source: Tutorials/SAimages/Small Angle Image Processing.htm @ 2390

Last change on this file since 2390 was 2390, checked in by vondreele, 5 years ago
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414  <w:LsdException Locked="false" Priority="62" Name="Light Grid Accent 1"/>
415  <w:LsdException Locked="false" Priority="63" Name="Medium Shading 1 Accent 1"/>
416  <w:LsdException Locked="false" Priority="64" Name="Medium Shading 2 Accent 1"/>
417  <w:LsdException Locked="false" Priority="65" Name="Medium List 1 Accent 1"/>
418  <w:LsdException Locked="false" SemiHidden="true" Name="Revision"/>
419  <w:LsdException Locked="false" Priority="34" QFormat="true"
420   Name="List Paragraph"/>
421  <w:LsdException Locked="false" Priority="29" QFormat="true" Name="Quote"/>
422  <w:LsdException Locked="false" Priority="30" QFormat="true"
423   Name="Intense Quote"/>
424  <w:LsdException Locked="false" Priority="66" Name="Medium List 2 Accent 1"/>
425  <w:LsdException Locked="false" Priority="67" Name="Medium Grid 1 Accent 1"/>
426  <w:LsdException Locked="false" Priority="68" Name="Medium Grid 2 Accent 1"/>
427  <w:LsdException Locked="false" Priority="69" Name="Medium Grid 3 Accent 1"/>
428  <w:LsdException Locked="false" Priority="70" Name="Dark List Accent 1"/>
429  <w:LsdException Locked="false" Priority="71" Name="Colorful Shading Accent 1"/>
430  <w:LsdException Locked="false" Priority="72" Name="Colorful List Accent 1"/>
431  <w:LsdException Locked="false" Priority="73" Name="Colorful Grid Accent 1"/>
432  <w:LsdException Locked="false" Priority="60" Name="Light Shading Accent 2"/>
433  <w:LsdException Locked="false" Priority="61" Name="Light List Accent 2"/>
434  <w:LsdException Locked="false" Priority="62" Name="Light Grid Accent 2"/>
435  <w:LsdException Locked="false" Priority="63" Name="Medium Shading 1 Accent 2"/>
436  <w:LsdException Locked="false" Priority="64" Name="Medium Shading 2 Accent 2"/>
437  <w:LsdException Locked="false" Priority="65" Name="Medium List 1 Accent 2"/>
438  <w:LsdException Locked="false" Priority="66" Name="Medium List 2 Accent 2"/>
439  <w:LsdException Locked="false" Priority="67" Name="Medium Grid 1 Accent 2"/>
440  <w:LsdException Locked="false" Priority="68" Name="Medium Grid 2 Accent 2"/>
441  <w:LsdException Locked="false" Priority="69" Name="Medium Grid 3 Accent 2"/>
442  <w:LsdException Locked="false" Priority="70" Name="Dark List Accent 2"/>
443  <w:LsdException Locked="false" Priority="71" Name="Colorful Shading Accent 2"/>
444  <w:LsdException Locked="false" Priority="72" Name="Colorful List Accent 2"/>
445  <w:LsdException Locked="false" Priority="73" Name="Colorful Grid Accent 2"/>
446  <w:LsdException Locked="false" Priority="60" Name="Light Shading Accent 3"/>
447  <w:LsdException Locked="false" Priority="61" Name="Light List Accent 3"/>
448  <w:LsdException Locked="false" Priority="62" Name="Light Grid Accent 3"/>
449  <w:LsdException Locked="false" Priority="63" Name="Medium Shading 1 Accent 3"/>
450  <w:LsdException Locked="false" Priority="64" Name="Medium Shading 2 Accent 3"/>
451  <w:LsdException Locked="false" Priority="65" Name="Medium List 1 Accent 3"/>
452  <w:LsdException Locked="false" Priority="66" Name="Medium List 2 Accent 3"/>
453  <w:LsdException Locked="false" Priority="67" Name="Medium Grid 1 Accent 3"/>
454  <w:LsdException Locked="false" Priority="68" Name="Medium Grid 2 Accent 3"/>
455  <w:LsdException Locked="false" Priority="69" Name="Medium Grid 3 Accent 3"/>
456  <w:LsdException Locked="false" Priority="70" Name="Dark List Accent 3"/>
457  <w:LsdException Locked="false" Priority="71" Name="Colorful Shading Accent 3"/>
458  <w:LsdException Locked="false" Priority="72" Name="Colorful List Accent 3"/>
459  <w:LsdException Locked="false" Priority="73" Name="Colorful Grid Accent 3"/>
460  <w:LsdException Locked="false" Priority="60" Name="Light Shading Accent 4"/>
461  <w:LsdException Locked="false" Priority="61" Name="Light List Accent 4"/>
462  <w:LsdException Locked="false" Priority="62" Name="Light Grid Accent 4"/>
463  <w:LsdException Locked="false" Priority="63" Name="Medium Shading 1 Accent 4"/>
464  <w:LsdException Locked="false" Priority="64" Name="Medium Shading 2 Accent 4"/>
465  <w:LsdException Locked="false" Priority="65" Name="Medium List 1 Accent 4"/>
466  <w:LsdException Locked="false" Priority="66" Name="Medium List 2 Accent 4"/>
467  <w:LsdException Locked="false" Priority="67" Name="Medium Grid 1 Accent 4"/>
468  <w:LsdException Locked="false" Priority="68" Name="Medium Grid 2 Accent 4"/>
469  <w:LsdException Locked="false" Priority="69" Name="Medium Grid 3 Accent 4"/>
470  <w:LsdException Locked="false" Priority="70" Name="Dark List Accent 4"/>
471  <w:LsdException Locked="false" Priority="71" Name="Colorful Shading Accent 4"/>
472  <w:LsdException Locked="false" Priority="72" Name="Colorful List Accent 4"/>
473  <w:LsdException Locked="false" Priority="73" Name="Colorful Grid Accent 4"/>
474  <w:LsdException Locked="false" Priority="60" Name="Light Shading Accent 5"/>
475  <w:LsdException Locked="false" Priority="61" Name="Light List Accent 5"/>
476  <w:LsdException Locked="false" Priority="62" Name="Light Grid Accent 5"/>
477  <w:LsdException Locked="false" Priority="63" Name="Medium Shading 1 Accent 5"/>
478  <w:LsdException Locked="false" Priority="64" Name="Medium Shading 2 Accent 5"/>
479  <w:LsdException Locked="false" Priority="65" Name="Medium List 1 Accent 5"/>
480  <w:LsdException Locked="false" Priority="66" Name="Medium List 2 Accent 5"/>
481  <w:LsdException Locked="false" Priority="67" Name="Medium Grid 1 Accent 5"/>
482  <w:LsdException Locked="false" Priority="68" Name="Medium Grid 2 Accent 5"/>
483  <w:LsdException Locked="false" Priority="69" Name="Medium Grid 3 Accent 5"/>
484  <w:LsdException Locked="false" Priority="70" Name="Dark List Accent 5"/>
485  <w:LsdException Locked="false" Priority="71" Name="Colorful Shading Accent 5"/>
486  <w:LsdException Locked="false" Priority="72" Name="Colorful List Accent 5"/>
487  <w:LsdException Locked="false" Priority="73" Name="Colorful Grid Accent 5"/>
488  <w:LsdException Locked="false" Priority="60" Name="Light Shading Accent 6"/>
489  <w:LsdException Locked="false" Priority="61" Name="Light List Accent 6"/>
490  <w:LsdException Locked="false" Priority="62" Name="Light Grid Accent 6"/>
491  <w:LsdException Locked="false" Priority="63" Name="Medium Shading 1 Accent 6"/>
492  <w:LsdException Locked="false" Priority="64" Name="Medium Shading 2 Accent 6"/>
493  <w:LsdException Locked="false" Priority="65" Name="Medium List 1 Accent 6"/>
494  <w:LsdException Locked="false" Priority="66" Name="Medium List 2 Accent 6"/>
495  <w:LsdException Locked="false" Priority="67" Name="Medium Grid 1 Accent 6"/>
496  <w:LsdException Locked="false" Priority="68" Name="Medium Grid 2 Accent 6"/>
497  <w:LsdException Locked="false" Priority="69" Name="Medium Grid 3 Accent 6"/>
498  <w:LsdException Locked="false" Priority="70" Name="Dark List Accent 6"/>
499  <w:LsdException Locked="false" Priority="71" Name="Colorful Shading Accent 6"/>
500  <w:LsdException Locked="false" Priority="72" Name="Colorful List Accent 6"/>
501  <w:LsdException Locked="false" Priority="73" Name="Colorful Grid Accent 6"/>
502  <w:LsdException Locked="false" Priority="19" QFormat="true"
503   Name="Subtle Emphasis"/>
504  <w:LsdException Locked="false" Priority="21" QFormat="true"
505   Name="Intense Emphasis"/>
506  <w:LsdException Locked="false" Priority="31" QFormat="true"
507   Name="Subtle Reference"/>
508  <w:LsdException Locked="false" Priority="32" QFormat="true"
509   Name="Intense Reference"/>
510  <w:LsdException Locked="false" Priority="33" QFormat="true" Name="Book Title"/>
511  <w:LsdException Locked="false" Priority="37" SemiHidden="true"
512   UnhideWhenUsed="true" Name="Bibliography"/>
513  <w:LsdException Locked="false" Priority="39" SemiHidden="true"
514   UnhideWhenUsed="true" QFormat="true" Name="TOC Heading"/>
515  <w:LsdException Locked="false" Priority="41" Name="Plain Table 1"/>
516  <w:LsdException Locked="false" Priority="42" Name="Plain Table 2"/>
517  <w:LsdException Locked="false" Priority="43" Name="Plain Table 3"/>
518  <w:LsdException Locked="false" Priority="44" Name="Plain Table 4"/>
519  <w:LsdException Locked="false" Priority="45" Name="Plain Table 5"/>
520  <w:LsdException Locked="false" Priority="40" Name="Grid Table Light"/>
521  <w:LsdException Locked="false" Priority="46" Name="Grid Table 1 Light"/>
522  <w:LsdException Locked="false" Priority="47" Name="Grid Table 2"/>
523  <w:LsdException Locked="false" Priority="48" Name="Grid Table 3"/>
