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9 | <meta name=Keywords content=""> |
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12 | <meta name=Generator content="Microsoft Word 14"> |
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13 | <meta name=Originator content="Microsoft Word 14"> |
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14 | <link rel=File-List href="FapatitleExample_files/filelist.xml"> |
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16 | <!--[if !mso]> |
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19 | o\:* {behavior:url(#default#VML);} |
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20 | w\:* {behavior:url(#default#VML);} |
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24 | <o:DocumentProperties> |
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25 | <o:Author>B Toby</o:Author> |
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26 | <o:LastAuthor>B Toby</o:LastAuthor> |
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27 | <o:Revision>5</o:Revision> |
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28 | <o:TotalTime>100</o:TotalTime> |
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29 | <o:LastPrinted>2012-06-22T19:54:00Z</o:LastPrinted> |
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30 | <o:Created>2012-06-22T20:12:00Z</o:Created> |
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31 | <o:LastSaved>2012-06-22T23:31:00Z</o:LastSaved> |
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32 | <o:Pages>15</o:Pages> |
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34 | <o:Characters>5714</o:Characters> |
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35 | <o:Company>Argonne National Laboratory</o:Company> |
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37 | <o:Paragraphs>13</o:Paragraphs> |
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38 | <o:CharactersWithSpaces>6703</o:CharactersWithSpaces> |
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43 | </o:OfficeDocumentSettings> |
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347 | UnhideWhenUsed="false" QFormat="true" Name="Intense Reference"/> |
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348 | <w:LsdException Locked="false" Priority="33" SemiHidden="false" |
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349 | UnhideWhenUsed="false" QFormat="true" Name="Book Title"/> |
---|
350 | <w:LsdException Locked="false" Priority="37" Name="Bibliography"/> |
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351 | <w:LsdException Locked="false" Priority="39" QFormat="true" Name="TOC Heading"/> |
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352 | </w:LatentStyles> |
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353 | </xml><![endif]--> |
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355 | <!-- |
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356 | /* Font Definitions */ |
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357 | @font-face |
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358 | {font-family:"\FF2D\FF33 \660E\671D"; |
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359 | mso-font-charset:78; |
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445 | mso-gram-e:yes;} |
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461 | --> |
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462 | </style> |
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463 | <!--[if gte mso 10]> |
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464 | <style> |
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465 | /* Style Definitions */ |
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466 | table.MsoNormalTable |
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467 | {mso-style-name:"Table Normal"; |
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468 | mso-tstyle-rowband-size:0; |
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469 | mso-tstyle-colband-size:0; |
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470 | mso-style-noshow:yes; |
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471 | mso-style-priority:99; |
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472 | mso-style-parent:""; |
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473 | mso-padding-alt:0in 5.4pt 0in 5.4pt; |
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475 | mso-para-margin-bottom:.0001pt; |
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479 | </style> |
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480 | <![endif]--><!--[if gte mso 9]><xml> |
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481 | <o:shapedefaults v:ext="edit" spidmax="1026"/> |
---|
482 | </xml><![endif]--><!--[if gte mso 9]><xml> |
---|
483 | <o:shapelayout v:ext="edit"> |
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484 | <o:idmap v:ext="edit" data="1"/> |
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485 | </o:shapelayout></xml><![endif]--> |
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486 | </head> |
