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</style></head><body><div id="mc-region-766" style="position: absolute; top: 20.25pt; left: 630pt; width: 34.25pt; "><a name="" /><p class="Style1"><b><u>Notes </u></b></p></div><div id="mc-region-501" style="position: absolute; top: 21.75pt; left: 6pt; width: 432.5pt; background-color: #000; "><a name="" /><p class="Style1" style="margin-left: 0pt; margin-right: 0pt; text-align: left;"><span style="font-size: 16pt; "><b><u><span style="color: #f00; text-decoration: underline ;">1: Model 2mm thick Sample single plate at various </span></u></b></span></p><p class="Style1" style="margin-left: 0pt; margin-right: 0pt; text-align: left;"><span style="font-size: 16pt; "><b><u><span style="color: #f00; text-decoration: underline ;">distances from object plane (Zeonex 330R)</span></u></b></span></p></div><div id="mc-region-762" style="position: absolute; top: 50.25pt; left: 468pt; width: 367.25pt; "><a name="" /><p class="Style1">Determine the "positional dependence" collection efficiency of the autofluorescence.</p></div><div id="mc-region-493" style="position: absolute; top: 74.25pt; left: 6pt; width: 430.25pt; background-color: #eee; "><a name="" /><p class="Style1" style="margin-left: 0pt; margin-right: 0pt; text-align: left;">Model a 2mm thick target (MFP=40) at various positions from the object plane to see how the "collection efficiency" varies. Include postions to the other side of focus (i.e. further from objective lens)</p></div><div id="mc-region-744" style="position: absolute; top: 118.5pt; left: 72pt; width: 56.75pt; "><a name="" /><p class="Style12"><span style="font-size: 7.2727272727272725pt; ">distance d(mm)</span></p></div><div id="mc-region-400" style="position: absolute; top: 122.25pt; left: 462pt; width: 444.5pt; "><a name="" /><p class="Style1">Want to be able to determine what background to use to subtract. As the collection varies, any background has to detemined by fitting measured data to modelled. Real measured data also includes LED breakthru e.g. from reflections</p></div><div id="mc-region-486" style="position: absolute; top: 129pt; left: 18pt; width: 153pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0005_1228191445.PNG" id="generatedImage486" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0005_1228191445.PNG" style="width: 153pt;height: 136.5pt;"></img></div><div id="mc-region-492" style="position: absolute; top: 144pt; left: 306pt; width: 87pt; background-color: #c0c0c0; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0007_1228191445.PNG" id="generatedImage492" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0007_1228191445.PNG" style="width: 87pt;height: 240.75pt;"></img></div><div id="mc-region-489" style="position: absolute; top: 140.25pt; left: 198pt; width: 87.5pt; background-color: #ffffd2; "><a name="" /><p class="Style1"><b><u>Zemax Modelled:</u></b></p><p class="Style1">100 million Rays</p><p class="Style1">MFP=40</p></div><div id="mc-region-779" style="position: absolute; top: 219pt; left: 186pt; width: 12pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0008_1228191445.PNG" id="generatedImage779" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0008_1228191445.PNG" style="width: 12pt;height: 12.75pt;"></img></div><div id="mc-region-780" style="position: absolute; top: 237pt; left: 186pt; width: 16.5pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0009_1228191445.PNG" id="generatedImage780" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0009_1228191445.PNG" style="width: 16.5pt;height: 12.75pt;"></img></div><div id="mc-region-787" style="position: absolute; top: 266.25pt; left: 546pt; width: 61.5pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0010_1228191445.PNG" id="generatedImage787" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0010_1228191445.PNG" style="width: 61.5pt;height: 27.75pt;"></img></div><div id="mc-region-781" style="position: absolute; top: 290.25pt; left: 126pt; width: 87.5pt; "><a name="" /><p class="Style12">Normalised to unity</p></div><div id="mc-region-496" style="position: absolute; top: 306pt; left: 12pt; width: 274.5pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0012_1228191455.PNG" id="generatedImage496" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0012_1228191455.PNG" style="width: 274.5pt;height: 200.25pt;"></img></div><div id="mc-region-505" style="position: absolute; top: 320.25pt; left: 186pt; width: 90.5pt; "><a name="" /><p class="Style1">At focus is x=-2mm</p></div><div