524  <w:LsdException Locked="false" Priority="49" Name="Grid Table 4"/>
525  <w:LsdException Locked="false" Priority="50" Name="Grid Table 5 Dark"/>
526  <w:LsdException Locked="false" Priority="51" Name="Grid Table 6 Colorful"/>
527  <w:LsdException Locked="false" Priority="52" Name="Grid Table 7 Colorful"/>
528  <w:LsdException Locked="false" Priority="46"
529   Name="Grid Table 1 Light Accent 1"/>
530  <w:LsdException Locked="false" Priority="47" Name="Grid Table 2 Accent 1"/>
531  <w:LsdException Locked="false" Priority="48" Name="Grid Table 3 Accent 1"/>
532  <w:LsdException Locked="false" Priority="49" Name="Grid Table 4 Accent 1"/>
533  <w:LsdException Locked="false" Priority="50" Name="Grid Table 5 Dark Accent 1"/>
534  <w:LsdException Locked="false" Priority="51"
535   Name="Grid Table 6 Colorful Accent 1"/>
536  <w:LsdException Locked="false" Priority="52"
537   Name="Grid Table 7 Colorful Accent 1"/>
538  <w:LsdException Locked="false" Priority="46"
539   Name="Grid Table 1 Light Accent 2"/>
540  <w:LsdException Locked="false" Priority="47" Name="Grid Table 2 Accent 2"/>
541  <w:LsdException Locked="false" Priority="48" Name="Grid Table 3 Accent 2"/>
542  <w:LsdException Locked="false" Priority="49" Name="Grid Table 4 Accent 2"/>
543  <w:LsdException Locked="false" Priority="50" Name="Grid Table 5 Dark Accent 2"/>
544  <w:LsdException Locked="false" Priority="51"
545   Name="Grid Table 6 Colorful Accent 2"/>
546  <w:LsdException Locked="false" Priority="52"
547   Name="Grid Table 7 Colorful Accent 2"/>
548  <w:LsdException Locked="false" Priority="46"
549   Name="Grid Table 1 Light Accent 3"/>
550  <w:LsdException Locked="false" Priority="47" Name="Grid Table 2 Accent 3"/>
551  <w:LsdException Locked="false" Priority="48" Name="Grid Table 3 Accent 3"/>
552  <w:LsdException Locked="false" Priority="49" Name="Grid Table 4 Accent 3"/>
553  <w:LsdException Locked="false" Priority="50" Name="Grid Table 5 Dark Accent 3"/>
554  <w:LsdException Locked="false" Priority="51"
555   Name="Grid Table 6 Colorful Accent 3"/>
556  <w:LsdException Locked="false" Priority="52"
557   Name="Grid Table 7 Colorful Accent 3"/>
558  <w:LsdException Locked="false" Priority="46"
559   Name="Grid Table 1 Light Accent 4"/>
560  <w:LsdException Locked="false" Priority="47" Name="Grid Table 2 Accent 4"/>
561  <w:LsdException Locked="false" Priority="48" Name="Grid Table 3 Accent 4"/>
562  <w:LsdException Locked="false" Priority="49" Name="Grid Table 4 Accent 4"/>
563  <w:LsdException Locked="false" Priority="50" Name="Grid Table 5 Dark Accent 4"/>
564  <w:LsdException Locked="false" Priority="51"
565   Name="Grid Table 6 Colorful Accent 4"/>
566  <w:LsdException Locked="false" Priority="52"
567   Name="Grid Table 7 Colorful Accent 4"/>
568  <w:LsdException Locked="false" Priority="46"
569   Name="Grid Table 1 Light Accent 5"/>
570  <w:LsdException Locked="false" Priority="47" Name="Grid Table 2 Accent 5"/>
571  <w:LsdException Locked="false" Priority="48" Name="Grid Table 3 Accent 5"/>
572  <w:LsdException Locked="false" Priority="49" Name="Grid Table 4 Accent 5"/>
573  <w:LsdException Locked="false" Priority="50" Name="Grid Table 5 Dark Accent 5"/>
574  <w:LsdException Locked="false" Priority="51"
575   Name="Grid Table 6 Colorful Accent 5"/>
576  <w:LsdException Locked="false" Priority="52"
577   Name="Grid Table 7 Colorful Accent 5"/>
578  <w:LsdException Locked="false" Priority="46"
579   Name="Grid Table 1 Light Accent 6"/>
580  <w:LsdException Locked="false" Priority="47" Name="Grid Table 2 Accent 6"/>
581  <w:LsdException Locked="false" Priority="48" Name="Grid Table 3 Accent 6"/>
582  <w:LsdException Locked="false" Priority="49" Name="Grid Table 4 Accent 6"/>
583  <w:LsdException Locked="false" Priority="50" Name="Grid Table 5 Dark Accent 6"/>
584  <w:LsdException Locked="false" Priority="51"
585   Name="Grid Table 6 Colorful Accent 6"/>
586  <w:LsdException Locked="false" Priority="52"
587   Name="Grid Table 7 Colorful Accent 6"/>
588  <w:LsdException Locked="false" Priority="46" Name="List Table 1 Light"/>
589  <w:LsdException Locked="false" Priority="47" Name="List Table 2"/>
590  <w:LsdException Locked="false" Priority="48" Name="List Table 3"/>
591  <w:LsdException Locked="false" Priority="49" Name="List Table 4"/>
592  <w:LsdException Locked="false" Priority="50" Name="List Table 5 Dark"/>
593  <w:LsdException Locked="false" Priority="51" Name="List Table 6 Colorful"/>
594  <w:LsdException Locked="false" Priority="52" Name="List Table 7 Colorful"/>
595  <w:LsdException Locked="false" Priority="46"
596   Name="List Table 1 Light Accent 1"/>
597  <w:LsdException Locked="false" Priority="47" Name="List Table 2 Accent 1"/>
598  <w:LsdException Locked="false" Priority="48" Name="List Table 3 Accent 1"/>
599  <w:LsdException Locked="false" Priority="49" Name="List Table 4 Accent 1"/>
600  <w:LsdException Locked="false" Priority="50" Name="List Table 5 Dark Accent 1"/>
601  <w:LsdException Locked="false" Priority="51"
602   Name="List Table 6 Colorful Accent 1"/>
603  <w:LsdException Locked="false" Priority="52"
604   Name="List Table 7 Colorful Accent 1"/>
605  <w:LsdException Locked="false" Priority="46"
606   Name="List Table 1 Light Accent 2"/>
607  <w:LsdException Locked="false" Priority="47" Name="List Table 2 Accent 2"/>
608  <w:LsdException Locked="false" Priority="48" Name="List Table 3 Accent 2"/>
609  <w:LsdException Locked="false" Priority="49" Name="List Table 4 Accent 2"/>
610  <w:LsdException Locked="false" Priority="50" Name="List Table 5 Dark Accent 2"/>
611  <w:LsdException Locked="false" Priority="51"
612   Name="List Table 6 Colorful Accent 2"/>
613  <w:LsdException Locked="false" Priority="52"
614   Name="List Table 7 Colorful Accent 2"/>
615  <w:LsdException Locked="false" Priority="46"
616   Name="List Table 1 Light Accent 3"/>
617  <w:LsdException Locked="false" Priority="47" Name="List Table 2 Accent 3"/>
618  <w:LsdException Locked="false" Priority="48" Name="List Table 3 Accent 3"/>
619  <w:LsdException Locked="false" Priority="49" Name="List Table 4 Accent 3"/>
620  <w:LsdException Locked="false" Priority="50" Name="List Table 5 Dark Accent 3"/>
621  <w:LsdException Locked="false" Priority="51"
622   Name="List Table 6 Colorful Accent 3"/>
623  <w:LsdException Locked="false" Priority="52"
624   Name="List Table 7 Colorful Accent 3"/>
625  <w:LsdException Locked="false" Priority="46"
626   Name="List Table 1 Light Accent 4"/>
627  <w:LsdException Locked="false" Priority="47" Name="List Table 2 Accent 4"/>
628  <w:LsdException Locked="false" Priority="48" Name="List Table 3 Accent 4"/>
629  <w:LsdException Locked="false" Priority="49" Name="List Table 4 Accent 4"/>
630  <w:LsdException Locked="false" Priority="50" Name="List Table 5 Dark Accent 4"/>
631  <w:LsdException Locked="false" Priority="51"
632   Name="List Table 6 Colorful Accent 4"/>
633  <w:LsdException Locked="false" Priority="52"
634   Name="List Table 7 Colorful Accent 4"/>
635  <w:LsdException Locked="false" Priority="46"
636   Name="List Table 1 Light Accent 5"/>
637  <w:LsdException Locked="false" Priority="47" Name="List Table 2 Accent 5"/>
638  <w:LsdException Locked="false" Priority="48" Name="List Table 3 Accent 5"/>
639  <w:LsdException Locked="false" Priority="49" Name="List Table 4 Accent 5"/>
640  <w:LsdException Locked="false" Priority="50" Name="List Table 5 Dark Accent 5"/>
641  <w:LsdException Locked="false" Priority="51"
642   Name="List Table 6 Colorful Accent 5"/>
643  <w:LsdException Locked="false" Priority="52"
644   Name="List Table 7 Colorful Accent 5"/>
645  <w:LsdException Locked="false" Priority="46"
646   Name="List Table 1 Light Accent 6"/>
647  <w:LsdException Locked="false" Priority="47" Name="List Table 2 Accent 6"/>
648  <w:LsdException Locked="false" Priority="48" Name="List Table 3 Accent 6"/>
649  <w:LsdException Locked="false" Priority="49" Name="List Table 4 Accent 6"/>
650  <w:LsdException Locked="false" Priority="50" Name="List Table 5 Dark Accent 6"/>
651  <w:LsdException Locked="false" Priority="51"
652   Name="List Table 6 Colorful Accent 6"/>
653  <w:LsdException Locked="false" Priority="52"
654   Name="List Table 7 Colorful Accent 6"/>
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1164
1165<body lang=EN-US link=blue vlink=purple style='tab-interval:.5in'>
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1167<div class=WordSection1>
1168
1169<h1><strong>Small Angle X-Ray Data – Image Processing<o:p></o:p></strong></h1>
1170
1171<p class=MsoNormal style='mso-layout-grid-align:none;text-autospace:none'>In
1172this tutorial you will reduce 2D SAXS data to create 1D absolute scaled data.