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487 | |
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488 | <body lang=EN-US link=blue vlink=purple style='tab-interval:.5in'> |
---|
489 | |
---|
490 | <div class=WordSection1> |
---|
491 | |
---|
492 | <p class=MsoNormal>Se<span style='mso-fareast-font-family:"Times New Roman"'>e <a |
---|
493 | href="https://subversion.xor.aps.anl.gov/trac/EXPGUI/browser/tutorials/tutorial4"><span |
---|
494 | class=icon><span style='color:blue'>https://subversion.xor.aps.anl.gov/trac/EXPGUI/browser/tutorials/tutorial4</span></span></a> |
---|
495 | for files. Download and expand the FAP.zip file or download the four files that |
---|
496 | are contained (FAP.GSA, <span class=SpellE>FAP.cif</span>, FapatitleExample.pdf, |
---|
497 | INST_XRY.PRM) one at <span class=SpellE>at</span> time. To download, click on |
---|
498 | the file and then use "Download in other formats:" Original Format to |
---|
499 | start the download (at bottom of page) to do this.</span></p> |
---|
500 | |
---|
501 | <p class=MsoNormal><o:p> </o:p></p> |
---|
502 | |
---|
503 | <p class=MsoNormal>Start EXPGUI</p> |
---|
504 | |
---|
505 | <p class=MsoNormal><span style='mso-fareast-language:EN-US;mso-no-proof:yes'><!--[if gte vml 1]><v:shapetype |
---|
506 | id="_x0000_t75" coordsize="21600,21600" o:spt="75" o:preferrelative="t" |
---|
507 | path="m@4@5l@4@11@9@11@9@5xe" filled="f" stroked="f"> |
---|
508 | <v:stroke joinstyle="miter"/> |
---|
509 | <v:formulas> |
---|
510 | <v:f eqn="if lineDrawn pixelLineWidth 0"/> |
---|
511 | <v:f eqn="sum @0 1 0"/> |
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512 | <v:f eqn="sum 0 0 @1"/> |
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513 | <v:f eqn="prod @2 1 2"/> |
---|
514 | <v:f eqn="prod @3 21600 pixelWidth"/> |
---|
515 | <v:f eqn="prod @3 21600 pixelHeight"/> |
---|
516 | <v:f eqn="sum @0 0 1"/> |
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517 | <v:f eqn="prod @6 1 2"/> |
---|
518 | <v:f eqn="prod @7 21600 pixelWidth"/> |
---|
519 | <v:f eqn="sum @8 21600 0"/> |
---|
520 | <v:f eqn="prod @7 21600 pixelHeight"/> |
---|
521 | <v:f eqn="sum @10 21600 0"/> |
---|
522 | </v:formulas> |
---|
523 | <v:path o:extrusionok="f" gradientshapeok="t" o:connecttype="rect"/> |
---|
524 | <o:lock v:ext="edit" aspectratio="t"/> |
---|
525 | </v:shapetype><v:shape id="Picture_x0020_1" o:spid="_x0000_i1060" type="#_x0000_t75" |
---|
526 | style='width:404pt;height:291pt;visibility:visible;mso-wrap-style:square'> |
---|
527 | <v:imagedata src="FapatitleExample_files/image001.png" o:title=""/> |
---|
528 | </v:shape><![endif]--><![if !vml]><img border=0 width=406 height=293 |
---|
529 | src="FapatitleExample_files/image002.png" v:shapes="Picture_x0020_1"><![endif]></span></p> |
---|
530 | |
---|
531 | <p class=MsoNormal>Enter a name for the experiment file (your choice).<span |
---|
532 | style="mso-spacerun:yes"> </span>Press Read. Since this is a file we want |
---|
533 | to create we get a warning box:</p> |
---|
534 | |
---|
535 | <p class=MsoNormal><span style='mso-fareast-language:EN-US;mso-no-proof:yes'><!--[if gte vml 1]><v:shape |
---|
536 | id="Picture_x0020_2" o:spid="_x0000_i1059" type="#_x0000_t75" style='width:404pt; |
---|
537 | height:122pt;visibility:visible;mso-wrap-style:square'> |
---|
538 | <v:imagedata src="FapatitleExample_files/image003.png" o:title=""/> |
---|
539 | </v:shape><![endif]--><![if !vml]><img border=0 width=406 height=124 |
---|
540 | src="FapatitleExample_files/image004.png" v:shapes="Picture_x0020_2"><![endif]></span></p> |
---|
541 | |
---|
542 | <p class=MsoNormal>Press Create and enter an arbitrary title (for your own |
---|
543 | use):</p> |
---|
544 | |
---|
545 | <p class=MsoNormal><span style='mso-fareast-language:EN-US;mso-no-proof:yes'><!--[if gte vml 1]><v:shape |
---|
546 | id="Picture_x0020_3" o:spid="_x0000_i1058" type="#_x0000_t75" style='width:402pt; |
---|
547 | height:106pt;visibility:visible;mso-wrap-style:square'> |
---|
548 | <v:imagedata src="FapatitleExample_files/image005.png" o:title=""/> |
---|
549 | </v:shape><![endif]--><![if !vml]><img border=0 width=404 height=108 |
---|
550 | src="FapatitleExample_files/image006.png" v:shapes="Picture_x0020_3"><![endif]></span></p> |
---|
551 | |
---|
552 | <p class=MsoNormal>Press Continue. EXPGUI then opens and brings you to the |
---|
553 | phase panel (this is a hint). Note that almost all other tabs are disabled |
---|
554 | (also a hint).</p> |
---|
555 | |
---|
556 | <p class=MsoNormal><span style='mso-fareast-language:EN-US;mso-no-proof:yes'><!--[if gte vml 1]><v:shape |
---|
557 | id="Picture_x0020_4" o:spid="_x0000_i1057" type="#_x0000_t75" style='width:445pt; |
---|
558 | height:306pt;visibility:visible;mso-wrap-style:square'> |
---|
559 | <v:imagedata src="FapatitleExample_files/image007.png" o:title=""/> |
---|
560 | </v:shape><![endif]--><![if !vml]><img border=0 width=447 height=308 |
---|
561 | src="FapatitleExample_files/image008.png" v:shapes="Picture_x0020_4"><![endif]></span></p> |
---|
562 | |