id="mc-region-797" style="position: absolute; top: 500.25pt; left: 678pt; width: 83.75pt; background-color: #c0c0c0; "><a name="" /><p class="Style1">1st measurement </p></div><div id="mc-region-798" style="position: absolute; top: 500.25pt; left: 858pt; width: 86pt; background-color: #c0c0c0; "><a name="" /><p class="Style1">2nd measurement </p></div><div id="mc-region-508" style="position: absolute; top: 516pt; left: 6pt; width: 432.5pt; background-color: #000; "><a name="" /><p class="Style12" style="margin-left: 0pt; margin-right: 0pt; text-align: left;"><span style="font-size: 12pt; "><b><u><span style="color: #f00; text-decoration: underline ;">1.1 Comparison with experimental data (Hole in aluminium plate)</span></u></b></span></p></div><div id="mc-region-804" style="position: absolute; top: 525pt; left: 462pt; width: 158.25pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0014_1228191455.PNG" id="generatedImage804" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0014_1228191455.PNG" style="width: 158.25pt;height: 89.25pt;"></img></div><div id="mc-region-799" style="position: absolute; top: 525pt; left: 630pt; width: 162pt; background-color: #c0c0c0; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0016_1228191455.PNG" id="generatedImage799" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0016_1228191455.PNG" style="width: 162pt;height: 89.25pt;"></img></div><div id="mc-region-800" style="position: absolute; top: 525pt; left: 816pt; width: 162pt; background-color: #c0c0c0; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0018_1228191455.PNG" id="generatedImage800" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0018_1228191455.PNG" style="width: 162pt;height: 89.25pt;"></img></div><div id="mc-region-511" style="position: absolute; top: 536.25pt; left: 6pt; width: 432.5pt; background-color: #eee; "><a name="" /><p class="Style1">Using the Zeonex330R sample as this had a thickness of 2mm, the signal was measured for various positions away from the object plane. The object plane was determined by scaratching the</p><p class="Style1">supporting microscope slide and focusing on that.</p></div><div id="mc-region-521" style="position: absolute; top: 584.25pt; left: 6pt; width: 394.25pt; "><a name="" /><p class="Style11">Need to subtract background: Dark 1s signal = 99.434 or al support with hole in = <u>100.436</u></p></div><div id="mc-region-523" style="position: absolute; top: 603pt; left: 54pt; width: 57.75pt; background-color: #ffff80; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0019_1228191465.PNG" id="generatedImage523" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0019_1228191465.PNG" style="width: 57.75pt;height: 12.75pt;"></img></div><div id="mc-region-860" style="position: absolute; top: 602.25pt; left: 342pt; width: 72.5pt; "><a name="" /><p class="Style1">glass support = 101.41!!!)</p></div><div id="mc-region-831" style="position: absolute; top: 621pt; left: 498pt; width: 120.75pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0020_1228191465.PNG" id="generatedImage831" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0020_1228191465.PNG" style="width: 120.75pt;height: 18pt;"></img></div><div id="mc-region-801" style="position: absolute; top: 621pt; left: 672pt; width: 120.75pt; background-color: #c0c0c0; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0021_1228191465.PNG" id="generatedImage801" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0021_1228191465.PNG" style="width: 120.75pt;height: 18pt;"></img></div><div id="mc-region-802" style="position: absolute; top: 621pt; left: 858pt; width: 116.25pt; background-color: #c0c0c0; "><a name="" /><a href="javascript:alert('This variable is undefined\x2e');" onmouseover="window.status='This variable is undefined\x2e'; return true;"><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0022_1228191465.PNG" id="generatedImage802" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0022_1228191465.PNG" style="width: 116.25pt;height: 18pt;"></img></a></div><div id="mc-region-527" style="position: absolute; top: 632.25pt; left: 90pt; width: 124.25pt; "><a name="" /><p class="Style12">2 mm thick plate (MFP=40)</p></div><div id="mc-region-907" style="position: absolute; top: 648pt; left: 6pt; width: 274.5pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0024_1228191475.PNG" id="generatedImage907" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0024_1228191475.PNG" style="width: 274.5pt;height: 200.25pt;"></img></div><div id="mc-region-563" style="position: absolute; top: 