1173The data were collected at APS on beam line 15ID on some polymer base materials
1174to be used for liquid crystal displays. The processing has several steps
1175including detector calibration (i.e. determine sample-detector distance &amp;
1176tilt), integration and scaling to an absolute scaled glassy carbon measurement.
1177The data were collected at a wavelength of 1.0332Å with a <span class=SpellE>MarCCD</span>
1178detector placed ~570mm from the sample. Note that menu entries are listed in
1179bold face below as <b style='mso-bidi-font-weight:normal'><span
1180style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1181mso-hansi-theme-font:minor-latin;mso-bidi-font-family:Calibri;mso-bidi-theme-font:
1182minor-latin'>Help/About GSAS-II</span></b>, which lists first the name of the
1183menu (here <b style='mso-bidi-font-weight:normal'><span style='font-family:
1184"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:
1185minor-latin;mso-bidi-font-family:Calibri;mso-bidi-theme-font:minor-latin'>Help</span></b>)
1186and second the name of the entry in the menu (here <b style='mso-bidi-font-weight:
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1188minor-latin;mso-hansi-theme-font:minor-latin;mso-bidi-font-family:Calibri;
1189mso-bidi-theme-font:minor-latin'>About GSAS-II</span></b>).<span
1190style='mso-spacerun:yes'>  </span><span style='mso-fareast-font-family:Calibri;
1191mso-fareast-theme-font:minor-latin;mso-bidi-font-weight:bold;mso-bidi-font-style:
1192italic'><o:p></o:p></span></p>
1193
1194<p class=MsoNormal>If you have not done so already, start GSAS-II.</p>
1195
1196<h2>Step 1: Detector calibration</h2>
1197
1198<p class=MsoNormal>The detector position is determined by using an image
1199collected from silver <span class=SpellE>behenate</span>; do <b
1200style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1201mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Data/Read
1202Image data…</span></b> and a file selection dialog box will appear. Go to <span
1203class=SpellE><b style='mso-bidi-font-weight:normal'><span style='font-family:
1204"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:
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1206style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1207mso-hansi-theme-font:minor-latin'>/data</span></b> and select <b
1208style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1209mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>AgBehenate_003.tif</span></b>
1210with either a mouse button double click or <b style='mso-bidi-font-weight:normal'><span
1211style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1212mso-hansi-theme-font:minor-latin'>Open</span></b>; the image will appear</p>
1213
1214<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shapetype
1215 id="_x0000_t75" coordsize="21600,21600" o:spt="75" o:preferrelative="t"
1216 path="m@4@5l@4@11@9@11@9@5xe" filled="f" stroked="f">
1217 <v:stroke joinstyle="miter"/>
1218 <v:formulas>
1219  <v:f eqn="if lineDrawn pixelLineWidth 0"/>
1220  <v:f eqn="sum @0 1 0"/>
1221  <v:f eqn="sum 0 0 @1"/>
1222  <v:f eqn="prod @2 1 2"/>
1223  <v:f eqn="prod @3 21600 pixelWidth"/>
1224  <v:f eqn="prod @3 21600 pixelHeight"/>
1225  <v:f eqn="sum @0 0 1"/>
1226  <v:f eqn="prod @6 1 2"/>
1227  <v:f eqn="prod @7 21600 pixelWidth"/>
1228  <v:f eqn="sum @8 21600 0"/>
1229  <v:f eqn="prod @7 21600 pixelHeight"/>
1230  <v:f eqn="sum @10 21600 0"/>
1231 </v:formulas>
1232 <v:path o:extrusionok="f" gradientshapeok="t" o:connecttype="rect"/>
1233 <o:lock v:ext="edit" aspectratio="t"/>
1234</v:shapetype><v:shape id="Picture_x0020_1" o:spid="_x0000_i1062" type="#_x0000_t75"
1235 style='width:525pt;height:450pt;visibility:visible;mso-wrap-style:square'>
1236 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image001.png"
1237  o:title=""/>
1238</v:shape><![endif]--><![if !vml]><img width=700 height=600
1239src="Small%20Angle%20Image%20Processing_files/image001.png" v:shapes="Picture_x0020_1"><![endif]></span></p>
1240
1241<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1242
1243<p class=MsoNormal>And the <b style='mso-bidi-font-weight:normal'><span
1244style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1245mso-hansi-theme-font:minor-latin'>Image controls</span></b> window will show</p>
1246
1247<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1248 id="Picture_x0020_2" o:spid="_x0000_i1061" type="#_x0000_t75" style='width:472.5pt;
1249 height:388.5pt;visibility:visible;mso-wrap-style:square'>
1250 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image002.png"
1251  o:title=""/>
1252</v:shape><![endif]--><![if !vml]><img width=630 height=518
1253src="Small%20Angle%20Image%20Processing_files/image002.png" v:shapes="Picture_x0020_2"><![endif]></span></p>
1254
1255<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1256
1257<p class=MsoNormal>Note the default <b style='mso-bidi-font-weight:normal'><span
1258style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1259mso-hansi-theme-font:minor-latin'>Type of image data</span></b> is <b
1260style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1261mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>PWDR -
1262powder diffraction data</span></b>; you will change that <span
1263style='mso-no-proof:yes'>now.</span> Select <b style='mso-bidi-font-weight:
1264normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
1265minor-latin;mso-hansi-theme-font:minor-latin'>SASD – small angle scattering
1266data</span></b> (the window will change). Enter the <b style='mso-bidi-font-weight:
1267normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
1268minor-latin;mso-hansi-theme-font:minor-latin'>wavelength</span></b> (<b
1269style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1270mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>1.0332</span></b>),
1271and select the <span class=SpellE><b style='mso-bidi-font-weight:normal'><span
1272style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1273mso-hansi-theme-font:minor-latin'>Calibrant</span></b></span> (near bottom of
1274window) as <b style='mso-bidi-font-weight:normal'><span style='font-family:
1275"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:
1276minor-latin'>Ag <span class=SpellE>behenate</span></span></b>. Note that the
1277calibration info for Ag <span class=SpellE>behenate</span> was read from a
1278python file – <b style='mso-bidi-font-weight:normal'><span style='font-family:
1279"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:
1280minor-latin'>GSASII/ImageCalibrants.py</span></b>. If you have a <span
1281class=SpellE>calibrant</span> that isn’t in this file you should enter it in
1282the file <b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1283mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>UserCalibrants.py</span></b>;
1284just follow the format of the examples within <b style='mso-bidi-font-weight:
1285normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
1286minor-latin;mso-hansi-theme-font:minor-latin'>ImageCalibrants.py</span></b>.
