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695 | |
---|
696 | <h1>Determining Profile Parameters from a Standard</h1> |
---|
697 | |
---|
698 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
699 | |
---|
700 | <p class=MsoNormal><span style='font-size:14.0pt'>The goal of this exercise is |
---|
701 | to determine approximate instrument profile parameters by a quick peak fit to a |
---|
702 | sample with a lab diffractometer. Ideally, one should use a material or mixture |
---|
703 | of materials that has peaks over the entire range where you collect data and |
---|
704 | use a material(s) that have negligible sample broadening (from crystallite size |
---|
705 | or <span class=SpellE>microstrain</span>). The NIST LaB<sub>6</sub> standards |
---|
706 | (SRM 660, 660a and 660b) are good choices for this, as it has very little |
---|
707 | sample broadening and a relatively small number of peaks over a wide angular |
---|
708 | range, although it would be good to have peaks starting somewhat lower in |
---|
709 | 2theta. <o:p></o:p></span></p> |
---|
710 | |
---|
711 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
712 | |
---|
713 | <p class=MsoNormal><b style='mso-bidi-font-weight:normal'><span |
---|
714 | style='font-size:14.0pt'>Note</span></b><span style='font-size:14.0pt'> that it |
---|
715 | is highly recommended to collect reference data to a much higher 2theta angle |
---|
716 | than here. What is done here serves as an example, and is sufficient only if |
---|
717 | one will never collect and use data above 70 degrees (unlikely!). <o:p></o:p></span></p> |
---|
718 | |
---|
719 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
720 | |
---|
721 | <p class=MsoNormal><span style='font-size:14.0pt'>To get started, create a new |
---|
722 | project in GSAS-II, either by starting the program fresh or using <b |
---|
723 | style='mso-bidi-font-weight:normal'>File/New Project</b>. <o:p></o:p></span></p> |
---|
724 | |
---|
725 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
726 | |
---|
727 | <p class=MsoNormal><span class=Heading3Char><span style='font-size:14.0pt'>Step |
---|
728 | 1: Read in the Diffraction Data</span></span><span style='font-size:14.0pt'><o:p></o:p></span></p> |
---|
729 | |
---|
730 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
731 | |
---|
732 | <p class=MsoNormal style='mso-pagination:none;tab-stops:28.0pt 56.0pt 84.0pt 112.0pt 140.0pt 168.0pt 196.0pt 224.0pt 3.5in 280.0pt 308.0pt 336.0pt; |
---|
733 | mso-layout-grid-align:none;text-autospace:none'><span style='font-size:14.0pt'>Use |
---|
734 | <b style='mso-bidi-font-weight:normal'>Import/Powder Data/from <span |
---|
735 | class=SpellE>Brucker</span> RAW file</b> to read </span><span style='font-size: |
---|
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738 | mso-fareast-language:EN-US'>LaB6_Jan2018.raw</span><span style='font-size:14.0pt; |
---|
739 | font-family:"Menlo Regular";color:black;mso-fareast-language:EN-US'> </span><span |
---|
740 | style='font-size:14.0pt'>from the Tutorials <span class=SpellE>CWInstDemo</span>/data |
---|
741 | directory (download from <a |
---|
742 | href="https://subversion.xray.aps.anl.gov/pyGSAS/Tutorials/CWInstDemo/data/">https://subversion.xray.aps.anl.gov/pyGSAS/Tutorials/CWInstDemo/data/</a>). |
---|
743 | After selecting this file, answer yes to ÒIs this the file you want?Ó<o:p></o:p></span></p> |
---|
744 | |
---|
745 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
746 | |
---|
747 | <h3><span style='font-size:14.0pt'>Step 2: Select Default Instrument Parameters<o:p></o:p></span></h3> |
---|
748 | |
---|
749 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
750 | |
---|
751 | <p class=MsoNormal><span style='font-size:14.0pt'>The next dialog to appear is |
---|
752 | titled, ÒChoose inst. <span class=SpellE>Param</span> file for LaB6_Jan2018.raw |
---|
753 | Scan 1 (or Cancel for default)Ó since we do not have a set of parameters to |
---|
754 | read, we must use a default set. <b style='mso-bidi-font-weight:normal'>Press |
---|
755 | Cancel</b>.<o:p></o:p></span></p> |
---|
756 | |
---|
757 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
758 | |
---|
759 | <p class=MsoNormal><span style='font-size:14.0pt'>This raises the default <span |
---|
760 | class=SpellE>inst</span> <span class=SpellE>parms</span> dialog, as below<o:p></o:p></span></p> |
---|
761 | |
---|
762 | <p class=MsoNormal><span style='font-size:14.0pt;mso-fareast-language:EN-US; |
---|
763 | mso-no-proof:yes'><!--[if gte vml 1]><v:shapetype id="_x0000_t75" coordsize="21600,21600" |
---|
