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	<id>https://wiki-ext.aps.anl.gov/s26id/index.php?action=history&amp;feed=atom&amp;title=Sample_Alignment_Quick_Reference</id>
	<title>Sample Alignment Quick Reference - Revision history</title>
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	<updated>2026-06-05T12:00:11Z</updated>
	<subtitle>Revision history for this page on the wiki</subtitle>
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	<entry>
		<id>https://wiki-ext.aps.anl.gov/s26id/index.php?title=Sample_Alignment_Quick_Reference&amp;diff=119&amp;oldid=prev</id>
		<title>S26idadmin: 1 revision</title>
		<link rel="alternate" type="text/html" href="https://wiki-ext.aps.anl.gov/s26id/index.php?title=Sample_Alignment_Quick_Reference&amp;diff=119&amp;oldid=prev"/>
		<updated>2014-01-13T18:30:33Z</updated>

		<summary type="html">&lt;p&gt;1 revision&lt;/p&gt;
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				&lt;tr class=&quot;diff-title&quot; lang=&quot;en&quot;&gt;
				&lt;td colspan=&quot;1&quot; style=&quot;background-color: #fff; color: #202122; text-align: center;&quot;&gt;← Older revision&lt;/td&gt;
				&lt;td colspan=&quot;1&quot; style=&quot;background-color: #fff; color: #202122; text-align: center;&quot;&gt;Revision as of 18:30, 13 January 2014&lt;/td&gt;
				&lt;/tr&gt;&lt;tr&gt;&lt;td colspan=&quot;2&quot; class=&quot;diff-notice&quot; lang=&quot;en&quot;&gt;&lt;div class=&quot;mw-diff-empty&quot;&gt;(No difference)&lt;/div&gt;
&lt;/td&gt;&lt;/tr&gt;&lt;/table&gt;</summary>
		<author><name>S26idadmin</name></author>
	</entry>
	<entry>
		<id>https://wiki-ext.aps.anl.gov/s26id/index.php?title=Sample_Alignment_Quick_Reference&amp;diff=7&amp;oldid=prev</id>
		<title>Ktietz: Created page with &quot;Back to Diffraction &lt;br /&gt; Ahead to Scanning Probe Diffraction Quick Reference&lt;br /&gt; &lt;br /&gt; This reference is intended for staff or advanced users - steps are outlined wi...&quot;</title>
		<link rel="alternate" type="text/html" href="https://wiki-ext.aps.anl.gov/s26id/index.php?title=Sample_Alignment_Quick_Reference&amp;diff=7&amp;oldid=prev"/>
		<updated>2014-01-09T22:08:55Z</updated>

		<summary type="html">&lt;p&gt;Created page with &amp;quot;Back to &lt;a href=&quot;/s26id/index.php?title=Diffraction&quot; title=&quot;Diffraction&quot;&gt;Diffraction&lt;/a&gt; &amp;lt;br /&amp;gt; Ahead to &lt;a href=&quot;/s26id/index.php?title=Scanning_Probe_Diffraction_Quick_Reference&quot; title=&quot;Scanning Probe Diffraction Quick Reference&quot;&gt;Scanning Probe Diffraction Quick Reference&lt;/a&gt;&amp;lt;br /&amp;gt; &amp;lt;br /&amp;gt; This reference is intended for staff or advanced users - steps are outlined wi...&amp;quot;&lt;/p&gt;
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				&lt;tr class=&quot;diff-title&quot; lang=&quot;en&quot;&gt;
				&lt;td colspan=&quot;1&quot; style=&quot;background-color: #fff; color: #202122; text-align: center;&quot;&gt;← Older revision&lt;/td&gt;
				&lt;td colspan=&quot;1&quot; style=&quot;background-color: #fff; color: #202122; text-align: center;&quot;&gt;Revision as of 22:08, 9 January 2014&lt;/td&gt;
				&lt;/tr&gt;&lt;tr&gt;&lt;td colspan=&quot;2&quot; class=&quot;diff-notice&quot; lang=&quot;en&quot;&gt;&lt;div class=&quot;mw-diff-empty&quot;&gt;(No difference)&lt;/div&gt;
&lt;/td&gt;&lt;/tr&gt;&lt;/table&gt;</summary>
		<author><name>Ktietz</name></author>
	</entry>
	<entry>
		<id>https://wiki-ext.aps.anl.gov/s26id/index.php?title=Sample_Alignment_Quick_Reference&amp;diff=118&amp;oldid=prev</id>
		<title>Mvholt at 17:36, 26 November 2010</title>
		<link rel="alternate" type="text/html" href="https://wiki-ext.aps.anl.gov/s26id/index.php?title=Sample_Alignment_Quick_Reference&amp;diff=118&amp;oldid=prev"/>
		<updated>2010-11-26T17:36:26Z</updated>

		<summary type="html">&lt;p&gt;&lt;/p&gt;
&lt;p&gt;&lt;b&gt;New page&lt;/b&gt;&lt;/p&gt;&lt;div&gt;Back to [[Diffraction]] &amp;lt;br /&amp;gt;&lt;br /&gt;
Ahead to [[Scanning Probe Diffraction Quick Reference]]&amp;lt;br /&amp;gt;&lt;br /&gt;
&amp;lt;br /&amp;gt;&lt;br /&gt;
This reference is intended for staff or advanced users - steps are outlined with a minimum of detail&amp;lt;br /&amp;gt;&lt;br /&gt;