1287You should move the <b style='mso-bidi-font-weight:normal'><span
1288style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1289mso-hansi-theme-font:minor-latin'>Max intensity</span></b> slider to near the
1290middle of the range – that will improve the image. When done the <b
1291style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1292mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Image
1293controls</span></b> window should look like</p>
1294
1295<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1296 id="Picture_x0020_3" o:spid="_x0000_i1060" type="#_x0000_t75" style='width:472.5pt;
1297 height:388.5pt;visibility:visible;mso-wrap-style:square'>
1298 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image003.png"
1299  o:title=""/>
1300</v:shape><![endif]--><![if !vml]><img width=630 height=518
1301src="Small%20Angle%20Image%20Processing_files/image003.png" v:shapes="Picture_x0020_3"><![endif]></span></p>
1302
1303<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1304
1305<p class=MsoNormal>And the image will be</p>
1306
1307<p class=MsoNormal><!--[if gte vml 1]><v:shapetype id="_x0000_t32" coordsize="21600,21600"
1308 o:spt="32" o:oned="t" path="m,l21600,21600e" filled="f">
1309 <v:path arrowok="t" fillok="f" o:connecttype="none"/>
1310 <o:lock v:ext="edit" shapetype="t"/>
1311</v:shapetype><v:shape id="Straight_x0020_Arrow_x0020_Connector_x0020_21"
1312 o:spid="_x0000_s1026" type="#_x0000_t32" style='position:absolute;
1313 margin-left:177pt;margin-top:214.5pt;width:48pt;height:15.75pt;flip:y;
1314 z-index:251659264;visibility:visible;mso-wrap-style:square;
1315 mso-width-percent:0;mso-height-percent:0;mso-wrap-distance-left:9pt;
1316 mso-wrap-distance-top:0;mso-wrap-distance-right:9pt;
1317 mso-wrap-distance-bottom:0;mso-position-horizontal:absolute;
1318 mso-position-horizontal-relative:text;mso-position-vertical:absolute;
1319 mso-position-vertical-relative:text;mso-width-percent:0;mso-height-percent:0;
1320 mso-width-relative:page;mso-height-relative:page' o:gfxdata="UEsDBBQABgAIAAAAIQC2gziS/gAAAOEBAAATAAAAW0NvbnRlbnRfVHlwZXNdLnhtbJSRQU7DMBBF
132190jcwfIWJU67QAgl6YK0S0CoHGBkTxKLZGx5TGhvj5O2G0SRWNoz/78nu9wcxkFMGNg6quQqL6RA
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1344AAYACAAAACEAtoM4kv4AAADhAQAAEwAAAAAAAAAAAAAAAAAAAAAAW0NvbnRlbnRfVHlwZXNdLnht
1345bFBLAQItABQABgAIAAAAIQA4/SH/1gAAAJQBAAALAAAAAAAAAAAAAAAAAC8BAABfcmVscy8ucmVs
1346c1BLAQItABQABgAIAAAAIQB9d1Df6wEAACkEAAAOAAAAAAAAAAAAAAAAAC4CAABkcnMvZTJvRG9j
1347LnhtbFBLAQItABQABgAIAAAAIQCB0qld3wAAAAsBAAAPAAAAAAAAAAAAAAAAAEUEAABkcnMvZG93
1348bnJldi54bWxQSwUGAAAAAAQABADzAAAAUQUAAAAA
1349" strokecolor="#c0504d [3205]" strokeweight="3pt">
1350 <v:stroke endarrow="open"/>
1351 <v:shadow on="t" color="black" opacity="22937f" origin=",.5" offset="0,.63889mm"/>
1352 <o:lock v:ext="edit" shapetype="f"/>
1353</v:shape><![endif]--><![if !vml]><span style='mso-ignore:vglayout;position:
1354absolute;z-index:251659264;margin-left:234px;margin-top:273px;width:73px;
1355height:38px'><img width=73 height=38
1356src="Small%20Angle%20Image%20Processing_files/image040.png" v:shapes="Straight_x0020_Arrow_x0020_Connector_x0020_21"></span><![endif]><span
1357style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape id="Picture_x0020_4"
1358 o:spid="_x0000_i1059" type="#_x0000_t75" style='width:525pt;height:450pt;
1359 visibility:visible;mso-wrap-style:square'>
1360 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image005.png"
1361  o:title=""/>
1362</v:shape><![endif]--><![if !vml]><img width=700 height=600
1363src="Small%20Angle%20Image%20Processing_files/image005.png" v:shapes="Picture_x0020_4"><![endif]></span></p>
1364
1365<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1366
1367<p class=MsoNormal>Next select <b style='mso-bidi-font-weight:normal'><span
1368style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1369mso-hansi-theme-font:minor-latin'>Operations/Calibrate</span></b> from the <b
1370style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1371mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Image
1372Controls</span></b> menu; a bit of instruction will appear on the status line
1373of this window. Select 5 points on the innermost ring (arrowed above); a small
1374red cross will appear at each selection point. Press the right mouse button to
1375finish; calibration will proceed. A sequence of concentric red rings will
1376appear; they will switch to blue when calibration is finished. Select <b
1377style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1378mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Show ring
1379picks</span></b> (near bottom right of <b style='mso-bidi-font-weight:normal'><span
1380style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1381mso-hansi-theme-font:minor-latin'>Image Controls</span></b> window). The <b
1382style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1383mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Image
1384Controls</span></b> window will show the results of the calibration</p>
1385
1386<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1387 id="Picture_x0020_5" o:spid="_x0000_i1058" type="#_x0000_t75" style='width:472.5pt;
1388 height:388.5pt;visibility:visible;mso-wrap-style:square'>
1389 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image006.png"
1390  o:title=""/>
1391</v:shape><![endif]--><![if !vml]><img width=630 height=518
1392src="Small%20Angle%20Image%20Processing_files/image006.png" v:shapes="Picture_x0020_5"><![endif]></span></p>
1393
1394<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1395
1396<p class=MsoNormal>And the plot will show the points (very sparse!) used in the
1397calibration calculations.</p>
1398
1399<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1400 id="Picture_x0020_6" o:spid="_x0000_i1057" type="#_x0000_t75" style='width:525pt;
1401 height:450pt;visibility:visible;mso-wrap-style:square'>
1402 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image007.png"
1403  o:title=""/>
1404</v:shape><![endif]--><![if !vml]><img width=700 height=600
1405src="Small%20Angle%20Image%20Processing_files/image007.png" v:shapes="Picture_x0020_6"><![endif]></span></p>
1406
1407<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1408
1409<p class=MsoNormal>You would like to use more points from just the visible
1410rings. I suggest you change <b style='mso-bidi-font-weight:normal'><span
1411style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1412mso-hansi-theme-font:minor-latin'>Min ring I/<span class=SpellE>Ib</span></span></b>
1413to <b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1414mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>0.5</span></b>
1415and <b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1416mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Min <span
1417class=SpellE>calib</span> d-spacing</span></b> to <b style='mso-bidi-font-weight:
1418normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
1419minor-latin;mso-hansi-theme-font:minor-latin'>10.0</span></b>. Do <b
1420style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1421mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Operations/Recalibrate</span></b>;
1422more points will be used and they will be limited to the 5 visible rings in the
1423pattern.</p>
1424
1425<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1426 id="Picture_x0020_7" o:spid="_x0000_i1056" type="#_x0000_t75" style='width:525pt;
1427 height:450pt;visibility:visible;mso-wrap-style:square'>
1428 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image008.png"
1429  o:title=""/>
1430</v:shape><![endif]--><![if !vml]><img width=700 height=600
1431src="Small%20Angle%20Image%20Processing_files/image008.png" v:shapes="Picture_x0020_7"><![endif]></span></p>
1432
1433<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1434
1435<p class=MsoNormal>And give the calibration result as</p>
1436
1437<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1438 id="Picture_x0020_8" o:spid="_x0000_i1055" type="#_x0000_t75" style='width:472.5pt;
1439 height:388.5pt;visibility:visible;mso-wrap-style:square'>
1440 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image009.png"
1441  o:title=""/>
1442</v:shape><![endif]--><![if !vml]><img width=630 height=518
1443src="Small%20Angle%20Image%20Processing_files/image009.png" v:shapes="Picture_x0020_8"><![endif]></span></p>
1444
1445<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1446
1447<p class=MsoNormal>You will need this calibration information to process the
1448other images in this tutorial. To save it for future use do <b
1449style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1450mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Operations/Save
1451controls</span></b>; a file dialog will appear. Makeup a file name (no
1452extension needed) for this; I chose <b style='mso-bidi-font-weight:normal'><span
1453style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1454mso-hansi-theme-font:minor-latin'>SASD</span></b>. Press <b style='mso-bidi-font-weight:
1455normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
1456minor-latin;mso-hansi-theme-font:minor-latin'>Save</span></b> and the file <span
1457class=SpellE><b style='mso-bidi-font-weight:normal'><span style='font-family:
1458"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:
1459minor-latin'>SASD.imctrl</span></b></span> will be written to the local
1460directory. If you are continuing on to the next step do <b style='mso-bidi-font-weight:
1461normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
1462minor-latin;mso-hansi-theme-font:minor-latin'>File/New Project</span></b>
1463(don’t bother saving the project file unless you want it; we will not need it
1464here); otherwise you can exit GSAS-II.</p>
1465
1466<h2>Step 2: Data image integration</h2>
1467
1468<p class=MsoNormal>The objective here is to read in the four polymer sample
1469images, a glassy carbon image, an empty container image and a dark image. The
1470images will be integrated after creating masks to remove the beam stop and
1471other objectionable parts of the images. If you have not done so already, start
1472GSAS-II. </p>
1473
1474<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1475
1476<p class=MsoNormal>First do <b style='mso-bidi-font-weight:normal'><span
1477style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1478mso-hansi-theme-font:minor-latin'>Data/Read image data…</span></b>, go to <b
1479style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1480mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>exercises/<span
1481class=SpellE>SAimages</span></span></b> and select all images except <b
1482style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1483mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>AgBehenate_003.tif</span></b>;
1484then press <b style='mso-bidi-font-weight:normal'><span style='font-family:
1485"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:
1486minor-latin'>Open</span></b> to read all of them. The GSAS-II data tree window
1487will show entries for 7 images and will expand the last one</p>
1488
1489<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1490 id="Picture_x0020_9" o:spid="_x0000_i1054" type="#_x0000_t75" style='width:300pt;
1491 height:310.5pt;visibility:visible;mso-wrap-style:square'>
1492 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image010.png"
1493  o:title=""/>
1494</v:shape><![endif]--><![if !vml]><img width=400 height=414
1495src="Small%20Angle%20Image%20Processing_files/image010.png" v:shapes="Picture_x0020_9"><![endif]></span></p>
1496
1497<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1498
1499<p class=MsoNormal>Notice that the Dark, Empty and GC (glassy carbon) are all
15005s images and the Sa1-4 ones are 40s images; this time information is needed
1501later to obtain correct scaling. First select the <b style='mso-bidi-font-weight:
1502normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
1503minor-latin;mso-hansi-theme-font:minor-latin'>IMG GC_5s_200.tif</span></b>
1504entry from the tree and expand it (press the <b style='mso-bidi-font-weight:
1505normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
1506minor-latin;mso-hansi-theme-font:minor-latin'>+</span></b> box); then select <b
1507style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1508mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Image
1509controls</span></b>. The data window (<b style='mso-bidi-font-weight:normal'><span
1510style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1511mso-hansi-theme-font:minor-latin'>Image Controls</span></b>) will show the
1512default settings.</p>
1513
1514<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1515 id="Picture_x0020_10" o:spid="_x0000_i1053" type="#_x0000_t75" style='width:472.5pt;
1516 height:388.5pt;visibility:visible;mso-wrap-style:square'>
1517 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image011.png"
1518  o:title=""/>
1519</v:shape><![endif]--><![if !vml]><img width=630 height=518
1520src="Small%20Angle%20Image%20Processing_files/image011.png" v:shapes="Picture_x0020_10"><![endif]></span></p>
1521
1522<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1523
1524<p class=MsoNormal>Do <b style='mso-bidi-font-weight:normal'><span
1525style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1526mso-hansi-theme-font:minor-latin'>Operations/Load controls</span></b> from the
1527menu; a file selection dialog will appear showing the available *.<span
1528class=SpellE>imctrl</span> files (the one you made in Step 1 should be seen).