764 | o:spt="75" o:preferrelative="t" path="m@4@5l@4@11@9@11@9@5xe" filled="f" |
---|
765 | stroked="f"> |
---|
766 | <v:stroke joinstyle="miter"/> |
---|
767 | <v:formulas> |
---|
768 | <v:f eqn="if lineDrawn pixelLineWidth 0"/> |
---|
769 | <v:f eqn="sum @0 1 0"/> |
---|
770 | <v:f eqn="sum 0 0 @1"/> |
---|
771 | <v:f eqn="prod @2 1 2"/> |
---|
772 | <v:f eqn="prod @3 21600 pixelWidth"/> |
---|
773 | <v:f eqn="prod @3 21600 pixelHeight"/> |
---|
774 | <v:f eqn="sum @0 0 1"/> |
---|
775 | <v:f eqn="prod @6 1 2"/> |
---|
776 | <v:f eqn="prod @7 21600 pixelWidth"/> |
---|
777 | <v:f eqn="sum @8 21600 0"/> |
---|
778 | <v:f eqn="prod @7 21600 pixelHeight"/> |
---|
779 | <v:f eqn="sum @10 21600 0"/> |
---|
780 | </v:formulas> |
---|
781 | <v:path o:extrusionok="f" gradientshapeok="t" o:connecttype="rect"/> |
---|
782 | <o:lock v:ext="edit" aspectratio="t"/> |
---|
783 | </v:shapetype><v:shape id="Picture_x0020_1" o:spid="_x0000_i1025" type="#_x0000_t75" |
---|
784 | style='width:390pt;height:207pt;visibility:visible'> |
---|
785 | <v:imagedata src="FindProfParamCW_files/image001.png" o:title=""/> |
---|
786 | </v:shape><![endif]--><![if !vml]><img border=0 width=392 height=209 |
---|
787 | src="FindProfParamCW_files/image002.png" v:shapes="Picture_x0020_1"><![endif]></span><span |
---|
788 | style='font-size:14.0pt'><o:p></o:p></span></p> |
---|
789 | |
---|
790 | <p class=MsoNormal><span style='font-size:14.0pt'>Here, <b style='mso-bidi-font-weight: |
---|
791 | normal'>choose the first option</b> for <span class=SpellE>CuKa</span> lab data |
---|
792 | (which is for a standard instrument with Kalpha1 and Kalpha2 radiation) and <b |
---|
793 | style='mso-bidi-font-weight:normal'>press OK</b>. A plot of the data will |
---|
794 | appear as below.<o:p></o:p></span></p> |
---|
795 | |
---|
796 | <p class=MsoNormal><span style='font-size:14.0pt'><span |
---|
797 | style="mso-spacerun:yes"> </span></span><span style='font-size:14.0pt; |
---|
798 | mso-fareast-language:EN-US;mso-no-proof:yes'><!--[if gte vml 1]><v:shape id="Picture_x0020_2" |
---|
799 | o:spid="_x0000_i1026" type="#_x0000_t75" style='width:310pt;height:229pt; |
---|
800 | visibility:visible'> |
---|
801 | <v:imagedata src="FindProfParamCW_files/image003.png" o:title=""/> |
---|
802 | </v:shape><![endif]--><![if !vml]><img border=0 width=312 height=231 |
---|
803 | src="FindProfParamCW_files/image004.png" v:shapes="Picture_x0020_2"><![endif]></span><span |
---|
804 | style='font-size:14.0pt'><o:p></o:p></span></p> |
---|
805 | |
---|
806 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
807 | |
---|
808 | <p class=MsoNormal><span class=Heading3Char><span style='font-size:14.0pt'>Step |
---|
809 | 3: Change Data Range</span></span><span style='font-size:14.0pt'>. <o:p></o:p></span></p> |
---|
810 | |
---|
811 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
812 | |
---|
813 | <p class=MsoNormal><span style='font-size:14.0pt'>Note that the data begins at |
---|
814 | 10 degrees, but the first peak is above 21 degrees, we can simplify the |
---|
815 | background fitting by changing the data limits. <b style='mso-bidi-font-weight: |
---|
816 | normal'>Click on the Limits</b> data tree item, and either change the <span |
---|
817 | class=SpellE>Tmin</span> value from 10 to 20 or in the plot <b |
---|
818 | style='mso-bidi-font-weight:normal'>ÒdragÓ the green line to the right</b> to approximately |
---|
819 | 20 degrees. <o:p></o:p></span></p> |
---|
820 | |
---|
821 | <p class=MsoNormal><span style='font-size:14.0pt;mso-fareast-language:EN-US; |
---|
822 | mso-no-proof:yes'><!--[if gte vml 1]><v:shape id="Picture_x0020_3" o:spid="_x0000_i1027" |
---|
823 | type="#_x0000_t75" style='width:310pt;height:222pt;visibility:visible'> |
---|
824 | <v:imagedata src="FindProfParamCW_files/image005.png" o:title=""/> |
---|
825 | </v:shape><![endif]--><![if !vml]><img border=0 width=312 height=224 |
---|
826 | src="FindProfParamCW_files/image006.png" v:shapes="Picture_x0020_3"><![endif]></span><span |
---|
827 | style='font-size:14.0pt'><o:p></o:p></span></p> |
---|
828 | |
---|
829 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
830 | |
---|
831 | <h3><span style='font-size:14.0pt'>Step 4: Add Peaks to Fit<o:p></o:p></span></h3> |
---|
832 | |
---|
833 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
834 | |
---|
835 | <p class=MsoNormal><span style='font-size:14.0pt'>To define peaks, <b |
---|
836 | style='mso-bidi-font-weight:normal'>click on the ÒPeak List</b>Ó data tree item. |
---|
837 | Note that as below, the peak list is initially empty. <o:p></o:p></span></p> |