656.25pt; left: 288pt; width: 120.5pt; background-color: #ffffd2; "><a name="" /><p class="Style1">The measured data follows roughly the same trend</p></div><div id="mc-region-560" style="position: absolute; top: 876.75pt; left: 6pt; width: 432.5pt; background-color: #000; "><a name="" /><p class="Style1" style="margin-left: 0pt; margin-right: 0pt; text-align: left;"><span style="font-size: 12pt; "><b><u><span style="color: #f00; text-decoration: underline ;">2:Thickness Variation for Samples 2mm from Object Plane</span></u></b></span>Tm from Object plane</p></div><div id="mc-region-561" style="position: absolute; top: 902.25pt; left: 18pt; width: 416pt; "><a name="" /><p class="Style1">Thickness variation for sample 2mm from Object plane</p></div><div id="mc-region-565" style="position: absolute; top: 920.25pt; left: 12pt; width: 416.75pt; background-color: #eee; "><a name="" /><p class="Style1">The glass samples I have are all different thicknesses. so in order to compare</p><p class="Style1">I need to work out how the detection varies as a function of thickness for the same</p><p class="Style1">glass at a distance 2mm from object plane. this will then allow the comparison of different glasses of dfferent thickness - i.e. whether they are bette ror worse,</p></div><div id="mc-region-864" style="position: absolute; top: 986.25pt; left: 96pt; width: 85.25pt; "><a name="" /><p class="Style1"><b><u>Zemax modelled</u></b></p></div><div id="mc-region-865" style="position: absolute; top: 986.25pt; left: 210pt; width: 77pt; background-color: #ffdfdf; "><a name="" /><p class="Style1">100 million rays</p><p class="Style1">MFP = 40</p></div><div id="mc-region-736" style="position: absolute; top: 1016.25pt; left: 60pt; width: 309.5pt; "><a name="" /><p class="Style12">Thickness (x) Autofluorescence power at sample</p></div><div id="mc-region-868" style="position: absolute; top: 1026pt; left: 450pt; width: 131.25pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0026_1228191475.PNG" id="generatedImage868" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0026_1228191475.PNG" style="width: 131.25pt;height: 171pt;"></img></div><div id="mc-region-720" style="position: absolute; top: 1029pt; left: 18pt; width: 286.5pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0028_1228191475.PNG" id="generatedImage720" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0028_1228191475.PNG" style="width: 286.5pt;height: 136.5pt;"></img></div><div id="mc-region-867" style="position: absolute; top: 1028.25pt; left: 618pt; width: 208.25pt; "><a name="" /><p class="Style1">No microscope slide in model as would have to assume different glass and hence differetn MFP</p><p class="Style1">will complicate things.</p></div><div id="mc-region-887" style="position: absolute; top: 1034.25pt; left: 336pt; width: 64.25pt; background-color: #ffff80; "><a name="" /><p class="Style1">power without</p><p class="Style1">scatter = 45</p></div><div id="mc-region-873" style="position: absolute; top: 1088.25pt; left: 312pt; width: 37.25pt; "><a name="" /><p class="Style1">1.8123 </p></div><div id="mc-region-874" style="position: absolute; top: 1088.25pt; left: 348pt; width: 37.25pt; "><a name="" /><p class="Style1">1.6074 </p></div><div id="mc-region-875" style="position: absolute; top: 1119pt; left: 318pt; width: 25.5pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0029_1228191475.PNG" id="generatedImage875" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0029_1228191475.PNG" style="width: 25.5pt;height: 12.75pt;"></img></div><div id="mc-region-876" style="position: absolute; top: 1119pt; left: 354pt; width: 16.5pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0030_1228191485.PNG" id="generatedImage876" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0030_1228191485.PNG" style="width: 16.5pt;height: 12.75pt;"></img></div><div id="mc-region-583" style="position: absolute; top: 1196.25pt; left: 30pt; width: 412.25pt; "><a name="" /><p class="Style1">So now can relate all thickness to e.g the 2mm thickness sample by normalising to 1.47. This will allow an apples and apples comparison. (as long as the below curve is true!) I think Zemax may be over depleteing the incident beam, but for now lets <b><u>assume its true.