1529Select it and press <b style='mso-bidi-font-weight:normal'><span
1530style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1531mso-hansi-theme-font:minor-latin'>Open</span></b>; the <b style='mso-bidi-font-weight:
1532normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
1533minor-latin;mso-hansi-theme-font:minor-latin'>Image Controls</span></b> window
1534will be redrawn with the settings obtained in <b style='mso-bidi-font-weight:
1535normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
1536minor-latin;mso-hansi-theme-font:minor-latin'>Step 1: Detector calibration</span></b></p>
1537
1538<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1539 id="Picture_x0020_11" o:spid="_x0000_i1052" type="#_x0000_t75" style='width:472.5pt;
1540 height:388.5pt;visibility:visible;mso-wrap-style:square'>
1541 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image012.png"
1542  o:title=""/>
1543</v:shape><![endif]--><![if !vml]><img width=630 height=518
1544src="Small%20Angle%20Image%20Processing_files/image012.png" v:shapes="Picture_x0020_11"><![endif]></span></p>
1545
1546<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1547
1548<p class=MsoNormal>and the image will be that of glassy carbon. Changing the <b
1549style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1550mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Max intensity</span></b>
1551slider on the <b style='mso-bidi-font-weight:normal'><span style='font-family:
1552"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:
1553minor-latin'>Image Controls</span></b> window will show that the image from the
1554<span class=SpellE>MarCCD</span> is circular and slightly offset from the beam
1555center. A beam stop shadow is evident as well as an arc-like fault in the image
1556(toward the upper left corner of the image). We will sort those out later.</p>
1557
1558<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1559 id="Picture_x0020_55" o:spid="_x0000_i1051" type="#_x0000_t75" style='width:525pt;
1560 height:450pt;visibility:visible;mso-wrap-style:square'>
1561 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image013.png"
1562  o:title=""/>
1563</v:shape><![endif]--><![if !vml]><img width=700 height=600
1564src="Small%20Angle%20Image%20Processing_files/image013.png" v:shapes="Picture_x0020_55"><![endif]></span></p>
1565
1566<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1567
1568<p class=MsoNormal>The next step we will be doing is to set up the integration
1569controls. The <b style='mso-bidi-font-weight:normal'><span style='font-family:
1570"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:
1571minor-latin'>Dark image</span></b> is <b style='mso-bidi-font-weight:normal'><span
1572style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1573mso-hansi-theme-font:minor-latin'>IMG Dark_5s_003.tif</span></b>, the <b
1574style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1575mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Background
1576image</span></b> is <b style='mso-bidi-font-weight:normal'><span
1577style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1578mso-hansi-theme-font:minor-latin'>IMG Empty_5s_014.tif</span></b>; select these
1579two. The <b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1580mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>multipliers</span></b>
1581for each are <b style='mso-bidi-font-weight:normal'><span style='font-family:
1582"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:
1583minor-latin'>-1.0</span></b> because their exposures were the same as this
1584glassy carbon image (5s). Next check the boxes for <b style='mso-bidi-font-weight:
1585normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
1586minor-latin;mso-hansi-theme-font:minor-latin'>Show integration limits?</span></b>
1587and <b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1588mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Do full
1589integration?</span></b> A pair of circles with a connecting diagonal line will
1590appear on the plot. Set the <b style='mso-bidi-font-weight:normal'><span
1591style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1592mso-hansi-theme-font:minor-latin'>Inner/Outer q</span></b> values to <b
1593style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1594mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>0.05</span></b>
1595and <b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1596mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>0.9</span></b>,
1597respectively, and set the <b style='mso-bidi-font-weight:normal'><span
1598style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1599mso-hansi-theme-font:minor-latin'>Start azimuth</span></b> to <b
1600style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1601mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>0</span></b>.
1602Set the <b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1603mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>No. 2-theta
1604bins</span></b> to <b style='mso-bidi-font-weight:normal'><span
1605style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1606mso-hansi-theme-font:minor-latin'>250</span></b>, which is more appropriate for
1607small angle scattering, and set the <b style='mso-bidi-font-weight:normal'><span
1608style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1609mso-hansi-theme-font:minor-latin'>Bin style: Constant step bins in</span></b>
1610to <b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1611mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>log(q)</span></b>.
1612You should also check the <b style='mso-bidi-font-weight:normal'><span
1613style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1614mso-hansi-theme-font:minor-latin'>Apply sample absorption?</span></b> and <b
1615style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1616mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Apply
1617polarization?</span></b> boxes; enter the measured <b style='mso-bidi-font-weight:
1618normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
1619minor-latin;mso-hansi-theme-font:minor-latin'>transmission</span></b> (<b
1620style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1621mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>0.818</span></b>)
1622for the glassy carbon sample. When done the <b style='mso-bidi-font-weight:
1623normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
1624minor-latin;mso-hansi-theme-font:minor-latin'>Image Controls</span></b> data
1625window should look like</p>
1626
1627<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1628 id="Picture_x0020_40" o:spid="_x0000_i1050" type="#_x0000_t75" style='width:472.5pt;
1629 height:388.5pt;visibility:visible;mso-wrap-style:square'>
1630 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image014.png"
1631  o:title=""/>
1632</v:shape><![endif]--><![if !vml]><img width=630 height=518
1633src="Small%20Angle%20Image%20Processing_files/image014.png" v:shapes="Picture_x0020_40"><![endif]></span></p>
1634
1635<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1636
1637<p class=MsoNormal>And the plot should look like</p>
1638
1639<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1640 id="Picture_x0020_41" o:spid="_x0000_i1049" type="#_x0000_t75" style='width:525pt;
1641 height:450pt;visibility:visible;mso-wrap-style:square'>
1642 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image015.png"
1643  o:title=""/>
1644</v:shape><![endif]--><![if !vml]><img width=700 height=600
1645src="Small%20Angle%20Image%20Processing_files/image015.png" v:shapes="Picture_x0020_41"><![endif]></span></p>
1646
1647<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1648
1649<p class=MsoNormal>Now copy these controls to the other images. Do <b
1650style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1651mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Operations/Copy
1652controls</span></b> and select just the <b style='mso-bidi-font-weight:normal'><span
1653style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1654mso-hansi-theme-font:minor-latin'>Sa1-4</span></b> data names. </p>
1655
1656<p class=MsoNormal>We now need to go to the <b style='mso-bidi-font-weight:
1657normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
1658minor-latin;mso-hansi-theme-font:minor-latin'>Image Controls</span></b> for
1659each of <b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1660mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Sa1-Sa4</span></b>
1661to enter the correct transmission for each and change the Dark &amp; Background
1662<b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1663mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>multipliers</span></b>
1664to account for the different exposure times. Start with <b style='mso-bidi-font-weight:
1665normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
1666minor-latin;mso-hansi-theme-font:minor-latin'>IMG Sa1_40s_067.tif</span></b>
1667and change <b style='mso-bidi-font-weight:normal'><span style='font-family:
1668"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:
1669minor-latin'>transmission</span></b> to <b style='mso-bidi-font-weight:normal'><span
1670style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1671mso-hansi-theme-font:minor-latin'>0.943</span></b> and the two <b
1672style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1673mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>multipliers</span></b>
1674to <b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1675mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>-8.0</span></b>.
1676Then go to <b style='mso-bidi-font-weight:normal'><span style='font-family:
1677"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:
1678minor-latin'>IMG Sa2_40s_069.tif</span></b> and change <b style='mso-bidi-font-weight:
1679normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
1680minor-latin;mso-hansi-theme-font:minor-latin'>transmission</span></b> to <b
1681style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1682mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>0.979</span></b>;
1683<b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1684mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>multipliers</span></b>
1685to <b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1686mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>-8.0</span></b>.
1687Next go <b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1688mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>to IMG
1689Sa3_40s_059.tif</span></b> and change <b style='mso-bidi-font-weight:normal'><span
1690style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1691mso-hansi-theme-font:minor-latin'>transmission</span></b> to <b
1692style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1693mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>0.960</span></b>;
1694<b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1695mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>multipliers</span></b>
1696to <b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1697mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>-8.0</span></b>.