---|
838 | |
---|
839 | <p class=MsoNormal><span style='font-size:14.0pt;mso-fareast-language:EN-US; |
---|
840 | mso-no-proof:yes'><!--[if gte vml 1]><v:shape id="Picture_x0020_4" o:spid="_x0000_i1028" |
---|
841 | type="#_x0000_t75" style='width:370pt;height:238pt;visibility:visible'> |
---|
842 | <v:imagedata src="FindProfParamCW_files/image007.png" o:title=""/> |
---|
843 | </v:shape><![endif]--><![if !vml]><img border=0 width=372 height=240 |
---|
844 | src="FindProfParamCW_files/image008.png" v:shapes="Picture_x0020_4"><![endif]></span><span |
---|
845 | style='font-size:14.0pt'><o:p></o:p></span></p> |
---|
846 | |
---|
847 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
848 | |
---|
849 | <p class=MsoNormal><b style='mso-bidi-font-weight:normal'><span |
---|
850 | style='font-size:14.0pt'>Move</span></b><span style='font-size:14.0pt'> the |
---|
851 | mouse to any of the data points close to the <b style='mso-bidi-font-weight: |
---|
852 | normal'>top of the first peak and click </b>the left mouse button. A line will |
---|
853 | be drawn through the peak and the position will be added to the peak table and |
---|
854 | a line marking this is added to the plot, as below. <o:p></o:p></span></p> |
---|
855 | |
---|
856 | <p class=MsoNormal><span style='font-size:14.0pt;mso-fareast-language:EN-US; |
---|
857 | mso-no-proof:yes'><!--[if gte vml 1]><v:shape id="Picture_x0020_5" o:spid="_x0000_i1029" |
---|
858 | type="#_x0000_t75" style='width:319pt;height:267pt;visibility:visible'> |
---|
859 | <v:imagedata src="FindProfParamCW_files/image009.png" o:title=""/> |
---|
860 | </v:shape><![endif]--><![if !vml]><img border=0 width=321 height=269 |
---|
861 | src="FindProfParamCW_files/image010.png" v:shapes="Picture_x0020_5"><![endif]></span><span |
---|
862 | style='font-size:14.0pt'><o:p></o:p></span></p> |
---|
863 | |
---|
864 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
865 | |
---|
866 | <p class=MsoNormal><b style='mso-bidi-font-weight:normal'><span |
---|
867 | style='font-size:14.0pt'>Repeat this for all 8 peaks</span></b><span |
---|
868 | style='font-size:14.0pt'> in the pattern. Note that if a peak is entered in the |
---|
869 | wrong place <span class=GramE>it can be moved by ÒdraggingÓ it with the mouse</span>, |
---|
870 | or use a right-click to delete it. Be careful to make sure two peaks are not entered |
---|
871 | in the same place by accident<span class=GramE>,.</span><o:p></o:p></span></p> |
---|
872 | |
---|
873 | <p class=MsoNormal><span style='font-size:14.0pt;mso-fareast-language:EN-US; |
---|
874 | mso-no-proof:yes'><!--[if gte vml 1]><v:shape id="Picture_x0020_6" o:spid="_x0000_i1030" |
---|
875 | type="#_x0000_t75" style='width:333pt;height:251pt;visibility:visible'> |
---|
876 | <v:imagedata src="FindProfParamCW_files/image011.png" o:title=""/> |
---|
877 | </v:shape><![endif]--><![if !vml]><img border=0 width=335 height=253 |
---|
878 | src="FindProfParamCW_files/image012.png" v:shapes="Picture_x0020_6"><![endif]><o:p></o:p></span></p> |
---|
879 | |
---|
880 | <p class=MsoNormal><span style='font-size:14.0pt;mso-fareast-language:EN-US; |
---|
881 | mso-no-proof:yes'>The peak table appears as:</span><span style='font-size:14.0pt'><o:p></o:p></span></p> |
---|
882 | |
---|
883 | <p class=MsoNormal><span style='font-size:14.0pt;mso-fareast-language:EN-US; |
---|
884 | mso-no-proof:yes'><!--[if gte vml 1]><v:shape id="Picture_x0020_7" o:spid="_x0000_i1031" |
---|
885 | type="#_x0000_t75" style='width:523pt;height:218pt;visibility:visible'> |
---|
886 | <v:imagedata src="FindProfParamCW_files/image013.png" o:title=""/> |
---|
887 | </v:shape><![endif]--><![if !vml]><img border=0 width=525 height=220 |
---|
888 | src="FindProfParamCW_files/image014.png" v:shapes="Picture_x0020_7"><![endif]></span><span |
---|
889 | style='font-size:14.0pt'><o:p></o:p></span></p> |
---|
890 | |
---|
891 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
892 | |
---|
893 | <h3><span style='font-size:14.0pt'>Step 5: Refine Peak Areas<o:p></o:p></span></h3> |
---|
894 | |
---|
895 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
896 | |
---|
897 | <p class=MsoNormal><span style='font-size:14.0pt'>By default, the peak |
---|
898 | intensities <span class=GramE>are flagged as to be varied</span>, but not any |
---|
899 | of the other parameters. It is wise to refine them all, but we want to make |
---|
900 | sure the parameters have a chance to converge one step at a time and we should |
---|
901 | start with only the intensities.<span style="mso-spacerun:yes"> |
---|