Prior to this section make sure beamline alignment has been performed ([[Beamline Alignment Quick Reference]])&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
'''1) Verify optic alignment'''&amp;lt;br /&amp;gt;&lt;br /&gt;
Perform [[CCD changeover]] to [[Coolsnap]] &amp;lt;br /&amp;gt; &lt;br /&gt;
Drive focusing optic into beam, adjust OSAX and OSAY so outgoing focused beam is not clipped and remnant central parallel beam intensity is minimized&amp;lt;br /&amp;gt;&lt;br /&gt;
Close NES slits to 0.1x0.1, adjust FOMX and FOMY to center optic on beam axis - outgoing wavefront as clipped by slits should look symmetric around the edges&amp;lt;br /&amp;gt;&lt;br /&gt;
Record this as your &amp;quot;optic in&amp;quot; position, move FOMX so parallel beam is unobstructed with NES slits at 1x1 (should be ~+4000 relative move) - record this as your &amp;quot;parallel beam&amp;quot; position &amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
NOTES:&amp;lt;br /&amp;gt;&lt;br /&gt;
i) Central stop may be offset from the center of optic - do not simply put image of central stop in the center of the beam footprint when aligning optic&amp;lt;br /&amp;gt;&lt;br /&gt;
ii) Focal length in mm = (zp diameter in um)*(outermost zone width in nm)*(energy in keV)/1239.842&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
'''2) Mount and visually inspect sample'''&amp;lt;br /&amp;gt;&lt;br /&gt;
Move Objective Y to 0.0, rotate Sample Theta to 90 degrees, vent chamber&amp;lt;br /&amp;gt;&lt;br /&gt;
Remove old sample, slide new sample stick into machined slot, verify sample is flush with bottom of slot&amp;lt;br /&amp;gt;&lt;br /&gt;
Pump down chamber&amp;lt;br /&amp;gt;&lt;br /&gt;
View sample from top camera, roughly adjust SAMZ to put surface on marked focal plane&amp;lt;br /&amp;gt;&lt;br /&gt;
View sample from upstream camera, roughly adjust SAMY to put intended scanning region level with marked focal spot&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
NOTES:&amp;lt;br /&amp;gt;&lt;br /&gt;
i) Camera positions will not be accurate until chamber is pumped down&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
'''3) Flatten sample with x-rays'''&amp;lt;br /&amp;gt;&lt;br /&gt;
If phi alignment is necessary, move SAMX so a reference edge of the sample is visible in downstream parallel beam image&amp;lt;br /&amp;gt;&lt;br /&gt;
Observe edge position under SAMY motion of +/-1000, adjust Sample Phi until visible edge is parallel to this motion&amp;lt;br /&amp;gt;&lt;br /&gt;
Move Sample Theta to 0.0 degrees, during this motion watch upstream sample edge and adjust OSAZ and SAMZ as needed to avoid collision&amp;lt;br /&amp;gt;&lt;br /&gt;
Move SAMX so the front face of the sample is visible as an edge in the downstream parallel beam image&amp;lt;br /&amp;gt;&lt;br /&gt;
Adjust Sample Theta to find crossover between leading edge and trailing edge obstructing beam, set this to be user Theta=0.0&amp;lt;br /&amp;gt;&lt;br /&gt;
Observe surface edge position under SAMY motion of +/-1000, adjust Sample Chi until visible edge is parallel to this motion&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
NOTES:&amp;lt;br /&amp;gt;&lt;br /&gt;
i) Stop coarse motors frequently during these steps&amp;lt;br /&amp;gt;&lt;br /&gt;
ii) Make sure SAMY ends back up at coarse height found above at the end of this section&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
'''4) Parallel beam diffraction alignment'''&amp;lt;br /&amp;gt;&lt;br /&gt;
Mark NES slit center in Coolsnap image with crosshair&amp;lt;br /&amp;gt;&lt;br /&gt;
Calculate substrate scattering condition using Bragg law calculator, drive Sample Theta and detector Two Theta to these values (keep surface on focal plane with SAMZ)&amp;lt;br /&amp;gt;&lt;br /&gt;
Position fluorescent screen in front of Coolsnap viewable by outboard camera, find and coarsely optimize reflection using Sample Theta, remove screen&amp;lt;br /&amp;gt;&lt;br /&gt;
Close NES vertical slits to 0.1, adjust Sample Chi to align streak vertically with marked slit center&amp;lt;br /&amp;gt;&lt;br /&gt;
Open NES vertical slits, fine scan Sample Theta to maximize integrated ROI signal&amp;lt;br /&amp;gt;&lt;br /&gt;
Close NES horizontal slits to 0.1, adjust detector Two theta to center reflection on marked slit center&amp;lt;br /&amp;gt;&lt;br /&gt;