1698Finally, go to <b style='mso-bidi-font-weight:normal'><span style='font-family:
1699"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:
1700minor-latin'>IMG Sa4_40s_061.tif</span></b> and change <b style='mso-bidi-font-weight:
1701normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
1702minor-latin;mso-hansi-theme-font:minor-latin'>transmission</span></b> to <b
1703style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1704mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>0.968</span></b>;
1705<b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1706mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>multipliers</span></b>
1707to <b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1708mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>-8.0</span></b>.
1709The <b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1710mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Image
1711Controls</span></b> data window for this should look like</p>
1712
1713<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1714 id="Picture_x0020_43" o:spid="_x0000_i1048" type="#_x0000_t75" style='width:472.5pt;
1715 height:388.5pt;visibility:visible;mso-wrap-style:square'>
1716 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image016.png"
1717  o:title=""/>
1718</v:shape><![endif]--><![if !vml]><img width=630 height=518
1719src="Small%20Angle%20Image%20Processing_files/image016.png" v:shapes="Picture_x0020_43"><![endif]></span></p>
1720
1721<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1722
1723<p class=MsoNormal>This is a reasonable time to save the project; do <b
1724style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1725mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>File/Save
1726project as…</span></b> from the main GSAS-II data tree menu. Choose a file name
1727(I assumed <b style='mso-bidi-font-weight:normal'><span style='font-family:
1728"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:
1729minor-latin'>image</span></b>) and it will be written on the local file
1730directory. </p>
1731
1732<p class=MsoNormal>As noted earlier, the images contain some unwanted features;
1733so let’s create masks to remove them. Select <b style='mso-bidi-font-weight:
1734normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
1735minor-latin;mso-hansi-theme-font:minor-latin'>Masks</span></b> from the GSAS-II
1736data tree under <b style='mso-bidi-font-weight:normal'><span style='font-family:
1737"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:
1738minor-latin'>IMG GC_5s_200.tif</span></b>; the data window will show</p>
1739
1740<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1741 id="Picture_x0020_17" o:spid="_x0000_i1047" type="#_x0000_t75" style='width:337.5pt;
1742 height:99.75pt;visibility:visible;mso-wrap-style:square'>
1743 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image017.png"
1744  o:title=""/>
1745</v:shape><![endif]--><![if !vml]><img width=450 height=133
1746src="Small%20Angle%20Image%20Processing_files/image017.png" v:shapes="Picture_x0020_17"><![endif]></span></p>
1747
1748<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1749
1750<p class=MsoNormal>To mask out the regions beyond the circular <span
1751class=SpellE>MarCCD</span> image change the <span class=GramE><b
1752style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1753mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Lower<span
1754style='mso-spacerun:yes'>  </span><span class=SpellE>threshhold</span></span></b></span>
1755from <b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1756mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>0</span></b>
1757to <b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1758mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>1</span></b>;
1759the image will be redrawn with these regions in red</p>
1760
1761<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1762 id="Picture_x0020_45" o:spid="_x0000_i1046" type="#_x0000_t75" style='width:525pt;
1763 height:450pt;visibility:visible;mso-wrap-style:square'>
1764 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image018.png"
1765  o:title=""/>
1766</v:shape><![endif]--><![if !vml]><img width=700 height=600
1767src="Small%20Angle%20Image%20Processing_files/image018.png" v:shapes="Picture_x0020_45"><![endif]></span></p>
1768
1769<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1770
1771<p class=MsoNormal>These are now excluded. The status line for the <b
1772style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1773mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Masks</span></b>
1774data window gives the directions for adding additional masks. You can make arcs
1775(we’ll use that here), rings, spots (this too) and polygons (this as well) as
1776masks. These enclose areas to be excluded. The frame works in the opposite
1777sense in that everything outside the frame is excluded (NB: only one frame is
1778allowed). So let’s first mask the bad arc in the upper left – zoom in on that
1779part of the image</p>
1780
1781<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1782 id="Picture_x0020_62" o:spid="_x0000_i1045" type="#_x0000_t75" style='width:525pt;
1783 height:450pt;visibility:visible;mso-wrap-style:square'>
1784 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image019.png"
1785  o:title=""/>
1786</v:shape><![endif]--><![if !vml]><img width=700 height=600
1787src="Small%20Angle%20Image%20Processing_files/image019.png" v:shapes="Picture_x0020_62"><![endif]></span></p>
1788
1789<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1790
1791<p class=MsoNormal>To add the mask 1: be sure the focus is on the image and the
1792zoom buttons are off, 2: type <b style='mso-bidi-font-weight:normal'><span
1793style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1794mso-hansi-theme-font:minor-latin'>a</span></b> to activate the arc mask entry
17953: press the left mouse button (<b style='mso-bidi-font-weight:normal'><span
1796style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1797mso-hansi-theme-font:minor-latin'>LB</span></b>) with the cursor centered on
1798the bad arc. The <b style='mso-bidi-font-weight:normal'><span style='font-family:
1799"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:
1800minor-latin'>Masks</span></b> window will show a new entry </p>
1801
1802<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1803 id="Picture_x0020_63" o:spid="_x0000_i1044" type="#_x0000_t75" style='width:342pt;
1804 height:136.5pt;visibility:visible;mso-wrap-style:square'>
1805 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image020.png"
1806  o:title=""/>
1807</v:shape><![endif]--><![if !vml]><img width=456 height=182
1808src="Small%20Angle%20Image%20Processing_files/image020.png" v:shapes="Picture_x0020_63"><![endif]></span><span
1809style='mso-spacerun:yes'> </span></p>
1810
1811<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1812
1813<p class=MsoNormal>and an arc mask will be drawn on the plot.</p>
1814
1815<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1816 id="Picture_x0020_64" o:spid="_x0000_i1043" type="#_x0000_t75" style='width:525pt;
1817 height:450pt;visibility:visible;mso-wrap-style:square'>
1818 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image021.png"
1819  o:title=""/>
1820</v:shape><![endif]--><![if !vml]><img width=700 height=600
1821src="Small%20Angle%20Image%20Processing_files/image021.png" v:shapes="Picture_x0020_64"><![endif]></span></p>
1822
1823<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1824
1825<p class=MsoNormal>You can change the angular width of the arc by changing <b
1826style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1827mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>thickness</span></b>
1828in the <b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1829mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Masks</span></b>
1830data window, you can change the angular range of the arc by dragging either end
1831of the arc (NB: increments only in whole degrees), and you can move the
1832arc<span style='mso-spacerun:yes'>  </span>along a constant 2&#920; angle by
1833dragging on any point inside the mask. The curvature is centered on the beam
1834center position and follows a constant 2&#920; curve established by the
1835detector calibration.<span style='mso-no-proof:yes'> </span></p>
1836
1837<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1838 id="Picture_x0020_65" o:spid="_x0000_i1042" type="#_x0000_t75" style='width:525pt;
1839 height:450pt;visibility:visible;mso-wrap-style:square'>
1840 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image022.png"
1841  o:title=""/>
1842</v:shape><![endif]--><![if !vml]><img width=700 height=600
1843src="Small%20Angle%20Image%20Processing_files/image022.png" v:shapes="Picture_x0020_65"><![endif]></span></p>
1844
1845<p class=MsoNormal>Next let’s deal with the beam stop. I’m going to use both a
1846polygon and a spot to cover it. Move the zoom area to be around the center,
1847make sure the zoom buttons are off, enter ‘<b style='mso-bidi-font-weight:normal'><span
1848style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1849mso-hansi-theme-font:minor-latin'>s</span></b>’ on the plot and press mouse <b
1850style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1851mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>LB</span></b>
1852with the cursor positioned where you want the spot. A 1mm diameter red circle
1853will appear on the plot</p>
1854
1855<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1856 id="Picture_x0020_66" o:spid="_x0000_i1041" type="#_x0000_t75" style='width:525pt;
1857 height:450pt;visibility:visible;mso-wrap-style:square'>
1858 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image023.png"
1859  o:title=""/>
1860</v:shape><![endif]--><![if !vml]><img width=700 height=600
1861src="Small%20Angle%20Image%20Processing_files/image023.png" v:shapes="Picture_x0020_66"><![endif]></span></p>
1862
1863<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1864
1865<p class=MsoNormal>And the <b style='mso-bidi-font-weight:normal'><span
1866style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1867mso-hansi-theme-font:minor-latin'>Masks</span></b> window will have new
1868information</p>
1869
1870<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1871 id="Picture_x0020_24" o:spid="_x0000_i1040" type="#_x0000_t75" style='width:337.5pt;
1872 height:170.25pt;visibility:visible;mso-wrap-style:square'>
1873 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image024.png"
1874  o:title=""/>
1875</v:shape><![endif]--><![if !vml]><img width=450 height=227
1876src="Small%20Angle%20Image%20Processing_files/image024.png" v:shapes="Picture_x0020_24"><![endif]></span></p>
1877
1878<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1879
1880<p class=MsoNormal>You can change the diameter of the spot, I used <b
1881style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1882mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>7.0</span></b>;
1883the plot now shows a ring that just covers the beam stop. You may have to drag
1884it a bit (Hint: drag the center of the spot) to get it well centered.</p>
1885
1886<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1887 id="Picture_x0020_67" o:spid="_x0000_i1039" type="#_x0000_t75" style='width:525pt;
1888 height:450pt;visibility:visible;mso-wrap-style:square'>
1889 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image025.png"
1890  o:title=""/>
1891</v:shape><![endif]--><![if !vml]><img width=700 height=600
1892src="Small%20Angle%20Image%20Processing_files/image025.png" v:shapes="Picture_x0020_67"><![endif]></span></p>
1893
1894<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1895
1896<p class=MsoNormal>Next we need to mask the stick holding the beam stop; we’ll
1897use a 4 sided polygon for this. Adjust the zoom &amp; position so you can see
1898the entire beam stop stick. Make sure all zoom buttons are off, press ‘<b
1899style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1900mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>p</span></b>’
1901on the plot, then press the mouse <b style='mso-bidi-font-weight:normal'><span
1902style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1903mso-hansi-theme-font:minor-latin'>LB</span></b> at four points in succession
1904around the beam stop stick. A line segment for the polygon will be drawn
1905following your mouse clicks. Finally press the mouse <b style='mso-bidi-font-weight:
1906normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
1907minor-latin;mso-hansi-theme-font:minor-latin'>RB</span></b> to close the
1908polygon. You should see something like</p>
1909
1910<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1911 id="Picture_x0020_68" o:spid="_x0000_i1038" type="#_x0000_t75" style='width:525pt;
1912 height:450pt;visibility:visible;mso-wrap-style:square'>
1913 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image026.png"
1914  o:title=""/>
1915</v:shape><![endif]--><![if !vml]><img width=700 height=600
1916src="Small%20Angle%20Image%20Processing_files/image026.png" v:shapes="Picture_x0020_68"><![endif]></span></p>
1917
1918<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1919
1920<p class=MsoNormal>You can adjust the position of the polygon vertices by
1921closely dragging it with mouse <b style='mso-bidi-font-weight:normal'><span
1922style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1923mso-hansi-theme-font:minor-latin'>LB</span></b> pressed; a new vertex can be
1924added by dragging an existing vertex with the mouse <b style='mso-bidi-font-weight:
1925normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
1926minor-latin;mso-hansi-theme-font:minor-latin'>RB</span></b> pressed. If you
1927drag one vertex onto another, they are merged and cannot be separated.</p>
1928
1929<p class=MsoNormal>We want to use these masks for all the Sa1-4 images. Do <b
1930style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1931mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Operations/Copy
1932mask</span></b>; a <b style='mso-bidi-font-weight:normal'><span
1933style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1934mso-hansi-theme-font:minor-latin'>Copy mask information</span></b> dialog box
1935will appear. Select the <b style='mso-bidi-font-weight:normal'><span
1936style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1937mso-hansi-theme-font:minor-latin'>Sa1-4</span></b> items and press <b
1938style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1939mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Ok</span></b>.