---|
563 | <p class=MsoNormal>Press Add Phase to enter the structural information. Note |
---|
564 | that we are going to read a cell and atoms in one step, but this can be done in |
---|
565 | different steps. This information can be read from a file or be typed into |
---|
566 | windows. </p> |
---|
567 | |
---|
568 | <p class=MsoNormal><span style='mso-fareast-language:EN-US;mso-no-proof:yes'><!--[if gte vml 1]><v:shape |
---|
569 | id="Picture_x0020_5" o:spid="_x0000_i1056" type="#_x0000_t75" style='width:523pt; |
---|
570 | height:155pt;visibility:visible;mso-wrap-style:square'> |
---|
571 | <v:imagedata src="FapatitleExample_files/image009.png" o:title=""/> |
---|
572 | </v:shape><![endif]--><![if !vml]><img border=0 width=525 height=157 |
---|
573 | src="FapatitleExample_files/image010.png" v:shapes="Picture_x0020_5"><![endif]></span></p> |
---|
574 | |
---|
575 | <p class=MsoNormal>Here we read from a CIF file by changing <span class=SpellE>PowderCell</span> |
---|
576 | to CIF. This brings up a window where we can select the CIF file (note this |
---|
577 | window will appear different depending on the operating system):</p> |
---|
578 | |
---|
579 | <p class=MsoNormal><span style='mso-fareast-language:EN-US;mso-no-proof:yes'><!--[if gte vml 1]><v:shape |
---|
580 | id="Picture_x0020_6" o:spid="_x0000_i1055" type="#_x0000_t75" style='width:474pt; |
---|
581 | height:240pt;visibility:visible;mso-wrap-style:square'> |
---|
582 | <v:imagedata src="FapatitleExample_files/image011.png" o:title=""/> |
---|
583 | </v:shape><![endif]--><![if !vml]><img border=0 width=476 height=242 |
---|
584 | src="FapatitleExample_files/image012.png" v:shapes="Picture_x0020_6"><![endif]></span></p> |
---|
585 | |
---|
586 | <p class=MsoNormal>Press Open. Lattice/space group information is loaded into |
---|
587 | the window for us:</p> |
---|
588 | |
---|
589 | <p class=MsoNormal><span style='mso-fareast-language:EN-US;mso-no-proof:yes'><!--[if gte vml 1]><v:shape |
---|
590 | id="Picture_x0020_7" o:spid="_x0000_i1054" type="#_x0000_t75" style='width:493pt; |
---|
591 | height:139pt;visibility:visible;mso-wrap-style:square'> |
---|
592 | <v:imagedata src="FapatitleExample_files/image013.png" o:title=""/> |
---|
593 | </v:shape><![endif]--><![if !vml]><img border=0 width=495 height=141 |
---|
594 | src="FapatitleExample_files/image014.png" v:shapes="Picture_x0020_7"><![endif]></span></p> |
---|
595 | |
---|
596 | <p class=MsoNormal>Look this information <span class=GramE>over,</span> it is |
---|
597 | not always correct – particularly the space group (at least one space is |
---|
598 | needed here between the P and the 6, for example). Here all is OK so, press |
---|
599 | Continue. EXPGUI shows the generated symmetry operations:</p> |
---|
600 | |
---|
601 | <p class=MsoNormal><span style='mso-fareast-language:EN-US;mso-no-proof:yes'><!--[if gte vml 1]><v:shape |
---|
602 | id="Picture_x0020_8" o:spid="_x0000_i1053" type="#_x0000_t75" style='width:394pt; |
---|
603 | height:278pt;visibility:visible;mso-wrap-style:square'> |
---|
604 | <v:imagedata src="FapatitleExample_files/image015.png" o:title=""/> |
---|
605 | </v:shape><![endif]--><![if !vml]><img border=0 width=396 height=280 |
---|
606 | src="FapatitleExample_files/image016.png" v:shapes="Picture_x0020_8"><![endif]></span></p> |
---|
607 | |
---|
608 | <p class=MsoNormal>It is a good idea to check these against the International |
---|
609 | Tables Volume A. These are what <span class=GramE>was</span> wanted, so we |
---|
610 | press Continue. Next we see the atoms:</p> |
---|
611 | |
---|
612 | <p class=MsoNormal><span style="mso-spacerun:yes"> </span><span |
---|
613 | style='mso-fareast-language:EN-US;mso-no-proof:yes'><!--[if gte vml 1]><v:shape |
---|
614 | id="Picture_x0020_9" o:spid="_x0000_i1052" type="#_x0000_t75" style='width:374pt; |
---|
615 | height:225pt;visibility:visible;mso-wrap-style:square'> |
---|
616 | <v:imagedata src="FapatitleExample_files/image017.png" o:title=""/> |
---|
617 | </v:shape><![endif]--><![if !vml]><img border=0 width=376 height=227 |
---|
618 | src="FapatitleExample_files/image018.png" v:shapes="Picture_x0020_9"><![endif]></span></p> |
---|
619 | |
---|
620 | <p class=MsoNormal>Note that these <span class=SpellE>Uiso</span> values are very |
---|
621 | large! This CIF must have them wrong. We can change them now, but we will deal |
---|
622 | with this later. Otherwise the input is OK, so press Add Atoms to continue. Now |
---|
623 | the Phase panel has been filled out with our first (and in this case, only) |
---|
624 | phase. Note we can now access the Powder panel. So lets do that. Now we will |
---|
625 | add data (a histogram in GSAS jargon).</p> |
---|
626 | |
---|
627 | <p class=MsoNormal><span style="mso-spacerun:yes"> </span><span |
---|
628 | style='mso-fareast-language:EN-US;mso-no-proof:yes'><!--[if gte vml 1]><v:shape |
---|
629 | id="Picture_x0020_10" o:spid="_x0000_i1051" type="#_x0000_t75" style='width:419pt; |
---|
630 | height:289pt;visibility:visible;mso-wrap-style:square'> |
---|