</u></b></p></div><div id="mc-region-928" style="position: absolute; top: 1244.25pt; left: 318pt; width: 188pt; background-color: #bfffff; "><a name="" /><p class="Style1">Power At Sample</p></div><div id="mc-region-863" style="position: absolute; top: 1250.25pt; left: 66pt; width: 188pt; background-color: #bfffff; "><a name="" /><p class="Style1">Hence determine Calibration curve</p></div><div id="mc-region-881" style="position: absolute; top: 1260pt; left: 258pt; width: 219pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0032_1228191485.PNG" id="generatedImage881" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0032_1228191485.PNG" style="width: 219pt;height: 212.25pt;"></img></div><div id="mc-region-877" style="position: absolute; top: 1266pt; left: 18pt; width: 231.75pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0034_1228191485.PNG" id="generatedImage877" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0034_1228191485.PNG" style="width: 231.75pt;height: 227.25pt;"></img></div><div id="mc-region-827" style="position: absolute; top: 1287pt; left: 780pt; width: 174.75pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0036_1228191485.PNG" id="generatedImage827" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0036_1228191485.PNG" style="width: 174.75pt;height: 89.25pt;"></img></div><div id="mc-region-826" style="position: absolute; top: 1320pt; left: 606pt; width: 169.5pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0038_1228191495.PNG" id="generatedImage826" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0038_1228191495.PNG" style="width: 169.5pt;height: 133.5pt;"></img></div><div id="mc-region-929" style="position: absolute; top: 1299pt; left: 504pt; width: 102.75pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0040_1228191495.PNG" id="generatedImage929" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0040_1228191495.PNG" style="width: 102.75pt;height: 127.5pt;"></img></div><div id="mc-region-932" style="position: absolute; top: 1437pt; left: 510pt; width: 147.75pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0041_1228191495.PNG" id="generatedImage932" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0041_1228191495.PNG" style="width: 147.75pt;height: 38.25pt;"></img></div><div id="mc-region-954" style="position: absolute; top: 1482pt; left: 798pt; width: 219pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0043_1228191495.PNG" id="generatedImage954" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0043_1228191495.PNG" style="width: 219pt;height: 212.25pt;"></img></div><div id="mc-region-958" style="position: absolute; top: 1484.25pt; left: 540pt; width: 57.5pt; "><a name="" /><p class="Style1">stacked </p></div><div id="mc-region-909" style="position: absolute; top: 1502.25pt; left: 48pt; width: 394.25pt; "><a name="" /><p class="Style1">Compare the above calibration curve to experimentally measured data. Using 3mm targets and stacking them the mimic various thickneses.</p></div><div id="mc-region-922" style="position: absolute; top: 1538.25pt; left: 30pt; width: 93.5pt; "><a name="" /><p class="Style1">background = <a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0044_1228191506.PNG" id="generatedImage921" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0044_1228191506.PNG" style="width: 25.5pt;height: 12.75pt;"></img></p></div><div id="mc-region-948" style="position: absolute; top: 1538.25pt; left: 162pt; width: 151.25pt; "><a name="" /><p class="Style1">Power = 53.8mW, Dark 1s = 99.6</p></div><div id="mc-region-952" style="position: absolute; top: 1556.25pt; left: 162pt; width: 100.25pt; "><a name="" /><p class="Style1">1 st go zemax</p></div><div id="mc-region-956" style="position: absolute; top: 1515pt; left: 462pt; width: 181.5pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0046_1228191566.PNG" id="generatedImage956" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0046_1228191566.PNG" style="width: 181.5pt;height: 127.5pt;"></img></div><div id="mc-region-949" style="position: absolute; top: 1575pt; left: 36pt; width: 249pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0048_1228191566.PNG" id="generatedImage949" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0048_1228191566.PNG" style="width: 249pt;height: 73.5pt;"></img></div><div id="mc-region-961" style="position: absolute; top: 1581pt; left: 300pt; width: 145.5pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0050_1228191576.PNG" id="generatedImage961" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0050_1228191576.PNG" style="width: 145.5pt;height: 57.75pt;"></img></div><div id="mc-region-919" style="position: absolute; top: 1652.25pt; left: 72pt; width: 202.25pt; "><a name="" /><p class="Style1">Normalising the calibration curve to unity and </p></div><div id="mc-region-955" style="position: absolute; top: 1668pt; left: 444pt; width: 219pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0052_1228191576.PNG" id="generatedImage955" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0052_1228191576.PNG" style="width: 219pt;height: 212.25pt;"></img></div><div id="mc-region-926" style="position: absolute; top: 1674pt; left: 60pt; width: 214.5pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0054_1228191576.PNG" id="generatedImage926" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0054_1228191576.PNG" style="width: 214.5pt;height: 212.25pt;"></img></div><div id="mc-region-885" style="position: absolute; top: 1958.25pt; left: 42pt; width: 369.5pt; "><a name="" /><p class="Style1">So the above curve has to be corrected to account for the loss in power reaching the sample due to depletion of the incident beam in the Zemax model when scattering is considered. </p></div><div id="mc-region-610" style="position: absolute; top: 2042.25pt; left: 36pt; width: 393.5pt; "><a name="" /><p class="Style1">So the 5mm thick glass gives 1.58/1.47 = 1.075 times more signal when the glasses are equal. So for the measured values I would need to divide the 5mm glass measurement by</p><p class="Style1">1.075 to be able to compare to the other material of thickness 2mm.</p><br /><p class="Style1">Equally, the 8mm glass gives 1.379/1.47 = 0.938 times the 2mm signal. </p></div><div id="mc-region-890" style="position: absolute; top: 2043pt; left: 702pt; width: 102.75pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0056_1228191576.PNG" id="generatedImage890" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0056_1228191576.PNG" style="width: 102.75pt;height: 127.5pt;"></img></div><div id="mc-region-616" style="position: absolute; top: 2096.25pt; left: 522pt; width: 61.5pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0057_1228191586.PNG" id="generatedImage616" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0057_1228191586.PNG" style="width: 61.5pt;height: 27.75pt;"></img></div><div id="mc-region-839" style="position: absolute; top: 2114.25pt; left: 36pt; width: 408.5pt; "><a name="" /><p class="Style1">Using "stacked "glasses to mimic various thickness of the same material reveals in measurment that the curve is different.</p></div><div id="mc-region-845" style="position: absolute; top: 2132.25pt; left: 228pt; width: 209.75pt; "><a name="" /><p class="Style1">scaling the zemax data to remove the depletion bias</p></div><div id="mc-region-849" style="position: absolute; top: 2150.25pt; left: 384pt; width: 184.25pt; "><a name="" /><p class="Style1">thickness scale factor</p></div><div id="mc-region-843" style="position: absolute; top: 2157pt; left: 48pt; width: 175.5pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0059_1228191586.PNG" id="generatedImage843" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0059_1228191586.PNG" style="width: 175.5pt;height: 136.5pt;"></img></div><div id="mc-region-847" style="position: absolute; top: 2169pt; left: 264pt; width: 250.5pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0061_1228191586.PNG" id="generatedImage847" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0061_1228191586.PNG" style="width: 250.5pt;height: 136.5pt;"></img></div><div id="mc-region-891" style="position: absolute; top: 2192.25pt; left: 780pt; width: 57pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0062_1228191586.PNG" id="generatedImage891" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0062_1228191586.PNG" style="width: 57pt;height: 27.75pt;"></img></div><div id="mc-region-857" style="position: absolute; top: 2151pt; left: 552pt; width: 141.75pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0064_1228191586.PNG" id="generatedImage857" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0064_1228191586.PNG" style="width: 141.75pt;height: 127.5pt;"></img></div><div id="mc-region-852" style="position: absolute; top: 2324.25pt; left: 42pt; width: 169.25pt; "><a name="" /><p class="Style1">scatter biassed correct Zemax model </p></div><div id="mc-region-855" style="position: absolute; top: 2364pt; left: 54pt; width: 285pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0066_1228191596.PNG" id="generatedImage855" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0066_1228191596.PNG" style="width: 285pt;height: 205.5pt;"></img></div><div id="mc-region-896" style="position: absolute; top: 2372.25pt; left: 384pt; width: 117.5pt; "><a name="" /><p class="Style1">3 mm glass correction</p></div><div