902 | </span>Use the <b style='mso-bidi-font-weight:normal'>Peak Fitting/<span |
---|
903 | class=SpellE>Peakfit</span></b> menu item to perform a peak refinement. You |
---|
904 | will be asked for a name to save the project (enter a name such as <span |
---|
905 | class=SpellE>peakfit.gpx</span> and press Save). The peaks are then fit, here |
---|
906 | optimizing only the intensity values. The console window shows the details of |
---|
907 | the refinement:<o:p></o:p></span></p> |
---|
908 | |
---|
909 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
910 | |
---|
911 | <p class=MsoNormal><span style='font-size:14.0pt;mso-fareast-language:EN-US; |
---|
912 | mso-no-proof:yes'><!--[if gte vml 1]><v:shape id="Picture_x0020_8" o:spid="_x0000_i1032" |
---|
913 | type="#_x0000_t75" style='width:475pt;height:178pt;visibility:visible'> |
---|
914 | <v:imagedata src="FindProfParamCW_files/image015.png" o:title=""/> |
---|
915 | </v:shape><![endif]--><![if !vml]><img border=0 width=477 height=180 |
---|
916 | src="FindProfParamCW_files/image016.png" v:shapes="Picture_x0020_8"><![endif]></span><span |
---|
917 | style='font-size:14.0pt'><o:p></o:p></span></p> |
---|
918 | |
---|
919 | <p class=MsoNormal><span style='font-size:14.0pt'>The warning at the end is |
---|
920 | because the default peak parameters describe a peak shape that is significantly |
---|
921 | sharper than what is actually present for these data; the step size is actually |
---|
922 | fine. This warning will later go away, but if it did not this would indicate |
---|
923 | that it would be better to recollect the data with a step size decreased by a |
---|
924 | factor of 3-4. <o:p></o:p></span></p> |
---|
925 | |
---|
926 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
927 | |
---|
928 | <h3><span style='font-size:14.0pt'>Step 6: Refine peak areas and heights<o:p></o:p></span></h3> |
---|
929 | |
---|
930 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
931 | |
---|
932 | <p class=MsoNormal><span style='font-size:14.0pt'>In the peak list window, <b |
---|
933 | style='mso-bidi-font-weight:normal'>double click in the refine heading for the |
---|
934 | peak position</b> <span class=GramE>flags,</span> this will bring up a dialog |
---|
935 | that allows all peak positions to be varied. <o:p></o:p></span></p> |
---|
936 | |
---|
937 | <p class=MsoNormal><span style='font-size:14.0pt;mso-fareast-language:EN-US; |
---|
938 | mso-no-proof:yes'><!--[if gte vml 1]><v:shape id="Picture_x0020_9" o:spid="_x0000_i1033" |
---|
939 | type="#_x0000_t75" style='width:158pt;height:123pt;visibility:visible'> |
---|
940 | <v:imagedata src="FindProfParamCW_files/image017.png" o:title=""/> |
---|
941 | </v:shape><![endif]--><![if !vml]><img border=0 width=160 height=125 |
---|
942 | src="FindProfParamCW_files/image018.png" v:shapes="Picture_x0020_9"><![endif]></span><span |
---|
943 | style='font-size:14.0pt'><span style="mso-spacerun:yes"> </span><o:p></o:p></span></p> |
---|
944 | |
---|
945 | <p class=MsoNormal><span style='font-size:14.0pt'>Select Òvary allÓ and press |
---|
946 | OK. Now all peak positions and areas will be refined.<o:p></o:p></span></p> |
---|
947 | |
---|
948 | <p class=MsoNormal><span style='font-size:14.0pt;mso-fareast-language:EN-US; |
---|
949 | mso-no-proof:yes'><!--[if gte vml 1]><v:shape id="Picture_x0020_10" o:spid="_x0000_i1034" |
---|
950 | type="#_x0000_t75" style='width:514pt;height:217pt;visibility:visible'> |
---|
951 | <v:imagedata src="FindProfParamCW_files/image019.png" o:title=""/> |
---|
952 | </v:shape><![endif]--><![if !vml]><img border=0 width=516 height=219 |
---|
953 | src="FindProfParamCW_files/image020.png" v:shapes="Picture_x0020_10"><![endif]></span><span |
---|
954 | style='font-size:14.0pt'><o:p></o:p></span></p> |
---|
955 | |
---|
956 | <p class=MsoNormal><span style='font-size:14.0pt'>Use the <b style='mso-bidi-font-weight: |
---|
957 | normal'>Peak Fitting/<span class=SpellE>Peakfit</span></b> menu item to start |
---|
958 | peak refinement.<o:p></o:p></span></p> |
---|
959 | |
---|
960 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
961 | |
---|
962 | <p class=MsoNormal><span style='font-size:14.0pt'>The fit improves |
---|
963 | significantly, as below, but further improvements are needed. <o:p></o:p></span></p> |
---|
964 | |
---|
965 | <p class=MsoNormal><span style='font-size:14.0pt;mso-fareast-language:EN-US; |
---|
966 | mso-no-proof:yes'><!--[if gte vml 1]><v:shape id="Picture_x0020_11" o:spid="_x0000_i1035" |
---|
967 | type="#_x0000_t75" style='width:258pt;height:187pt;visibility:visible'> |
---|
968 | <v:imagedata src="FindProfParamCW_files/image021.png" o:title=""/> |