631 | <v:imagedata src="FapatitleExample_files/image019.png" o:title=""/> |
---|
632 | </v:shape><![endif]--><![if !vml]><img border=0 width=421 height=291 |
---|
633 | src="FapatitleExample_files/image020.png" v:shapes="Picture_x0020_10"><![endif]></span></p> |
---|
634 | |
---|
635 | <p class=MsoNormal>Press Add New Histogram (at bottom). Here we will enter the |
---|
636 | data file name by pressing the upper Select File button</p> |
---|
637 | |
---|
638 | <p class=MsoNormal><span style='mso-fareast-language:EN-US;mso-no-proof:yes'><!--[if gte vml 1]><v:shape |
---|
639 | id="Picture_x0020_11" o:spid="_x0000_i1050" type="#_x0000_t75" style='width:464pt; |
---|
640 | height:273pt;visibility:visible;mso-wrap-style:square'> |
---|
641 | <v:imagedata src="FapatitleExample_files/image021.png" o:title=""/> |
---|
642 | </v:shape><![endif]--><![if !vml]><img border=0 width=466 height=275 |
---|
643 | src="FapatitleExample_files/image022.png" v:shapes="Picture_x0020_11"><![endif]></span></p> |
---|
644 | |
---|
645 | <p class=MsoNormal>Select the FAP.GSA data file:</p> |
---|
646 | |
---|
647 | <p class=MsoNormal><span style='mso-fareast-language:EN-US;mso-no-proof:yes'><!--[if gte vml 1]><v:shape |
---|
648 | id="Picture_x0020_12" o:spid="_x0000_i1049" type="#_x0000_t75" style='width:435pt; |
---|
649 | height:238pt;visibility:visible;mso-wrap-style:square'> |
---|
650 | <v:imagedata src="FapatitleExample_files/image023.png" o:title=""/> |
---|
651 | </v:shape><![endif]--><![if !vml]><img border=0 width=437 height=240 |
---|
652 | src="FapatitleExample_files/image024.png" v:shapes="Picture_x0020_12"><![endif]></span></p> |
---|
653 | |
---|
654 | <p class=MsoNormal>Then press Open. We now need an instrument parameter file to |
---|
655 | specify the data type, provide default peak widths etc. We will use a |
---|
656 | GSAS-distributed file for this. Press the lower Select file button and select |
---|
657 | file INST_XRY.PRM</p> |
---|
658 | |
---|
659 | <p class=MsoNormal><span style='mso-fareast-language:EN-US;mso-no-proof:yes'><!--[if gte vml 1]><v:shape |
---|
660 | id="Picture_x0020_13" o:spid="_x0000_i1048" type="#_x0000_t75" style='width:425pt; |
---|
661 | height:257pt;visibility:visible;mso-wrap-style:square'> |
---|
662 | <v:imagedata src="FapatitleExample_files/image025.png" o:title=""/> |
---|
663 | </v:shape><![endif]--><![if !vml]><img border=0 width=427 height=259 |
---|
664 | src="FapatitleExample_files/image026.png" v:shapes="Picture_x0020_13"><![endif]></span></p> |
---|
665 | |
---|
666 | <p class=MsoNormal><span class=GramE>The press Open.</span> You may get a warning |
---|
667 | that you can ignore (just press OK):</p> |
---|
668 | |
---|
669 | <p class=MsoNormal><span style='mso-fareast-language:EN-US;mso-no-proof:yes'><!--[if gte vml 1]><v:shape |
---|
670 | id="Picture_x0020_14" o:spid="_x0000_i1047" type="#_x0000_t75" style='width:441pt; |
---|
671 | height:149pt;visibility:visible;mso-wrap-style:square'> |
---|
672 | <v:imagedata src="FapatitleExample_files/image027.png" o:title=""/> |
---|
673 | </v:shape><![endif]--><![if !vml]><img border=0 width=443 height=151 |
---|
674 | src="FapatitleExample_files/image028.png" v:shapes="Picture_x0020_14"><![endif]></span></p> |
---|
675 | |
---|
676 | <p class=MsoNormal>The powder histogram information is now ready to be added to |
---|
677 | the experiment, but before we do that we might want to change the data limit to |
---|
678 | use less data. One can use RAWPLOT to look at the data, but here lets use all |
---|
679 | the data (to 130 degrees). </p> |
---|
680 | |
---|
681 | <p class=MsoNormal><span style='mso-fareast-language:EN-US;mso-no-proof:yes'><!--[if gte vml 1]><v:shape |
---|
682 | id="Picture_x0020_15" o:spid="_x0000_i1046" type="#_x0000_t75" style='width:435pt; |
---|
683 | height:264pt;visibility:visible;mso-wrap-style:square'> |
---|
684 | <v:imagedata src="FapatitleExample_files/image029.png" o:title=""/> |
---|
685 | </v:shape><![endif]--><![if !vml]><img border=0 width=437 height=266 |
---|
686 | src="FapatitleExample_files/image030.png" v:shapes="Picture_x0020_15"><![endif]></span></p> |
---|
687 | |
---|
688 | <p class=MsoNormal>Press Add to add the data.<span |
---|
689 | style="mso-spacerun:yes"> </span>We see this in the Histogram panel:</p> |
---|
690 | |
---|
691 | <p class=MsoNormal><span style='mso-fareast-language:EN-US;mso-no-proof:yes'><!--[if gte vml 1]><v:shape |
---|
692 | id="Picture_x0020_16" o:spid="_x0000_i1045" type="#_x0000_t75" style='width:610pt; |
---|
693 | height:427pt;visibility:visible;mso-wrap-style:square'> |
---|
694 | <v:imagedata src="FapatitleExample_files/image031.png" o:title=""/> |
---|
695 | </v:shape><![endif]--><![if !vml]><img border=0 width=612 height=429 |
---|
696 | src="FapatitleExample_files/image032.png" v:shapes="Picture_x0020_16"><![endif]></span></p> |
---|
697 | |
---|
698 | <p class=MsoNormal><o:p> </o:p></p> |
---|
699 | |
---|
700 | <p class=MsoNormal>Before we do any refinement, we should see what the pattern |
---|
