• topas
  • Error: Cannot locate site from ga in data structures

I am new one to TA, and I met this error when I run refinement using jEdit. I really appreciate it if anyone could give me some advice. this is my log.file


r_wp 0 r_exp 0 r_p 0 r_p_dash 0 r_exp_dash 0 weighted_Durbin_Watson 0 gof 0


iters 1000
chi2_convergence_criteria 0.001


xdd ZSM-5.xye
x_calculation_step = Yobs_dx_at(Xo); convolution_step 4
bkg @ 0 0 0 0 0 0
prm axial 10 min 0.0001 max 50 circles_conv = -.5 57.2957795130823 ( (axial) / Rs)2 / Tan(2 Th);


prm !th2_monochromator 26.6 scale_pks = (1 + Cos((!th2_monochromator) 0.01745329251994)^2 Cos(2 Th)^2) / (Sin(Th)^2 Cos(Th)); 
   lam 
ymin_on_ymax 0.0001 
  la 1 lo 1.540596 lh 0.501844 

ymin_on_ymax 0.0001
prm !zero 0 th2_offset = (!zero);
prm height 0 min = Val-.1; max = Val+.1; del 0.001 th2_offset = -2 57.2957795130823 (height) Cos(Th) / Rs;

                                                            
                      
                                                                      
                                                            
 
hkl_Is 
	phase_name "?zsm5?" 
	a 20.04852  
	b 19.93474  
	c 13.39235  
	al 90        
	be 90        
	ga 90        
	volume 5352.414  
	space_group 62 
	 
	site Si1    x 0.42238       y 0.05650       z -0.33598      occ Si   1.0        beq 1.3896403     
	site Si2    x 0.30716       y 0.02772       z -0.18930      occ Si   1.0        beq 1.62651081    
	site Si3    x 0.27911       y 0.06127       z 0.03120       occ Si   1.0        beq 1.52386692    
	site Si4    x 0.12215       y 0.06298       z 0.02670       occ Si   1.0        beq 1.42911872    
	site Si5    x 0.07128       y 0.02722       z -0.18551      occ Si   1.0        beq 1.26330936    
	site Si6    x 0.18641       y 0.05896       z -0.32818      occ Si   1.0        beq 1.41332735    
	site Si7    x 0.42265       y -0.17250      z -0.32718      occ Si   1.0        beq 1.46070145    
	site Si8    x 0.30778       y -0.13016      z -0.18548      occ Si   1.0        beq 1.57124102    
	site Si9    x 0.27554       y -0.17279      z 0.03109       occ Si   1.0        beq 1.3896403     
	site Si10   x 0.12058       y -0.17310      z 0.02979       occ Si   1.0        beq 1.52386692    
	site Si11   x 0.07044       y -0.13037      z -0.18200      occ Si   1.0        beq 1.52386692    
	site Si12   x 0.18706       y -0.17327      z -0.31933      occ Si   1.0        beq 1.5791367     
	site O1     x 0.3726        y 0.0534        z -0.2442       occ O    1.0        beq 3.86888493    
	site O2     x 0.3084        y 0.0587        z -0.0789       occ O    1.0        beq 3.15827341    
	site O3     x 0.2007        y 0.0592        z 0.0289        occ O    1.0        beq 5.05323745    
	site O4     x 0.0969        y 0.0611        z -0.0856       occ O    1.0        beq 3.46620507    
	site O5     x 0.1149        y 0.0541        z -0.2763       occ O    1.0        beq 2.67663671    
	site O6     x 0.2435        y 0.0553        z -0.2460       occ O    1.0        beq 3.63201442    
	site O7     x 0.3742        y -0.1561       z -0.2372       occ O    1.0        beq 3.71097125    
	site O8     x 0.3085        y -0.1552       z -0.0728       occ O    1.0        beq 3.46620507    
	site O9     x 0.1980        y -0.1554       z 0.0288        occ O    1.0        beq 3.15827341    
	site O10    x 0.0910        y -0.1614       z -0.0777       occ O    1.0        beq 4.57949644    
	site O11    x 0.1169        y -0.1578       z -0.2694       occ O    1.0        beq 3.78992809    
	site O12    x 0.2448        y -0.1594       z -0.2422       occ O    1.0        beq 4.34262594    
	site O13    x 0.3047        y -0.0510       z -0.1866       occ O    1.0        beq 5.61383098    
	site O14    x 0.0768        y -0.0519       z -0.1769       occ O    1.0        beq 3.71097125    
	site O15    x 0.4161        y 0.1276        z -0.3896       occ O    1.0        beq 3.46620507    
	site O16    x 0.4086        y -0.0017       z -0.4136       occ O    1.0        beq 3.63201442    
	site O17    x 0.4020        y -0.1314       z -0.4239       occ O    1.0        beq 3.15827341    
	site O18    x 0.1886        y 0.1298        z -0.3836       occ O    1.0        beq 2.84244607    
	site O19    x 0.1940        y 0.0007        z -0.4082       occ O    1.0        beq 3.55305758    
	site O20    x 0.1951        y -0.1291       z -0.4190       occ O    1.0        beq 3.4030396     
	site O21    x -0.0037       y 0.0502        z -0.2080       occ O    1.0        beq 2.61347125    
	site O22    x -0.0040       y -0.1528       z -0.2078       occ O    1.0        beq 3.15827341    
	site O23    x 0.4192        y -0.2500       z -0.3540       occ O    1.0        beq 3.46620507    
	site O24    x 0.1884        y -0.2500       z -0.3538       occ O    1.0        beq 2.67663671    
	site O25    x 0.2883        y -0.2500       z 0.0579        occ O    1.0        beq 2.61347125    
	site O26    x 0.1085        y -0.2500       z 0.0611        occ O    1.0        beq 2.36870506    
	 
	scale 0.0001 
	r_bragg 0 
	prm !pku 0.00039 prm !pkv -0.00221 prm !pkw -0.00146 prm !pkz 0.0000 prm !pkx 0.00957 prm !pky 0.0001 local m639974d4_0 = (!pkx) Tan(Th) + (!pky) / Cos(Th); local m639974d4_1 = Sqrt( Abs( (!pku) Tan(Th)^2 + (!pkv) Tan(Th) + (!pkw) + (!pkz) / Cos(Th)^2) ); local m639974d4_2 = ( m639974d4_1^5 + 2.69269 m639974d4_1^4 m639974d4_0 + 2.42843 m639974d4_1^3 m639974d4_0^2 + 4.47163 m639974d4_1^2 m639974d4_0^3 + 0.07842 m639974d4_1 m639974d4_0^4 + m639974d4_0^5 )^0.2; local m639974d4_3 = m639974d4_0 / m639974d4_2; peak_type pv pv_lor = 1.36603 m639974d4_3 - 0.47719 m639974d4_3^2 + 0.1116 m639974d4_3^3; pv_fwhm = m639974d4_2; 
	prm = (1.6605402 Get(cell_mass) / Get(cell_volume)); : 0

*** Error loading sstring_in
at LINE 40
See log file D:\TOPAS-Academic\topas.log
Cannot locate site from ga in data structures

It's hard to know what your problem is if you just upload a log file. A short description will help people. However it looks like you have "sites" in a Pawley hkl_Is fit which doesn't make sense. Have you done the various online tutorials. They cover many basic things.