id="mc-region-898" style="position: absolute; top: 2366.25pt; left: 492pt; width: 61.5pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0067_1228191596.PNG" id="generatedImage898" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0067_1228191596.PNG" style="width: 61.5pt;height: 27.75pt;"></img></div><div id="mc-region-901" style="position: absolute; top: 2420.25pt; left: 378pt; width: 117.5pt; "><a name="" /><p class="Style1">5 mm glass correction</p></div><div id="mc-region-900" style="position: absolute; top: 2420.25pt; left: 498pt; width: 61.5pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0068_1228191596.PNG" id="generatedImage900" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0068_1228191596.PNG" style="width: 61.5pt;height: 27.75pt;"></img></div><div id="mc-region-902" style="position: absolute; top: 2462.25pt; left: 384pt; width: 117.5pt; "><a name="" /><p class="Style1">8 mm glass correction</p></div><div id="mc-region-903" style="position: absolute; top: 2462.25pt; left: 504pt; width: 61.5pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0069_1228191596.PNG" id="generatedImage903" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0069_1228191596.PNG" style="width: 61.5pt;height: 27.75pt;"></img></div><div id="mc-region-592" style="position: absolute; top: 2648.25pt; left: 24pt; width: 76.25pt; "><a name="" /><p class="Style1"><b><u>Measured Data</u></b></p></div><div id="mc-region-597" style="position: absolute; top: 2666.25pt; left: 24pt; width: 107pt; "><a name="" /><p class="Style1">2mm from object plane </p></div><div id="mc-region-599" style="position: absolute; top: 2720.25pt; left: 96pt; width: 228.5pt; "><a name="" /><p class="Style12"> Thickness Measured </p></div><div id="mc-region-904" style="position: absolute; top: 2727pt; left: 246pt; width: 62.25pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0070_1228191606.PNG" id="generatedImage904" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0070_1228191606.PNG" style="width: 62.25pt;height: 12.75pt;"></img></div><div id="mc-region-589" style="position: absolute; top: 2739pt; left: 42pt; width: 177.75pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0072_1228191606.PNG" id="generatedImage589" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0072_1228191606.PNG" style="width: 177.75pt;height: 89.25pt;"></img></div><div id="mc-region-784" style="position: absolute; top: 2762.25pt; left: 516pt; width: 61.5pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0073_1228191606.PNG" id="generatedImage784" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0073_1228191606.PNG" style="width: 61.5pt;height: 27.75pt;"></img></div><div id="mc-region-782" style="position: absolute; top: 2810.25pt; left: 516pt; width: 84.75pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0074_1228191606.PNG" id="generatedImage782" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0074_1228191606.PNG" style="width: 84.75pt;height: 27.75pt;"></img></div><div id="mc-region-786" style="position: absolute; top: 2817pt; left: 648pt; width: 81.75pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0075_1228191606.PNG" id="generatedImage786" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0075_1228191606.PNG" style="width: 81.75pt;height: 12.75pt;"></img></div><div id="mc-region-613" style="position: absolute; top: 2898pt; left: 30pt; width: 258.75pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0077_1228191616.PNG" id="generatedImage613" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0077_1228191616.PNG" style="width: 258.75pt;height: 205.5pt;"></img></div><div id="mc-region-615" style="position: absolute; top: 2912.25pt; left: 306pt; width: 127.25pt; "><a name="" /><p class="Style1">This is the raw measured.</p><p class="Style1">If I know scale by the corrections above so to map all measurement to a 2mm thickness glass we get the 2nd graph below</p></div><div id="mc-region-637" style="position: absolute; top: 3116.25pt; left: 60pt; width: 379.25pt; "><a name="" /><p class="Style12">raw measurement Bgd subtracted Normalisation factor</p></div><div id="mc-region-636" style="position: absolute; top: 3135pt; left: 48pt; width: 112.5pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0079_1228191616.PNG" id="generatedImage636" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0079_1228191616.PNG" style="width: 112.5pt;height: 80.25pt;"></img></div><div id="mc-region-638" style="position: absolute; top: 3135pt; left: 168pt; width: 