701 | looks like. On the controls panel set the number of cycles to zero:</p> |
---|
702 | |
---|
703 | <p class=MsoNormal><span style='mso-fareast-language:EN-US;mso-no-proof:yes'><!--[if gte vml 1]><v:shape |
---|
704 | id="Picture_x0020_17" o:spid="_x0000_i1044" type="#_x0000_t75" style='width:623pt; |
---|
705 | height:434pt;visibility:visible;mso-wrap-style:square'> |
---|
706 | <v:imagedata src="FapatitleExample_files/image033.png" o:title=""/> |
---|
707 | </v:shape><![endif]--><![if !vml]><img border=0 width=625 height=436 |
---|
708 | src="FapatitleExample_files/image034.png" v:shapes="Picture_x0020_17"><![endif]></span></p> |
---|
709 | |
---|
710 | <p class=MsoNormal>To start running press the <span class=SpellE>powpref</span> |
---|
711 | button</p> |
---|
712 | |
---|
713 | <p class=MsoNormal><span style='mso-fareast-language:EN-US;mso-no-proof:yes'><!--[if gte vml 1]><v:shape |
---|
714 | id="Picture_x0020_18" o:spid="_x0000_i1043" type="#_x0000_t75" style='width:483pt; |
---|
715 | height:335pt;visibility:visible;mso-wrap-style:square'> |
---|
716 | <v:imagedata src="FapatitleExample_files/image035.png" o:title=""/> |
---|
717 | </v:shape><![endif]--><![if !vml]><img border=0 width=485 height=337 |
---|
718 | src="FapatitleExample_files/image036.png" v:shapes="Picture_x0020_18"><![endif]></span></p> |
---|
719 | |
---|
720 | <p class=MsoNormal><span class=GramE>Press Enter in the window to continue.</span> |
---|
721 | The <span class=GramE>EXP file has been changed by the POWPREF program</span>, |
---|
722 | so we press Load New </p> |
---|
723 | |
---|
724 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1216" type="#_x0000_t75" |
---|
725 | style='width:364pt;height:203pt'> |
---|
726 | <v:imagedata src="FapatitleExample_files/image037.png" o:title=""/> |
---|
727 | </v:shape><![endif]--><![if !vml]><img border=0 width=366 height=205 |
---|
728 | src="FapatitleExample_files/image038.png" v:shapes="_x0000_i1216"><![endif]></p> |
---|
729 | |
---|
730 | <p class=MsoNormal>Then press the <span class=SpellE>genles</span> button to |
---|
731 | start that program. With 0 cycles, it will compute the powder intensities, but |
---|
732 | not refine any parameters. </p> |
---|
733 | |
---|
734 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1067" type="#_x0000_t75" |
---|
735 | style='width:540pt;height:377pt'> |
---|
736 | <v:imagedata src="FapatitleExample_files/image039.png" o:title=""/> |
---|
737 | </v:shape><![endif]--><![if !vml]><img border=0 width=542 height=379 |
---|
738 | src="FapatitleExample_files/image040.png" v:shapes="_x0000_i1067"><![endif]></p> |
---|
739 | |
---|
740 | <p class=MsoNormal>As before press Enter and then Load New in the next window. |
---|
741 | Now press the <span class=SpellE>liveplot</span> button to see a plot. We see |
---|
742 | the plotted data, but no computed intensity. </p> |
---|
743 | |
---|
744 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1073" type="#_x0000_t75" |
---|
745 | style='width:469pt;height:471pt'> |
---|
746 | <v:imagedata src="FapatitleExample_files/image041.png" o:title=""/> |
---|
747 | </v:shape><![endif]--><![if !vml]><img border=0 width=471 height=473 |
---|
748 | src="FapatitleExample_files/image042.png" v:shapes="_x0000_i1073"><![endif]></p> |
---|
749 | |
---|
750 | <p class=MsoNormal>If we zoom in enough (drag a box with the left mouse button |
---|
751 | to zoom in; click with the right to zoom out), we see that there are computed |
---|
752 | intensities but they are computed with perhaps 50 counts, while the raw data |
---|
753 | have 20,000 counts.</p> |
---|
754 | |
---|
755 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1076" type="#_x0000_t75" |
---|
756 | style='width:535pt;height:537pt'> |
---|
757 | <v:imagedata src="FapatitleExample_files/image043.png" o:title=""/> |
---|
758 | </v:shape><![endif]--><![if !vml]><img border=0 width=537 height=539 |
---|
759 | src="FapatitleExample_files/image044.png" v:shapes="_x0000_i1076"><![endif]></p> |
---|
760 | |
---|
761 | <p class=MsoNormal>While we could refine the scale factor, lets instead |
---|
762 | multiply the scale factor by 20,000/50 (400) using the scaling panel:</p> |
---|
763 | |
---|
764 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1079" type="#_x0000_t75" |
---|
765 | style='width:535pt;height:405pt'> |
---|
766 | <v:imagedata src="FapatitleExample_files/image045.png" o:title=""/> |
---|
767 | </v:shape><![endif]--><![if !vml]><img border=0 width=537 height=407 |
---|
768 | src="FapatitleExample_files/image046.png" v:shapes="_x0000_i1079"><![endif]></p> |
---|
769 | |
---|
770 | <p class=MsoNormal>Then press <span class=SpellE>Genles</span>, press Enter and |
---|
771 | Load New as before. <span class=SpellE>Liveplot</span> updates to show us the |
---|
772 | new plot automatically:</p> |
---|
773 | |
---|
774 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1083" type="#_x0000_t75" |
---|
775 | style='width:496pt;height:500pt'> |
---|
776 | <v:imagedata src="FapatitleExample_files/image047.png" o:title=""/> |
---|