---|
969 | </v:shape><![endif]--><![if !vml]><img border=0 width=260 height=189 |
---|
970 | src="FindProfParamCW_files/image022.png" v:shapes="Picture_x0020_11"><![endif]></span><span |
---|
971 | style='font-size:14.0pt'><o:p></o:p></span></p> |
---|
972 | |
---|
973 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
974 | |
---|
975 | <h3><span style='font-size:14.0pt'>Step 7: Refine peak areas, heights and |
---|
976 | widths (optional)<o:p></o:p></span></h3> |
---|
977 | |
---|
978 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
979 | |
---|
980 | <p class=MsoNormal><b style='mso-bidi-font-weight:normal'><span |
---|
981 | style='font-size:14.0pt'>Double-Click</span></b><span style='font-size:14.0pt'> |
---|
982 | on the refine headings for the <b style='mso-bidi-font-weight:normal'>sigma</b> |
---|
983 | (Gaussian width) and <b style='mso-bidi-font-weight:normal'>gamma</b> |
---|
984 | (Lorentzian width) parameters so that all parameters can be refined. Use the <b |
---|
985 | style='mso-bidi-font-weight:normal'>Peak Fitting/<span class=SpellE>Peakfit</span></b> |
---|
986 | menu item to start peak refinement. The results in the console window are as |
---|
987 | below. <span style="mso-spacerun:yes"> </span>This is being done here just |
---|
988 | to see how the individual peaks vary before we fit them with a parametric |
---|
989 | equation. This step is not necessary, but provides a useful graphical reference |
---|
990 | to look for any anomalous peaks that one might not want to use. <span |
---|
991 | style="mso-spacerun:yes"> </span><o:p></o:p></span></p> |
---|
992 | |
---|
993 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
994 | |
---|
995 | <p class=MsoNormal><span style='font-size:14.0pt'><!--[if gte vml 1]><v:shape |
---|
996 | id="_x0000_i1036" type="#_x0000_t75" style='width:6in;height:2in'> |
---|
997 | <v:imagedata src="FindProfParamCW_files/image023.png" o:title=""/> |
---|
998 | </v:shape><![endif]--><![if !vml]><img border=0 width=434 height=146 |
---|
999 | src="FindProfParamCW_files/image024.png" v:shapes="_x0000_i1036"><![endif]><o:p></o:p></span></p> |
---|
1000 | |
---|
1001 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
1002 | |
---|
1003 | <h3><span style='font-size:14.0pt'>Step 8: Add more Background terms<o:p></o:p></span></h3> |
---|
1004 | |
---|
1005 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
1006 | |
---|
1007 | <p class=MsoNormal><span style='font-size:14.0pt'>Use the zoom feature |
---|
1008 | (magnifying glass) to draw a box around the low intensity data<o:p></o:p></span></p> |
---|
1009 | |
---|
1010 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
1011 | |
---|
1012 | <p class=MsoNormal><span style='font-size:14.0pt'><!--[if gte vml 1]><v:shape |
---|
1013 | id="_x0000_i1037" type="#_x0000_t75" style='width:441pt;height:180pt'> |
---|
1014 | <v:imagedata src="FindProfParamCW_files/image025.png" o:title="fig"/> |
---|
1015 | </v:shape><![endif]--><![if !vml]><img border=0 width=443 height=182 |
---|
1016 | src="FindProfParamCW_files/image026.png" v:shapes="_x0000_i1037"><![endif]><o:p></o:p></span></p> |
---|
1017 | |
---|
1018 | <p class=MsoNormal><span style='font-size:14.0pt'>Looking at the plot (see |
---|
1019 | below<span class=GramE>),</span> makes it clear that the background is not well |
---|
1020 | fit. Adding more background terms will fix this. <o:p></o:p></span></p> |
---|
1021 | |
---|
1022 | <p class=MsoNormal><span style='font-size:14.0pt'><!--[if gte vml 1]><v:shape |
---|
1023 | id="_x0000_i1038" type="#_x0000_t75" style='width:431pt;height:324pt'> |
---|
1024 | <v:imagedata src="FindProfParamCW_files/image027.png" o:title=""/> |
---|
1025 | </v:shape><![endif]--><![if !vml]><img border=0 width=433 height=326 |
---|
1026 | src="FindProfParamCW_files/image028.png" v:shapes="_x0000_i1038"><![endif]><o:p></o:p></span></p> |
---|
1027 | |
---|
1028 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
1029 | |
---|
1030 | <p class=MsoNormal><span style='font-size:14.0pt'>Select the <b |
---|
1031 | style='mso-bidi-font-weight:normal'>Background</b> tree item and change the <b |
---|
1032 | style='mso-bidi-font-weight:normal'>number of coefficients to 6</b>, as shown |
---|
1033 | below. <o:p></o:p></span></p> |
---|
1034 | |
---|
1035 | <p class=MsoNormal><span style='font-size:14.0pt'><!--[if gte vml 1]><v:shape |
---|
1036 | id="_x0000_i1039" type="#_x0000_t75" style='width:553pt;height:231pt'> |
---|
1037 | <v:imagedata src="FindProfParamCW_files/image029.png" o:title=""/> |
---|