1940Here is a useful place to save your project; do <b style='mso-bidi-font-weight:
1941normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
1942minor-latin;mso-hansi-theme-font:minor-latin'>File/Save project</span></b> from
1943the main GSAS-II data tree menu.</p>
1944
1945<h2>Step 3: Integration of images</h2>
1946
1947<p class=MsoNormal>We are now ready to integrate the glassy carbon and the four
1948Sa images. Select any <b style='mso-bidi-font-weight:normal'><span
1949style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1950mso-hansi-theme-font:minor-latin'>Image Controls</span></b> and then do <b
1951style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1952mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Operations/Integrate
1953all</span></b>. A selection dialog will appear; select only the <b
1954style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1955mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>GC</span></b>
1956and <b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
1957mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Sa1-Sa4</span></b>
1958data sets and press <b style='mso-bidi-font-weight:normal'><span
1959style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1960mso-hansi-theme-font:minor-latin'>Ok</span></b>. The image integration will
1961proceed; a progress bar shows as each one is done. Five SASD data items will
1962appear on the GSAS-II data tree; the last one (<b style='mso-bidi-font-weight:
1963normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
1964minor-latin;mso-hansi-theme-font:minor-latin'>SASD Sa4_40s_061.tif <span
1965class=SpellE>Azm</span>=45.00</span></b>) will be expanded and plotted (you may
1966have to select the <b style='mso-bidi-font-weight:normal'><span
1967style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
1968mso-hansi-theme-font:minor-latin'>Powder Patterns</span></b> tab to see it).</p>
1969
1970<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1971 id="Picture_x0020_26" o:spid="_x0000_i1037" type="#_x0000_t75" style='width:525pt;
1972 height:450pt;visibility:visible;mso-wrap-style:square'>
1973 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image027.png"
1974  o:title=""/>
1975</v:shape><![endif]--><![if !vml]><img width=700 height=600
1976src="Small%20Angle%20Image%20Processing_files/image027.png" v:shapes="Picture_x0020_26"><![endif]></span></p>
1977
1978<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1979
1980<p class=MsoNormal>Pretty obviously the SASD pattern is down to background at
1981Q~0.25Å<sup>-1</sup>; the other Sa1-Sa4 patterns are similar. The glassy carbon
1982pattern extends nicely to the highest Q (~1.0Å<sup>-1</sup>) measured.</p>
1983
1984<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
1985 id="Picture_x0020_48" o:spid="_x0000_i1036" type="#_x0000_t75" style='width:525pt;
1986 height:450pt;visibility:visible;mso-wrap-style:square'>
1987 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image028.png"
1988  o:title=""/>
1989</v:shape><![endif]--><![if !vml]><img width=700 height=600
1990src="Small%20Angle%20Image%20Processing_files/image028.png" v:shapes="Picture_x0020_48"><![endif]></span></p>
1991
1992<p class=MsoNormal><o:p>&nbsp;</o:p></p>
1993
1994<h2>Step 4: Scaling of SASD patterns</h2>
1995
1996<p class=MsoNormal>To set this data on an absolute scale, we compare it to an
1997absolute scaled glassy carbon scan. One of these is in the same directory as
1998the image data; do <b style='mso-bidi-font-weight:normal'><span
1999style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
2000mso-hansi-theme-font:minor-latin'>Import/Small Angle Data/ from q(A-1) step
2001X-ray QIE data file</span></b> and select <b style='mso-bidi-font-weight:normal'><span
2002style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
2003mso-hansi-theme-font:minor-latin'>GC calibrated data.txt</span></b> from the
2004file selection dialog. You will need to select <b style='mso-bidi-font-weight:
2005normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
2006minor-latin;mso-hansi-theme-font:minor-latin'>any <span class=GramE>file(</span>*.*)</span></b>
2007to see it. A <b style='mso-bidi-font-weight:normal'><span style='font-family:
2008"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:
2009minor-latin'>Is this the file you want</span></b> dialog will appear – respond <b
2010style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
2011mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Yes</span></b>
2012to read the file; it will be plotted.</p>
2013
2014<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
2015 id="Picture_x0020_49" o:spid="_x0000_i1035" type="#_x0000_t75" style='width:525pt;
2016 height:450pt;visibility:visible;mso-wrap-style:square'>
2017 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image029.png"
2018  o:title=""/>
2019</v:shape><![endif]--><![if !vml]><img width=700 height=600
2020src="Small%20Angle%20Image%20Processing_files/image029.png" v:shapes="Picture_x0020_49"><![endif]></span></p>
2021
2022<p class=MsoNormal><o:p>&nbsp;</o:p></p>
2023
2024<p class=MsoNormal>If you enter ‘<b style='mso-bidi-font-weight:normal'><span
2025style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
2026mso-hansi-theme-font:minor-latin'>m</span></b>’ on the plot window, all of the
2027SASD patterns will be plotted together (I’ve adjusted the zoom to see them
2028all).</p>
2029
2030<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
2031 id="Picture_x0020_50" o:spid="_x0000_i1034" type="#_x0000_t75" style='width:525pt;
2032 height:450pt;visibility:visible;mso-wrap-style:square'>
2033 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image030.png"
2034  o:title=""/>
2035</v:shape><![endif]--><![if !vml]><img width=700 height=600
2036src="Small%20Angle%20Image%20Processing_files/image030.png" v:shapes="Picture_x0020_50"><![endif]></span></p>
2037
2038<p class=MsoNormal><o:p>&nbsp;</o:p></p>
2039
2040<p class=MsoNormal>Clearly the measured image data need to be scaled down to
2041have them on absolute scale. First is to discover the scaling between the two
2042glassy carbon patterns. Go to the measured one (<b style='mso-bidi-font-weight:
2043normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
2044minor-latin;mso-hansi-theme-font:minor-latin'>SASD GC_5s_200.tif</span></b>)
2045and select <b style='mso-bidi-font-weight:normal'><span style='font-family:
2046"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:
2047minor-latin'>Sample Parameters</span></b>.</p>
2048
2049<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
2050 id="Picture_x0020_51" o:spid="_x0000_i1033" type="#_x0000_t75" style='width:291.75pt;
2051 height:408pt;visibility:visible;mso-wrap-style:square'>
2052 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image031.png"
2053  o:title=""/>
2054</v:shape><![endif]--><![if !vml]><img width=389 height=544
2055src="Small%20Angle%20Image%20Processing_files/image031.png" v:shapes="Picture_x0020_51"><![endif]></span></p>
2056
2057<p class=MsoNormal><o:p>&nbsp;</o:p></p>
2058
2059<p class=MsoNormal>We will change <b style='mso-bidi-font-weight:normal'><span
2060style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
2061mso-hansi-theme-font:minor-latin'>Histogram scale factor</span></b> by
2062comparison with the absolute glassy carbon scan. Do <b style='mso-bidi-font-weight:
2063normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
2064minor-latin;mso-hansi-theme-font:minor-latin'>Command/Set scale</span></b> from
2065the <b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
2066mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Sample
2067Parameters</span></b> menu; a <b style='mso-bidi-font-weight:normal'><span
2068style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
2069mso-hansi-theme-font:minor-latin'>Reference histogram</span></b> dialog will
2070appear.</p>
2071
2072<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
2073 id="Picture_x0020_44" o:spid="_x0000_i1032" type="#_x0000_t75" style='width:259.5pt;
2074 height:252pt;visibility:visible;mso-wrap-style:square'>
2075 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image032.png"
2076  o:title=""/>
2077</v:shape><![endif]--><![if !vml]><img width=346 height=336
2078src="Small%20Angle%20Image%20Processing_files/image032.png" v:shapes="Picture_x0020_44"><![endif]></span></p>
2079
2080<p class=MsoNormal><o:p>&nbsp;</o:p></p>
2081
2082<p class=MsoNormal>Select <b style='mso-bidi-font-weight:normal'><span
2083style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
2084mso-hansi-theme-font:minor-latin'>SASD GC calibrated data.txt</span></b> (shown
2085in blue above) and press <b style='mso-bidi-font-weight:normal'><span
2086style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
2087mso-hansi-theme-font:minor-latin'>Ok</span></b>; the <b style='mso-bidi-font-weight:
2088normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
2089minor-latin;mso-hansi-theme-font:minor-latin'>GC_5s_200.tif</span></b> data
2090will be rescaled to the <b style='mso-bidi-font-weight:normal'><span
2091style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
2092mso-hansi-theme-font:minor-latin'>GC calibrated data</span></b> and the <b
2093style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
2094mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Histogram scale
2095factor</span></b> will be changed to the new scaling factor (<b
2096style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
2097mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>0.0008536</span></b>).