777 | </v:shape><![endif]--><![if !vml]><img border=0 width=498 height=502 |
---|
778 | src="FapatitleExample_files/image048.png" v:shapes="_x0000_i1083"><![endif]></p> |
---|
779 | |
---|
780 | <p class=MsoNormal>Or when we zoom out:</p> |
---|
781 | |
---|
782 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1086" type="#_x0000_t75" |
---|
783 | style='width:527pt;height:529pt'> |
---|
784 | <v:imagedata src="FapatitleExample_files/image049.png" o:title=""/> |
---|
785 | </v:shape><![endif]--><![if !vml]><img border=0 width=529 height=531 |
---|
786 | src="FapatitleExample_files/image050.png" v:shapes="_x0000_i1086"><![endif]></p> |
---|
787 | |
---|
788 | <p class=MsoNormal>Note that peaks are more or less lining up. The intensity |
---|
789 | falls off way too fast (this is due to the <span class=SpellE>Uiso</span> |
---|
790 | values being too high. Lets change them. On the phase panel drag the mouse over |
---|
791 | all atoms:</p> |
---|
792 | |
---|
793 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1095" type="#_x0000_t75" |
---|
794 | style='width:585pt;height:444pt'> |
---|
795 | <v:imagedata src="FapatitleExample_files/image051.png" o:title=""/> |
---|
796 | </v:shape><![endif]--><![if !vml]><img border=0 width=587 height=446 |
---|
797 | src="FapatitleExample_files/image052.png" v:shapes="_x0000_i1095"><![endif]></p> |
---|
798 | |
---|
799 | <p class=MsoNormal>Press Modify Atoms. Change the <span class=SpellE>Uiso</span> |
---|
800 | value in the new window to 0.01</p> |
---|
801 | |
---|
802 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1103" type="#_x0000_t75" |
---|
803 | style='width:399pt;height:593pt'> |
---|
804 | <v:imagedata src="FapatitleExample_files/image053.png" o:title=""/> |
---|
805 | </v:shape><![endif]--><![if !vml]><img border=0 width=401 height=595 |
---|
806 | src="FapatitleExample_files/image054.png" v:shapes="_x0000_i1103"><![endif]></p> |
---|
807 | |
---|
808 | <p class=MsoNormal>Press Set U and then <span class=GramE>Close</span>. Note |
---|
809 | the <span class=SpellE>Uiso</span> values are now changed on the phase panel:</p> |
---|
810 | |
---|
811 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1111" type="#_x0000_t75" |
---|
812 | style='width:600pt;height:453pt'> |
---|
813 | <v:imagedata src="FapatitleExample_files/image055.png" o:title=""/> |
---|
814 | </v:shape><![endif]--><![if !vml]><img border=0 width=602 height=455 |
---|
815 | src="FapatitleExample_files/image056.png" v:shapes="_x0000_i1111"><![endif]></p> |
---|
816 | |
---|
817 | <p class=MsoNormal><span class=SpellE>Recompute</span> with <span class=SpellE>Genles</span>, |
---|
818 | as before. <span class=SpellE>Liveplot</span> now shows much better |
---|
819 | intensities, though now our scale factor is probably too big. </p> |
---|
820 | |
---|
821 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1113" type="#_x0000_t75" |
---|
822 | style='width:434pt;height:435pt'> |
---|
823 | <v:imagedata src="FapatitleExample_files/image057.png" o:title=""/> |
---|
824 | </v:shape><![endif]--><![if !vml]><img border=0 width=436 height=437 |
---|
825 | src="FapatitleExample_files/image058.png" v:shapes="_x0000_i1113"><![endif]></p> |
---|
826 | |
---|
827 | <p class=MsoNormal><o:p> </o:p></p> |
---|
828 | |
---|
829 | <p class=MsoNormal>Lets start refining the model to better fit the data. Change |
---|
830 | the number of cycles to 3</p> |
---|
831 | |
---|
832 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1117" type="#_x0000_t75" |
---|
833 | style='width:464pt;height:351pt'> |
---|
834 | <v:imagedata src="FapatitleExample_files/image059.png" o:title=""/> |
---|
835 | </v:shape><![endif]--><![if !vml]><img border=0 width=466 height=353 |
---|
836 | src="FapatitleExample_files/image060.png" v:shapes="_x0000_i1117"><![endif]></p> |
---|
837 | |
---|
838 | <p class=MsoNormal>Use the refine cell option on the phase panel</p> |
---|
839 | |
---|
840 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1127" type="#_x0000_t75" |
---|
841 | style='width:517pt;height:391pt'> |
---|
842 | <v:imagedata src="FapatitleExample_files/image061.png" o:title=""/> |
---|
843 | </v:shape><![endif]--><![if !vml]><img border=0 width=519 height=393 |
---|
844 | src="FapatitleExample_files/image062.png" v:shapes="_x0000_i1127"><![endif]></p> |
---|
845 | |
---|
846 | <p class=MsoNormal>Change the background to type 1 with six parameters. Select |
---|
847 | the Powder Panel, use Edit Background. One the edit cell window select function |
---|
848 | type 1, and number of terms 6. </p> |
---|
849 | |
---|
850 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1130" type="#_x0000_t75" |
---|
851 | style='width:507pt;height:175pt'> |
---|
852 | <v:imagedata src="FapatitleExample_files/image063.png" o:title=""/> |
---|
853 | </v:shape><![endif]--><![if !vml]><img border=0 width=509 height=177 |
---|
854 | src="FapatitleExample_files/image064.png" v:shapes="_x0000_i1130"><![endif]></p> |
---|
855 | |
---|
856 | <p class=MsoNormal><span class=GramE>The press Continue.</span> Confirm that |