1038 | </v:shape><![endif]--><![if !vml]><img border=0 width=555 height=233 |
---|
1039 | src="FindProfParamCW_files/image030.png" v:shapes="_x0000_i1039"><![endif]><o:p></o:p></span></p> |
---|
1040 | |
---|
1041 | <p class=MsoNormal><span style='font-size:14.0pt'>Then return to the <b |
---|
1042 | style='mso-bidi-font-weight:normal'>Peak List</b> data tree item and use the <b |
---|
1043 | style='mso-bidi-font-weight:normal'>Peak Fitting/<span class=SpellE>Peakfit</span></b> |
---|
1044 | menu item to perform a peak refinement. At this point it is instructive to |
---|
1045 | click on the <b style='mso-bidi-font-weight:normal'>Instrument Parameters</b> |
---|
1046 | data tree item to see a plot of peak widths:<o:p></o:p></span></p> |
---|
1047 | |
---|
1048 | <p class=MsoNormal><span style='font-size:14.0pt'><!--[if gte vml 1]><v:shape |
---|
1049 | id="_x0000_i1040" type="#_x0000_t75" style='width:457pt;height:374pt'> |
---|
1050 | <v:imagedata src="FindProfParamCW_files/image031.png" o:title=""/> |
---|
1051 | </v:shape><![endif]--><![if !vml]><img border=0 width=459 height=376 |
---|
1052 | src="FindProfParamCW_files/image032.png" v:shapes="_x0000_i1040"><![endif]><o:p></o:p></span></p> |
---|
1053 | |
---|
1054 | <p class=MsoNormal><span style='font-size:14.0pt'>Note that the solid curves |
---|
1055 | here are plots of the profile coefficients from the default instrument |
---|
1056 | parameters (which are unimportant here), but the fits for the individual peaks |
---|
1057 | are shown (in units of Q/delta-Q <span class=SpellE>vs</span> Q), with |
---|
1058 | Lorentzian widths (gamma) in green, Gaussian widths (sigma) in red and their |
---|
1059 | convolution (total broadening) in blue. <o:p></o:p></span></p> |
---|
1060 | |
---|
1061 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
1062 | |
---|
1063 | <h3><span style='font-size:14.0pt'>Step 9: Refine Profile Parameters<o:p></o:p></span></h3> |
---|
1064 | |
---|
1065 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
1066 | |
---|
1067 | <p class=MsoNormal><span style='font-size:14.0pt'>Now, select the profile terms |
---|
1068 | to be <b style='mso-bidi-font-weight:normal'>refine</b>d. Use <b |
---|
1069 | style='mso-bidi-font-weight:normal'>Gaussian U, V, & W and Lorentzian X |
---|
1070 | & Y</b> (note that Z, which provides constant broadening, independent of Q, |
---|
1071 | is provided as an option, but is rarely if ever needed.)<o:p></o:p></span></p> |
---|
1072 | |
---|
1073 | <p class=MsoNormal><span style='font-size:14.0pt'><!--[if gte vml 1]><v:shape |
---|
1074 | id="_x0000_i1041" type="#_x0000_t75" style='width:505pt;height:263pt'> |
---|
1075 | <v:imagedata src="FindProfParamCW_files/image033.png" o:title=""/> |
---|
1076 | </v:shape><![endif]--><![if !vml]><img border=0 width=507 height=265 |
---|
1077 | src="FindProfParamCW_files/image034.png" v:shapes="_x0000_i1041"><![endif]><o:p></o:p></span></p> |
---|
1078 | |
---|
1079 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
1080 | |
---|
1081 | <p class=MsoNormal><span style='font-size:14.0pt'>Note that these U, V & W |
---|
1082 | values will be used to set the Gaussian peak widths for those peaks where sigma |
---|
1083 | is not being refined and likewise X, Y & Z will be used to determine the |
---|
1084 | Lorentzian widths where gamma is not refined for that peak. If we had any peaks |
---|
1085 | that were not consistent with the width of the others, we might choose to |
---|
1086 | continue to refine their sigma & gamma values so they would not affect U, <span |
---|
1087 | class=GramE>V,É,</span> but here we will refine U, V, W, X & Y against all |
---|
1088 | peaks. Select the <b style='mso-bidi-font-weight:normal'>Peak List data</b> |
---|
1089 | tree item and <b style='mso-bidi-font-weight:normal'>remove refinement of sigma |
---|
1090 | & gamma</b> for all peaks by double-clicking on the refine column headers |
---|
1091 | for each and select ÒN – vary noneÓ so that the table appears as below:<o:p></o:p></span></p> |
---|
1092 | |
---|
1093 | <p class=MsoNormal><span style='font-size:14.0pt'><!--[if gte vml 1]><v:shape |
---|
1094 | id="_x0000_i1042" type="#_x0000_t75" style='width:533pt;height:207pt'> |
---|
1095 | <v:imagedata src="FindProfParamCW_files/image035.png" o:title=""/> |
---|
1096 | </v:shape><![endif]--><![if !vml]><img border=0 width=535 height=209 |
---|
1097 | src="FindProfParamCW_files/image036.png" v:shapes="_x0000_i1042"><![endif]><o:p></o:p></span></p> |
---|
1098 | |
---|
1099 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
1100 | |
---|