128.25pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0081_1228191616.PNG" id="generatedImage638" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0081_1228191616.PNG" style="width: 128.25pt;height: 80.25pt;"></img></div><div id="mc-region-656" style="position: absolute; top: 3135.75pt; left: 294pt; width: 108.75pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0082_1228191616.PNG" id="generatedImage656" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0082_1228191616.PNG" style="width: 108.75pt;height: 107.25pt;"></img></div><div id="mc-region-644" style="position: absolute; top: 3237pt; left: 42pt; width: 141.75pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0083_1228191616.PNG" id="generatedImage644" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0083_1228191616.PNG" style="width: 141.75pt;height: 33pt;"></img></div><div id="mc-region-773" style="position: absolute; top: 3242.25pt; left: 534pt; width: 61.5pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0084_1228191626.PNG" id="generatedImage773" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0084_1228191626.PNG" style="width: 61.5pt;height: 27.75pt;"></img></div><div id="mc-region-647" style="position: absolute; top: 3291pt; left: 90pt; width: 129.75pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0086_1228191626.PNG" id="generatedImage647" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0086_1228191626.PNG" style="width: 129.75pt;height: 80.25pt;"></img></div><div id="mc-region-657" style="position: absolute; top: 3378pt; left: 36pt; width: 231.75pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0088_1228191636.PNG" id="generatedImage657" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0088_1228191636.PNG" style="width: 231.75pt;height: 215.25pt;"></img></div><div id="mc-region-660" style="position: absolute; top: 3392.25pt; left: 306pt; width: 132.5pt; "><a name="" /><p class="Style1">so the glass with thickness </p><p class="Style1">5mm gives the overall minimum thickness when equated to 2mm thickness.</p></div><div id="mc-region-968" style="position: absolute; top: 3422.25pt; left: 528pt; width: 171.75pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0089_1228191636.PNG" id="generatedImage968" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0089_1228191636.PNG" style="width: 171.75pt;height: 27.75pt;"></img></div><div id="mc-region-969" style="position: absolute; top: 3482.25pt; left: 528pt; width: 182.25pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0090_1228191636.PNG" id="generatedImage969" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0090_1228191636.PNG" style="width: 182.25pt;height: 27.75pt;"></img></div><div id="mc-region-664" style="position: absolute; top: 3648.75pt; left: 18pt; width: 432.5pt; background-color: #000; "><a name="" /><p class="Style1" style="margin-left: 0pt; margin-right: 0pt; text-align: left;"><span style="font-size: 12pt; "><b><u><span style="color: #f00; text-decoration: underline ;">3:Sample plane (2mm) vs 284 Design </span></u></b></span>m from Object plane</p></div><div id="mc-region-662" style="position: absolute; top: 3678pt; left: 24pt; width: 321pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0092_1228191636.PNG" id="generatedImage662" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0092_1228191636.PNG" style="width: 321pt;height: 190.5pt;"></img></div><div id="mc-region-669" style="position: absolute; top: 3678pt; left: 462pt; width: 337.5pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0094_1228191646.PNG" id="generatedImage669" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0094_1228191646.PNG" style="width: 337.5pt;height: 200.25pt;"></img></div><div id="mc-region-666" style="position: absolute; top: 3881.25pt; left: 60pt; width: 205.25pt; "><a name="" /><p class="Style1">Detected signal (exclude the B.S) = 9.5 x 10<sup>-4</sup></p></div><div id="mc-region-671" style="position: absolute; top: 3881.25pt; left: 456pt; width: 132.5pt; "><a name="" /><p class="Style1">Detected Signal = 1.042x10<sup>-4</sup></p></div><div id="mc-region-761" style="position: absolute; top: 3908.25pt; left: 276pt; width: 143.75pt; "><a name="" /><p class="Style1">the AF compared to a 2mm test sample at object plane.