---|
857 | Refine background is checked. </p> |
---|
858 | |
---|
859 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1133" type="#_x0000_t75" |
---|
860 | style='width:535pt;height:405pt'> |
---|
861 | <v:imagedata src="FapatitleExample_files/image065.png" o:title=""/> |
---|
862 | </v:shape><![endif]--><![if !vml]><img border=0 width=537 height=407 |
---|
863 | src="FapatitleExample_files/image066.png" v:shapes="_x0000_i1133"><![endif]></p> |
---|
864 | |
---|
865 | <p class=MsoNormal>Now lets refine by pressing the <span class=SpellE>genles</span> |
---|
866 | button.</p> |
---|
867 | |
---|
868 | <p class=MsoNormal>The GENLES output shows the <b style='mso-bidi-font-weight: |
---|
869 | normal'><span style='font-family:"Lucida Grande";color:black'>χ</span></b><sup><span |
---|
870 | style='mso-bidi-font-size:12.0pt'>2</span></sup> dropping from 6813 to 74<sup><span |
---|
871 | style='mso-bidi-font-size:12.0pt'><o:p></o:p></span></sup></p> |
---|
872 | |
---|
873 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1138" type="#_x0000_t75" |
---|
874 | style='width:502pt;height:349pt'> |
---|
875 | <v:imagedata src="FapatitleExample_files/image067.png" o:title=""/> |
---|
876 | </v:shape><![endif]--><![if !vml]><img border=0 width=504 height=351 |
---|
877 | src="FapatitleExample_files/image068.png" v:shapes="_x0000_i1138"><![endif]><!--[if gte vml 1]><v:shape |
---|
878 | id="_x0000_i1141" type="#_x0000_t75" style='width:513pt;height:357pt'> |
---|
879 | <v:imagedata src="FapatitleExample_files/image069.png" o:title=""/> |
---|
880 | </v:shape><![endif]--><![if !vml]><img border=0 width=515 height=359 |
---|
881 | src="FapatitleExample_files/image070.png" v:shapes="_x0000_i1141"><![endif]></p> |
---|
882 | |
---|
883 | <p class=MsoNormal><span class=SpellE>Liveplot</span> will also show the fit |
---|
884 | looks better. </p> |
---|
885 | |
---|
886 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1149" type="#_x0000_t75" |
---|
887 | style='width:591pt;height:593pt'> |
---|
888 | <v:imagedata src="FapatitleExample_files/image071.png" o:title=""/> |
---|
889 | </v:shape><![endif]--><![if !vml]><img border=0 width=593 height=595 |
---|
890 | src="FapatitleExample_files/image072.png" v:shapes="_x0000_i1149"><![endif]></p> |
---|
891 | |
---|
892 | <p class=MsoNormal>Run <span class=SpellE>powpref</span> and <span |
---|
893 | class=SpellE>genles</span> again (because the cell dimensions changed a fair |
---|
894 | amount). <b style='mso-bidi-font-weight:normal'><span style='font-family:"Lucida Grande"; |
---|
895 | color:black'>χ</span></b><sup><span style='mso-bidi-font-size:12.0pt'>2</span></sup> |
---|
896 | drops to 61.</p> |
---|
897 | |
---|
898 | <p class=MsoNormal><o:p> </o:p></p> |
---|
899 | |
---|
900 | <p class=MsoNormal>Zooming in on the pattern in <span class=SpellE>liveplot</span> |
---|
901 | shows the match to the intensities <span class=GramE>are</span> not bad. The |
---|
902 | peak shape is a bit narrow, but not bad. </p> |
---|
903 | |
---|
904 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1156" type="#_x0000_t75" |
---|
905 | style='width:463pt;height:464pt'> |
---|
906 | <v:imagedata src="FapatitleExample_files/image073.png" o:title=""/> |
---|
907 | </v:shape><![endif]--><![if !vml]><img border=0 width=465 height=466 |
---|
908 | src="FapatitleExample_files/image074.png" v:shapes="_x0000_i1156"><![endif]></p> |
---|
909 | |
---|
910 | <p class=MsoNormal>Select to refine the atom positions (as allowed by symmetry) |
---|
911 | and <span class=SpellE>Uiso</span> values by selecting all atoms and click on X |
---|
912 | and F below the atoms:</p> |
---|
913 | |
---|
914 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1159" type="#_x0000_t75" |
---|
915 | style='width:547pt;height:414pt'> |
---|
916 | <v:imagedata src="FapatitleExample_files/image075.png" o:title=""/> |
---|
917 | </v:shape><![endif]--><![if !vml]><img border=0 width=549 height=416 |
---|
918 | src="FapatitleExample_files/image076.png" v:shapes="_x0000_i1159"><![endif]></p> |
---|
919 | |
---|
920 | <p class=MsoNormal>Press <span class=SpellE>genles</span> to refine. The |
---|
921 | agreement improves a bit. If this structure were a bit more complex, we might |
---|
922 | have initially grouped some <span class=SpellE>Uiso</span> values or only vary |
---|
923 | some of the heavy atoms. </p> |
---|
924 | |
---|
925 | <p class=MsoNormal><o:p> </o:p></p> |
---|
926 | |
---|
927 | <p class=MsoNormal>Now lets improve the peak shapes. The initial profile is not |
---|
928 | fitting the tails of the pattern well (see the <span class=SpellE>liveplot</span> |
---|
929 | example above), so letÕs refine the two <span class=SpellE>Lorentian</span> |
---|
930 | terms LX and LY – but one at a time. <!--[if gte vml 1]><v:shape id="_x0000_i1162" |
---|
931 | type="#_x0000_t75" style='width:581pt;height:202pt'> |
---|
932 | <v:imagedata src="FapatitleExample_files/image077.png" o:title=""/> |
---|
933 | </v:shape><![endif]--><![if !vml]><img border=0 width=583 height=204 |
---|