1101 | <p class=MsoNormal><span style='font-size:14.0pt'>Use the <b style='mso-bidi-font-weight: |
---|
1102 | normal'>Peak Fitting/<span class=SpellE>Peakfit</span></b> menu item to perform |
---|
1103 | a peak refinement optimizing U, V, W, <span class=GramE>X</span> & Y:<o:p></o:p></span></p> |
---|
1104 | |
---|
1105 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
1106 | |
---|
1107 | <p class=MsoNormal><span style='font-size:14.0pt'><!--[if gte vml 1]><v:shape |
---|
1108 | id="_x0000_i1043" type="#_x0000_t75" style='width:510pt;height:198pt'> |
---|
1109 | <v:imagedata src="FindProfParamCW_files/image037.png" o:title=""/> |
---|
1110 | </v:shape><![endif]--><![if !vml]><img border=0 width=512 height=200 |
---|
1111 | src="FindProfParamCW_files/image038.png" v:shapes="_x0000_i1043"><![endif]><o:p></o:p></span></p> |
---|
1112 | |
---|
1113 | <p class=MsoNormal><span style='font-size:14.0pt'>Note that the sigma and gamma |
---|
1114 | values are now computed from U, V, & W and X & Y, respectively. The |
---|
1115 | difference curve shows very small deviations.<o:p></o:p></span></p> |
---|
1116 | |
---|
1117 | <p class=MsoNormal><span style='font-size:14.0pt'><span |
---|
1118 | style="mso-spacerun:yes"> </span><!--[if gte vml 1]><v:shape id="_x0000_i1044" |
---|
1119 | type="#_x0000_t75" style='width:460pt;height:323pt'> |
---|
1120 | <v:imagedata src="FindProfParamCW_files/image039.png" o:title=""/> |
---|
1121 | </v:shape><![endif]--><![if !vml]><img border=0 width=462 height=325 |
---|
1122 | src="FindProfParamCW_files/image040.png" v:shapes="_x0000_i1044"><![endif]><o:p></o:p></span></p> |
---|
1123 | |
---|
1124 | <p class=MsoNormal><span style='font-size:14.0pt'>Note that the background is |
---|
1125 | also quite well fit now. <o:p></o:p></span></p> |
---|
1126 | |
---|
1127 | <h3><span style='font-size:14.0pt'>Step 10: Save the Profile Parameters<o:p></o:p></span></h3> |
---|
1128 | |
---|
1129 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
1130 | |
---|
1131 | <p class=MsoNormal><span style='font-size:14.0pt'>So that we can use these |
---|
1132 | profile terms as the starting point for a future refinement, <b |
---|
1133 | style='mso-bidi-font-weight:normal'>save the profile terms</b> to a file by |
---|
1134 | clicking on the <b style='mso-bidi-font-weight:normal'>Instrumental Parameters</b> |
---|
1135 | data tree item and use the <b style='mso-bidi-font-weight:normal'>Operations/Save |
---|
1136 | Profile</b> menu command. Give the file a name that will be helpful for future |
---|
1137 | use (<<span class=SpellE><i style='mso-bidi-font-style:normal'>MyInstrument</i></span><i |
---|
1138 | style='mso-bidi-font-style:normal'>></i>20-70deg.instparm might be good) and |
---|
1139 | put this file in the directory(s) where you will keep your data files. <o:p></o:p></span></p> |
---|
1140 | |
---|
1141 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
1142 | |
---|
1143 | <p class=MsoNormal><span style='font-size:14.0pt'>Clicking on the Instrument |
---|
1144 | Parameters data tree item will show the peak widths from U, V, W, X & Y, |
---|
1145 | and also the individual peak widths generated from those values (not very |
---|
1146 | useful). For a more useful plot we refining the individual peak widths |
---|
1147 | independently again, as shown in the next section. <o:p></o:p></span></p> |
---|
1148 | |
---|
1149 | <h3><span style='font-size:14.0pt'>Step 11: Plot Profile Parameters with |
---|
1150 | Individual Peak Widths (optional)<o:p></o:p></span></h3> |
---|
1151 | |
---|
1152 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
1153 | |
---|
1154 | <p class=MsoNormal><span style='font-size:14.0pt'>First we <b style='mso-bidi-font-weight: |
---|
1155 | normal'>stop refining U, V, W, <span class=GramE>X</span> & Y</b> by |
---|
1156 | clicking on <b style='mso-bidi-font-weight:normal'>Instrumental Parameters</b> |
---|
1157 | data tree item and turning the refinement flags off. <o:p></o:p></span></p> |
---|
1158 | |
---|
1159 | <p class=MsoNormal><span style='font-size:14.0pt'><!--[if gte vml 1]><v:shape |
---|
1160 | id="_x0000_i1046" type="#_x0000_t75" style='width:393pt;height:254pt'> |
---|
1161 | <v:imagedata src="FindProfParamCW_files/image041.png" o:title=""/> |
---|
1162 | </v:shape><![endif]--><![if !vml]><img border=0 width=395 height=256 |
---|
1163 | src="FindProfParamCW_files/image042.png" v:shapes="_x0000_i1046"><![endif]><o:p></o:p></span></p> |
---|
1164 | |
---|
1165 | <p class=MsoNormal><span style='font-size:14.0pt'>In the <b style='mso-bidi-font-weight: |
---|
1166 | normal'>Peak List</b> data tree item, turn on<b style='mso-bidi-font-weight: |