</p></div><div id="mc-region-673" style="position: absolute; top: 3914.25pt; left: 72pt; width: 119.75pt; "><a name="" /><p class="Style1">Objective lens contributes </p></div><div id="mc-region-674" style="position: absolute; top: 3908.25pt; left: 198pt; width: 61.5pt; background-color: #ffffd2; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0095_1228191646.PNG" id="generatedImage674" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0095_1228191646.PNG" style="width: 61.5pt;height: 27.75pt;"></img></div><div id="mc-region-709" style="position: absolute; top: 3984.75pt; left: 12pt; width: 432.5pt; background-color: #000; "><a name="" /><p class="Style1" style="margin-left: 0pt; margin-right: 0pt; text-align: left;"><span style="font-size: 12pt; "><b><u><span style="color: #f00; text-decoration: underline ;">4:Estimate of autofluorescence (AF) contribution from objective</span></u></b></span>mbject plane</p></div><div id="mc-region-710" style="position: absolute; top: 4010.25pt; left: 12pt; width: 428.75pt; background-color: #eee; "><a name="" /><p class="Style1" style="margin-left: 0pt; margin-right: 0pt; text-align: left;">Taking the measured value of the worst case glass (Zeonex 330R) - the 2mm thick data in above table gives 4.24 counts measured (after background subtraction). So multiply by 9.117 gives 38.656 cts.</p></div><div id="mc-region-711" style="position: absolute; top: 4070.25pt; left: 18pt; width: 151.25pt; "><a name="" /><p class="Style1">In terms of electrons (gain = 13.4)</p></div><div id="mc-region-751" style="position: absolute; top: 4071pt; left: 192pt; width: 118.5pt; background-color: #ffe1e1; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0096_1228191646.PNG" id="generatedImage751" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0096_1228191646.PNG" style="width: 118.5pt;height: 16.5pt;"></img></div><div id="mc-region-713" style="position: absolute; top: 4100.25pt; left: 18pt; width: 304.25pt; "><a name="" /><p class="Style1">This is average value need to multiply by Neff of cluster (=11.5 pixels)</p></div><div id="mc-region-697" style="position: absolute; top: 4119pt; left: 24pt; width: 133.5pt; background-color: #ffe1e1; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0097_1228191656.PNG" id="generatedImage697" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0097_1228191656.PNG" style="width: 133.5pt;height: 22.5pt;"></img></div><div id="mc-region-699" style="position: absolute; top: 4154.25pt; left: 24pt; width: 269.75pt; "><a name="" /><p class="Style1">Already have measured cluster signal to be c.a. 11,000 el *</p></div><div id="mc-region-703" style="position: absolute; top: 4154.25pt; left: 456pt; width: 407.75pt; background-color: #0f0; "><a name="" /><p class="Style1">* Possibly with dirty filters and I have since added more filters to reduce any fresnel breakthru</p><p class="Style1">and cant guarentee it was with 10x objective!!</p></div><div id="mc-region-708" style="position: absolute; top: 4176pt; left: 24pt; width: 439.5pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0099_1228191656.PNG" id="generatedImage708" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0099_1228191656.PNG" style="width: 439.5pt;height: 128.25pt;"></img></div><div id="mc-region-714" style="position: absolute; top: 4334.25pt; left: 24pt; width: 81.5pt; "><a name="" /><p class="Style1">So percentage is:</p></div><div id="mc-region-715" style="position: absolute; top: 4336.5pt; left: 120pt; width: 84.75pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0100_1228191656.PNG" id="generatedImage715" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0100_1228191656.PNG" style="width: 84.75pt;height: 31.5pt;"></img></div><div id="mc-region-760" style="position: absolute; top: 4347pt; left: 210pt; width: 9pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0101_1228191666.PNG" id="generatedImage760" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0101_1228191666.PNG" style="width: 9pt;height: 12.75pt;"></img></div><div id="mc-region-753" style="position: absolute; top: 4418.25pt; left: 24pt; width: 155.75pt; "><a name="" /><p class="Style1">And for the best glass = 0.747 cts </p></div><div id="mc-region-754" style="position: absolute; top: 4448.25pt; left: 120pt; width: 138.75pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0102_1228191666.PNG" id="generatedImage754" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0102_1228191666.PNG" style="width: 138.75pt;height: 27.75pt;"></img></div><div id="mc-region-757" style="position: absolute; top: 4455pt; left: 258pt; width: 9pt; "><a name="" /><img border="0" src=".\2mm Glass scatter modelling 16th April 2012_images/IMG0103_1228191826.PNG" id="generatedImage757" path=".\2mm Glass scatter modelling 16th April 2012_images/IMG0103_1228191826.PNG" style="width: 9pt;height: 12.75pt;"></img></div><div></div></body></html>