934 | src="FapatitleExample_files/image078.png" v:shapes="_x0000_i1162"><![endif]></p> |
---|
935 | |
---|
936 | <p class=MsoNormal>Click on LX and then <span class=SpellE>genles</span>. <b |
---|
937 | style='mso-bidi-font-weight:normal'><span style='font-family:"Lucida Grande"; |
---|
938 | color:black'>χ</span></b><sup><span style='mso-bidi-font-size:12.0pt'>2</span></sup> |
---|
939 | drops to 29.</p> |
---|
940 | |
---|
941 | <p class=MsoNormal>Try the same with LY turning LX off</p> |
---|
942 | |
---|
943 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1163" type="#_x0000_t75" |
---|
944 | style='width:464pt;height:212pt'> |
---|
945 | <v:imagedata src="FapatitleExample_files/image079.png" o:title=""/> |
---|
946 | </v:shape><![endif]--><![if !vml]><img border=0 width=466 height=214 |
---|
947 | src="FapatitleExample_files/image080.png" v:shapes="_x0000_i1163"><![endif]></p> |
---|
948 | |
---|
949 | <p class=MsoNormal>Run <span class=SpellE>genles</span>, <b style='mso-bidi-font-weight: |
---|
950 | normal'><span style='font-family:"Lucida Grande";color:black'>χ</span></b><sup><span |
---|
951 | style='mso-bidi-font-size:12.0pt'>2</span></sup> barely drops, so we do not |
---|
952 | need this. We could reject the change by pressing Continue with Old. Lets try |
---|
953 | the Gaussian U<span class=GramE>,V,W</span> terms without LX or LY:</p> |
---|
954 | |
---|
955 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1168" type="#_x0000_t75" |
---|
956 | style='width:483pt;height:175pt'> |
---|
957 | <v:imagedata src="FapatitleExample_files/image081.png" o:title=""/> |
---|
958 | </v:shape><![endif]--><![if !vml]><img border=0 width=485 height=177 |
---|
959 | src="FapatitleExample_files/image082.png" v:shapes="_x0000_i1168"><![endif]></p> |
---|
960 | |
---|
961 | <p class=MsoNormal>Run <span class=SpellE>genles</span>, <b style='mso-bidi-font-weight: |
---|
962 | normal'><span style='font-family:"Lucida Grande";color:black'>χ</span></b><sup><span |
---|
963 | style='mso-bidi-font-size:12.0pt'>2</span></sup> barely drops just a bit, to |
---|
964 | 26. Now we can try LX with those terms</p> |
---|
965 | |
---|
966 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1173" type="#_x0000_t75" |
---|
967 | style='width:473pt;height:172pt'> |
---|
968 | <v:imagedata src="FapatitleExample_files/image083.png" o:title=""/> |
---|
969 | </v:shape><![endif]--><![if !vml]><img border=0 width=475 height=174 |
---|
970 | src="FapatitleExample_files/image084.png" v:shapes="_x0000_i1173"><![endif]></p> |
---|
971 | |
---|
972 | <p class=MsoNormal><span class=GramE>since</span> the peak shape has been |
---|
973 | changed a fair amount, lets run <span class=SpellE>powpref</span> and then <span |
---|
974 | class=SpellE>genles</span>. <b style='mso-bidi-font-weight:normal'><span |
---|
975 | style='font-family:"Lucida Grande";color:black'>χ</span></b><sup><span |
---|
976 | style='mso-bidi-font-size:12.0pt'>2</span></sup> drops quite a bit, to 17. It |
---|
977 | is a good idea to run <span class=SpellE>powpref</span> and <span class=SpellE>genles</span> |
---|
978 | again, but not much changes. </p> |
---|
979 | |
---|
980 | <p class=MsoNormal><o:p> </o:p></p> |
---|
981 | |
---|
982 | <p class=MsoNormal>Since this is Bragg-Brentano (lab) data, lets correct for |
---|
983 | sample shift and transparency (since the sample is not that absorbing).<span |
---|
984 | style="mso-spacerun:yes"> </span>Turn on <span class=SpellE>shft</span> |
---|
985 | and <span class=SpellE>trns</span>:</p> |
---|
986 | |
---|
987 | <p class=MsoNormal><!--[if gte vml 1]><v:shape id="_x0000_i1253" type="#_x0000_t75" |
---|
988 | style='width:464pt;height:214pt'> |
---|
989 | <v:imagedata src="FapatitleExample_files/image085.png" o:title=""/> |
---|
990 | </v:shape><![endif]--><![if !vml]><img border=0 width=466 height=216 |
---|
991 | src="FapatitleExample_files/image086.png" v:shapes="_x0000_i1253"><![endif]></p> |
---|
992 | |
---|
993 | <p class=MsoNormal><span class=GramE>lets</span> run <span class=SpellE>genles</span>. |
---|
994 | <b style='mso-bidi-font-weight:normal'><span style='font-family:"Lucida Grande"; |
---|
995 | color:black'>χ</span></b><sup><span style='mso-bidi-font-size:12.0pt'>2</span></sup> |
---|
996 | drops quite a bit, to 5. Again since peaks have moved, lets run <span |
---|
997 | class=SpellE>powpref</span> and then <span class=SpellE>genles</span> again. <span |
---|
998 | class=GramE><b style='mso-bidi-font-weight:normal'><span style='font-family: |
---|
999 | "Lucida Grande";color:black'>χ</span></b><sup><span style='mso-bidi-font-size: |
---|
1000 | 12.0pt'>2</span></sup> even more, to 3.2.</span> Doing that again causes no |
---|
1001 | improvement. </p> |
---|
1002 | |
---|
1003 | <p class=MsoNormal><o:p> </o:p></p> |
---|
1004 | |
---|
1005 | <p class=MsoNormal>There are probably a few more things we should try in this |
---|
1006 | fit, but it is mostly complete. </p> |
---|
1007 | |
---|
1008 | </div> |
---|
1009 | |
---|
1010 | </body> |
---|
1011 | |
---|
1012 | </html> |
---|