2098The plot will be redrawn with the scaled data.</p>
2099
2100<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
2101 id="Picture_x0020_52" o:spid="_x0000_i1031" type="#_x0000_t75" style='width:525pt;
2102 height:450pt;visibility:visible;mso-wrap-style:square'>
2103 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image033.png"
2104  o:title=""/>
2105</v:shape><![endif]--><![if !vml]><img width=700 height=600
2106src="Small%20Angle%20Image%20Processing_files/image033.png" v:shapes="Picture_x0020_52"><![endif]></span></p>
2107
2108<p class=MsoNormal><o:p>&nbsp;</o:p></p>
2109
2110<p class=MsoNormal>The divergence at high Q is probably from a background
2111contribution to the standard that is not present in our measured one. Next we
2112have to apply this scale factor to the Sa1-Sa4 data sets. Do <b
2113style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
2114mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Command/Copy
2115selected…</span></b> from the <b style='mso-bidi-font-weight:normal'><span
2116style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
2117mso-hansi-theme-font:minor-latin'>Sample Parameters</span></b> menu; a <b
2118style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
2119mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Select
2120sample parameters</span></b> dialog will appear</p>
2121
2122<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
2123 id="Picture_x0020_46" o:spid="_x0000_i1030" type="#_x0000_t75" style='width:240pt;
2124 height:232.5pt;visibility:visible;mso-wrap-style:square'>
2125 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image034.png"
2126  o:title=""/>
2127</v:shape><![endif]--><![if !vml]><img width=320 height=310
2128src="Small%20Angle%20Image%20Processing_files/image034.png" v:shapes="Picture_x0020_46"><![endif]></span></p>
2129
2130<p class=MsoNormal><o:p>&nbsp;</o:p></p>
2131
2132<p class=MsoNormal>Select only <b style='mso-bidi-font-weight:normal'><span
2133style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
2134mso-hansi-theme-font:minor-latin'>Histogram scale factor</span></b> and press <b
2135style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
2136mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Ok</span></b>;
2137a <b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
2138mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Copy sample
2139parameters</span></b> dialog will appear</p>
2140
2141<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
2142 id="Picture_x0020_47" o:spid="_x0000_i1029" type="#_x0000_t75" style='width:240pt;
2143 height:232.5pt;visibility:visible;mso-wrap-style:square'>
2144 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image035.png"
2145  o:title=""/>
2146</v:shape><![endif]--><![if !vml]><img width=320 height=310
2147src="Small%20Angle%20Image%20Processing_files/image035.png" v:shapes="Picture_x0020_47"><![endif]></span></p>
2148
2149<p class=MsoNormal><o:p>&nbsp;</o:p></p>
2150
2151<p class=MsoNormal>Select only the <b style='mso-bidi-font-weight:normal'><span
2152style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
2153mso-hansi-theme-font:minor-latin'>Sa1-Sa4</span></b> data sets and press <b
2154style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
2155mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Ok</span></b>.
2156The copy will occur and the plot redrawn</p>
2157
2158<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
2159 id="Picture_x0020_53" o:spid="_x0000_i1028" type="#_x0000_t75" style='width:525pt;
2160 height:450pt;visibility:visible;mso-wrap-style:square'>
2161 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image036.png"
2162  o:title=""/>
2163</v:shape><![endif]--><![if !vml]><img width=700 height=600
2164src="Small%20Angle%20Image%20Processing_files/image036.png" v:shapes="Picture_x0020_53"><![endif]></span></p>
2165
2166<p class=MsoNormal><o:p>&nbsp;</o:p></p>
2167
2168<p class=MsoNormal>I’ve changed the zoom to show all the data. We are not quite
2169done; the scales for the Sa1-Sa4 data sets have to be further reduced by a factor
2170of 8 to account for the longer exposure time. Select <b style='mso-bidi-font-weight:
2171normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
2172minor-latin;mso-hansi-theme-font:minor-latin'>SASD Sa1_40s_067.tif</span></b>
2173from the GSAS-II data tree, expand it and choose <b style='mso-bidi-font-weight:
2174normal'><span style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:
2175minor-latin;mso-hansi-theme-font:minor-latin'>Sample Parameters</span></b></p>
2176
2177<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
2178 id="Picture_x0020_54" o:spid="_x0000_i1027" type="#_x0000_t75" style='width:291.75pt;
2179 height:408pt;visibility:visible;mso-wrap-style:square'>
2180 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image037.png"
2181  o:title=""/>
2182</v:shape><![endif]--><![if !vml]><img width=389 height=544
2183src="Small%20Angle%20Image%20Processing_files/image037.png" v:shapes="Picture_x0020_54"><![endif]></span></p>
2184
2185<p class=MsoNormal><o:p>&nbsp;</o:p></p>
2186
2187<p class=MsoNormal>The data items here can take simple mathematical expressions
2188so change <b style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
2189mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Histogram
2190scale factor</span></b> to <b style='mso-bidi-font-weight:normal'><span
2191style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
2192mso-hansi-theme-font:minor-latin'>0.0008536/8</span></b> and press <b
2193style='mso-bidi-font-weight:normal'><span style='font-family:"Calibri",sans-serif;
2194mso-ascii-theme-font:minor-latin;mso-hansi-theme-font:minor-latin'>Enter</span></b>.
2195The value will change to <b style='mso-bidi-font-weight:normal'><span
2196style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
2197mso-hansi-theme-font:minor-latin'>0.0001067</span></b> and the plot redrawn.</p>
2198
2199<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
2200 id="Picture_x0020_56" o:spid="_x0000_i1026" type="#_x0000_t75" style='width:525pt;
2201 height:450pt;visibility:visible;mso-wrap-style:square'>
2202 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image038.png"
2203  o:title=""/>
2204</v:shape><![endif]--><![if !vml]><img width=700 height=600
2205src="Small%20Angle%20Image%20Processing_files/image038.png" v:shapes="Picture_x0020_56"><![endif]></span></p>
2206
2207<p class=MsoNormal><o:p>&nbsp;</o:p></p>
2208
2209<p class=MsoNormal>Next do <b style='mso-bidi-font-weight:normal'><span
2210style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
2211mso-hansi-theme-font:minor-latin'>Command/Copy selected</span></b> as before to
2212copy this new scale factor to the other Sa data sets. The plot will again be
2213redrawn</p>
2214
2215<p class=MsoNormal><span style='mso-no-proof:yes'><!--[if gte vml 1]><v:shape
2216 id="Picture_x0020_57" o:spid="_x0000_i1025" type="#_x0000_t75" style='width:525pt;
2217 height:450pt;visibility:visible;mso-wrap-style:square'>
2218 <v:imagedata src="Small%20Angle%20Image%20Processing_files/image039.png"
2219  o:title=""/>
2220</v:shape><![endif]--><![if !vml]><img width=700 height=600
2221src="Small%20Angle%20Image%20Processing_files/image039.png" v:shapes="Picture_x0020_57"><![endif]></span></p>
2222
2223<p class=MsoNormal><o:p>&nbsp;</o:p></p>
2224
2225<p class=MsoNormal>Everything is now on absolute scale and these polymer
2226samples are quite weak small angle <span class=SpellE>scatterers</span>. This
2227is a good point to do a <b style='mso-bidi-font-weight:normal'><span
2228style='font-family:"Calibri",sans-serif;mso-ascii-theme-font:minor-latin;
2229mso-hansi-theme-font:minor-latin'>File/Save project</span></b> from the main
2230GSAS-II data tree menu. You can try to fit unified &amp; <span class=SpellE>Porod</span>
2231models to them following the procedures demonstrated in the <strong><span
2232style='font-weight:normal'>Fitting Small Angle X-Ray Data</span></strong><strong><span
2233style='font-weight:normal;mso-bidi-font-weight:bold'> tutorial. I’d set the
2234high Q limit to about 0.25Å<sup>-1</sup> as above that is only noisy
2235background.</span></strong></p>
2236
2237</div>
2238
2239</body>
2240
2241</html>
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