---|
1167 | normal'> refine</b>ment of<b style='mso-bidi-font-weight:normal'> all |
---|
1168 | individual peak widths</b> (as we did in Step 7)<o:p></o:p></span></p> |
---|
1169 | |
---|
1170 | <p class=MsoNormal><span style='font-size:14.0pt'><!--[if gte vml 1]><v:shape |
---|
1171 | id="_x0000_i1047" type="#_x0000_t75" style='width:545pt;height:195pt'> |
---|
1172 | <v:imagedata src="FindProfParamCW_files/image043.png" o:title=""/> |
---|
1173 | </v:shape><![endif]--><![if !vml]><img border=0 width=547 height=197 |
---|
1174 | src="FindProfParamCW_files/image044.png" v:shapes="_x0000_i1047"><![endif]><o:p></o:p></span></p> |
---|
1175 | |
---|
1176 | <p class=MsoNormal><span class=GramE><span style='font-size:14.0pt'>and</span></span><span |
---|
1177 | style='font-size:14.0pt'> use the <b style='mso-bidi-font-weight:normal'>Peak |
---|
1178 | Fitting/<span class=SpellE>Peakfit</span></b> menu item to perform a peak |
---|
1179 | refinement optimizing individual peak widths, as before. Returning to the <b |
---|
1180 | style='mso-bidi-font-weight:normal'>Instrumental Parameters</b> data tree item |
---|
1181 | provides this plot:<o:p></o:p></span></p> |
---|
1182 | |
---|
1183 | <p class=MsoNormal><span style='font-size:14.0pt'><o:p> </o:p></span></p> |
---|
1184 | |
---|
1185 | <p class=MsoNormal><span style='font-size:14.0pt'><!--[if gte vml 1]><v:shape |
---|
1186 | id="_x0000_i1048" type="#_x0000_t75" style='width:537pt;height:426pt'> |
---|
1187 | <v:imagedata src="FindProfParamCW_files/image045.png" o:title=""/> |
---|
1188 | </v:shape><![endif]--><![if !vml]><img border=0 width=539 height=428 |
---|
1189 | src="FindProfParamCW_files/image046.png" v:shapes="_x0000_i1048"><![endif]><o:p></o:p></span></p> |
---|
1190 | |
---|
1191 | <p class=MsoNormal><span style='font-size:14.0pt'>The displayed lines and |
---|
1192 | points are as follows, where Lorentzian widths are shown in green, Gaussian |
---|
1193 | widths are in red and their convolution (total broadening) is shown in blue: <o:p></o:p></span></p> |
---|
1194 | |
---|
1195 | <p class=MsoNormal style='margin-left:.5in;text-indent:-.25in;mso-list:l0 level1 lfo1'><![if !supportLists]><span |
---|
1196 | style='font-size:14.0pt;font-family:Symbol;mso-fareast-font-family:Symbol; |
---|
1197 | mso-bidi-font-family:Symbol'><span style='mso-list:Ignore'>á<span |
---|
1198 | style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]><b |
---|
1199 | style='mso-bidi-font-weight:normal'><span style='font-size:14.0pt'>Solid curves</span></b><span |
---|
1200 | style='font-size:14.0pt'>: profile terms from original instrument parameter |
---|
1201 | file (here the <span class=SpellE>CuKa</span> lab data defaults). Note since X, |
---|
1202 | Y & Z are zero, there is only Gaussian broadening and the total broadening |
---|
1203 | is exactly the same as the Gaussian so the blue curve hides the red one. <o:p></o:p></span></p> |
---|
1204 | |
---|
1205 | <p class=MsoNormal style='margin-left:.5in;text-indent:-.25in;mso-list:l0 level1 lfo1'><![if !supportLists]><span |
---|
1206 | style='font-size:14.0pt;font-family:Symbol;mso-fareast-font-family:Symbol; |
---|
1207 | mso-bidi-font-family:Symbol'><span style='mso-list:Ignore'>á<span |
---|
1208 | style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]><b |
---|
1209 | style='mso-bidi-font-weight:normal'><span style='font-size:14.0pt'>Dashed |
---|
1210 | curves:</span></b><span style='font-size:14.0pt'> <span class=GramE>these |
---|
1211 | values are generated by U, V & W and X, Y & Z. Note that the broadening |
---|
1212 | from this instrument is significantly greater than the default</span> values. <o:p></o:p></span></p> |
---|
1213 | |
---|
1214 | <p class=MsoNormal style='margin-left:.5in;text-indent:-.25in;mso-list:l0 level1 lfo1'><![if !supportLists]><span |
---|
1215 | style='font-size:14.0pt;font-family:Symbol;mso-fareast-font-family:Symbol; |
---|
1216 | mso-bidi-font-family:Symbol'><span style='mso-list:Ignore'>á<span |
---|
1217 | style='font:7.0pt "Times New Roman"'> </span></span></span><![endif]><b |
---|
1218 | style='mso-bidi-font-weight:normal'><span style='font-size:14.0pt'>Plus signs |
---|
1219 | (points):</span></b><span style='font-size:14.0pt'> these are the widths for |
---|
1220 | the individual reflections unconstrained. Note that they agree well with the |
---|
1221 | fitted curves (dashed lines).<span style="mso-spacerun:yes"> </span><o:p></o:p></span></p> |
---|
1222 | |
---|
1223 | </div> |
---|
1224 | |
---|
1225 | </body> |
---|
1226 | |
---|
1227 | </html> |
---|