SIN(Z2*VP)/((1.0+UP*UP)^(Z2/2.0))
250        FNT3=(4.5/Z1/Yy^6.0)
251        fnt3 *=(Z1*(TERM1-TERM2)+Yy*Yy*Pp*Z2*(TERM3+TERM4)+Z1*(TERM5-TERM6))
252
253        RETURN (fnt3)
254END
255/////////////////////////////////
256
257// this is all there is to the smeared calculation!
258Function SmearedPolyCoreShellRatio(s) :FitFunc
259        Struct ResSmearAAOStruct &s
260
261////the name of your unsmeared model is the first argument
262        Smear_Model_20(PolyCoreShellRatio,s.coefW,s.xW,s.yW,s.resW)
263
264        return(0)
265End
266
267//wrapper to calculate the smeared model as an AAO-Struct
268// fills the struct and calls the ususal function with the STRUCT parameter
269//
270// used only for the dependency, not for fitting
271//
272Function fSmearedPolyCoreShellRatio(coefW,yW,xW)
273        Wave coefW,yW,xW
274
275        String str = getWavesDataFolder(yW,0)
276        String DF="root:"+str+":"
277
278        WAVE resW = \$(DF+str+"_res")
279
280        STRUCT ResSmearAAOStruct fs
281        WAVE fs.coefW = coefW
282        WAVE fs.yW = yW
283        WAVE fs.xW = xW
284        WAVE fs.resW = resW
285
286        Variable err
287        err = SmearedPolyCoreShellRatio(fs)
288
289        return (0)
290End
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