Re-open NES slits to 1x1, if any contrast is visible center intended scanning area in beam footprint using SAMX and SAMY (keep on focal plane with SAMZ)&amp;lt;br /&amp;gt;&lt;br /&gt;
Calculate the difference between the film scattering condition and the substrate scattering condition using Bragg law calculator&amp;lt;br /&amp;gt;&lt;br /&gt;
Make a two positioner theta/two theta scan relative to the current position encompassing both the substrate peak and the film peak&amp;lt;br /&amp;gt;&lt;br /&gt;
Drive to the film peak, if any contrast is visible center intended scanning area in beam footprint using SAMX and SAMY (keep on focal plane with SAMZ)&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
NOTES:&amp;lt;br /&amp;gt;&lt;br /&gt;
i) Stop coarse motors frequently during these steps&amp;lt;br /&amp;gt;&lt;br /&gt;
ii) Increase counting time substantially relative to substrate peak and view th/tth scan in log scale to find the film peak&amp;lt;br /&amp;gt;&lt;br /&gt;
iii) When centering using diffraction topography crosshair position runs out from beam axis unless SAMX and SAMZ are correctly moved together, check this by closing NES slits&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
&lt;br /&gt;
'''5) Focused beam alignment'''&amp;lt;br /&amp;gt;&lt;br /&gt;
Drive FOMX and FOMY to &amp;quot;optic in&amp;quot; position from step 1&amp;lt;br /&amp;gt;&lt;br /&gt;
At film peak two theta perform [[CCD changeover]] to either [[PI-LCX]] or [[PIXIS-XF]]&amp;lt;br /&amp;gt;&lt;br /&gt;
Move in outboard fluorescent detector and add as a detector trigger&amp;lt;br /&amp;gt;&lt;br /&gt;
Scan SAMX and SAMY to coarsely find intended scanning region or object using diffractive and fluorescent contrast&amp;lt;br /&amp;gt;&lt;br /&gt;
Once something is coarsely located (to within ~100um2), adjust SAMZ to bring sample surface to focal plane then stop all sample motor motion&amp;lt;br /&amp;gt;&lt;br /&gt;
Activate hybrid optic motion by entering the current HybridX/HybridY readback values into the HybridX/HybridY command fields&amp;lt;br /&amp;gt;&lt;br /&gt;
Find some local contrast - any diffraction or fluorescence signal that shows variation over a ~5um linear scan - and use this to focus&amp;lt;br /&amp;gt;&lt;br /&gt;
Typical initial coarse focal scan correcting for known runout:&amp;lt;br /&amp;gt;&lt;br /&gt;
{| {{table}} style=&amp;quot;text-align:center&amp;quot;&lt;br /&gt;
| align=&amp;quot;center&amp;quot; style=&amp;quot;background:#f0f0f0;&amp;quot;|'''Outer loop positioners'''&lt;br /&gt;
| align=&amp;quot;center&amp;quot; style=&amp;quot;background:#f0f0f0;&amp;quot;|'''Scan width(#pts)'''&lt;br /&gt;
| align=&amp;quot;center&amp;quot; style=&amp;quot;background:#f0f0f0;&amp;quot;|'''Inner loop positioner'''&lt;br /&gt;
| align=&amp;quot;center&amp;quot; style=&amp;quot;background:#f0f0f0;&amp;quot;|'''Scan width(#pts)'''&lt;br /&gt;
|-&lt;br /&gt;
|-&lt;br /&gt;
| FOMZ ||400um (10pts)           ||Hybrid Y     ||5um (50 pts)      &lt;br /&gt;
|-&lt;br /&gt;
| Hybrid X ||-2.0um (10pts)           ||-     ||-      &lt;br /&gt;
|- &lt;br /&gt;
| Hybrid Y ||-1.2um (10pts)           ||-     ||-      &lt;br /&gt;
|-&lt;br /&gt;
|}  &lt;br /&gt;
Once coarse focus is obtained, reduce all outer loop positioners by a factor of four and re-scan to find fine focus&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
NOTES:&amp;lt;br /&amp;gt;&lt;br /&gt;
i) Do not expose PI detectors or outboard fluorescent detector when in &amp;quot;parallel beam&amp;quot; condition&amp;lt;br /&amp;gt;&lt;br /&gt;
ii) Once enabled the Hybrid motion MUST be de-activated prior to any activation of X/Y coarse motors, and then re-enabled in the new readback position&amp;lt;br /&amp;gt;&lt;br /&gt;
iii) Instrument temperature equilibration will be causing position drift during the focal scans, monitor object position with linear X/Y scans &amp;lt;br /&amp;gt;&lt;br /&gt;
iv) After focusing, remove extra positioners and add reasonable soft limits around any motions likely to be scanned (to prevent &amp;quot;move to zero&amp;quot; crashes)&amp;lt;br /&amp;gt;&lt;br /&gt;
&lt;br /&gt;
[[Category:XMG]][[Category:Diffraction]][[Category:Controls]]&lt;/div&gt;</summary>
		<author><name>Mvholt</name></author>
	</entry>
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