Difference between revisions of "Team:York/Hardware"

 
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       <p style="font-size: 18px;">As outlined on the <a style="color: #000;" href="//2017.igem.org/Team:York/Description">Description</a> page, we made our microscope out of an aluminium diecast box, a piece of profile extrusion and some plastic blocks. The designs are available via our Downloads page. Once all the parts are acquired, the following assembly process should be used. We have provided step by step instructions, below.</p>
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       <p style="font-size: 18px;">As outlined on the <a style="color: #0000ff;" href="//2017.igem.org/Team:York/Description">Description</a> page, we made our microscope out of an aluminium diecast box, a piece of profile extrusion and some plastic blocks. The designs are available via our Downloads page. Once all the parts are acquired, the following assembly process should be used. We have provided step by step instructions, below.</p>
 
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       <p style="text-align: center; font-size: 18px;">Connect the modules to the Raspberry Pi as in the images.</p>
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       <p style="text-align: center; font-size: 18px;">Connect the Explorer hat PRO and Camera Module V2 to the Raspberry Pi 3 as in the images. Note that we removed the lens from the camera.</p>
 
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        <p style="text-align: center; font-size: 20px;"><strong>Connect the Raspberry Pi</strong><br></p>
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        <div class="row">
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          <div class="col-md-2"></div>
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          <div class="col-md-4">
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              <ul style="list-style: none;">
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                  <div style="border-style: solid; border-color: #162844; border-radius: 25px;">
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                    <img width="100%" style="border-style: solid; border-color: #162844; border-radius: 25px;" src="//2017.igem.org/wiki/images/9/9d/IGEM-York-Camera-to-Base.jpg">
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                  </div>
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              </ul>
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            <center>
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          <div class="col-md-4">
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            <center>
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              <ul style="list-style: none;">
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                <li><br></li>
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                  <div style="border-style: solid; border-color: #162844; border-radius: 25px;">
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                    <img width="100%" style="border-style: solid; border-color: #162844; border-radius: 25px;" src="//2017.igem.org/wiki/images/d/de/IGEM-York-Connect-Power.jpg">
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      <p style="text-align: center; font-size: 18px;">Screw the Camera into the position shown using nylon (non-conductive) screws. Connect the power cable to the Pi through the back of the base. This is also where HDMI/USB connections should be made.</p>
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        <p style="text-align: center; font-size: 20px;"><strong>Build the Circuitry</strong><br></p>
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        <div class="row">
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          <div class="col-md-2">
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          <div class="col-md-3">
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            <center>
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              <ul style="list-style: none;">
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                <li><br></li>
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                <li>
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                  <div style="border-style: solid; border-color: #162844; border-radius: 25px;">
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                    <img width="100%" style="border-style: solid; border-color: #162844; border-radius: 25px;" src="//2017.igem.org/wiki/images/f/f9/IGEM-York-Circuitry.jpg">
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                  </div>
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          <div class="col-md-5">
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              <ul style="list-style: none;">
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                  <div style="background-color: #fff; border-style: solid; border-color: #162844; border-radius: 25px;">
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                    <img width="100%" style="border-style: solid; border-color: #162844; border-radius: 25px;" src="//2017.igem.org/wiki/images/3/33/IGEM-York-CircuitDiagram.png">
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                  </div>
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                </li>
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            <center>
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          </div>
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          <div class="col-md-2">
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          </div>
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        </div>
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        <p style="font-size: 18px; text-align: center;">We used a 635 nm <a style="color: #0000ff;" href="//www.thorlabs.com/thorproduct.cfm?partnumber=L635P5">laser diode</a> and corresponding <a style="color: #0000ff;" href="//www.thorlabs.com/thorproduct.cfm?partnumber=S7060R">socket</a> from Thorlabs. Soldering the socket prevents heat damage to the diode itself. Our variable resistor (potentiometer) had a maximum value of 200 Ω.</p>
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        <p style="text-align: center; font-size: 20px;"><strong>Connect the Laser</strong><br></p>
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        <div class="row">
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          <div class="col-md-2">
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          </div>
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          <div class="col-md-4">
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            <center>
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              <ul style="list-style: none;">
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                <li><br></li>
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                <li>
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                  <div style="border-style: solid; border-color: #162844; border-radius: 25px;">
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                    <img width="100%" style="border-style: solid; border-color: #162844; border-radius: 25px;" src="//2017.igem.org/wiki/images/3/3a/IGEM-York-Cable-Feeding.jpg">
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                  </div>
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                </li>
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              </ul>
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            <center>
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          </div>
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          <div class="col-md-4">
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            <center>
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              <ul style="list-style: none;">
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                <li>
 +
                  <div style="border-style: solid; border-color: #162844; border-radius: 25px;">
 +
                    <img width="100%" style="border-style: solid; border-color: #162844; border-radius: 25px;" src="//2017.igem.org/wiki/images/e/eb/IGEM-York-Connect-Laser.jpg">
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                  </div>
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            <center>
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          </div>
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          <div class="col-md-2">
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          </div>
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        <p style="font-size: 18px; text-align: center;">Feed the wires from the circuitry through the profile extrusion, as shown, then connect the positive to the Explorer Hat's 5V output and negative to ground. At this point, the Pi can be sealed inside the diecast box, by adding the base plate.</p>
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          <div class="row">
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            <div class="col-md-3"></div>
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            <div class="col-md-6" style="border-style: solid; border-color: #162844; border-radius: 25px; padding: 0;">
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              <img style="border-style: solid; border-color: #162844; border-radius: 25px;" src="//2017.igem.org/wiki/images/e/ee/IGEM-York-Close-Base.jpg" width="100%">
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            </div>
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            <div class="col-md-3"></div>           
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          </div>
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        </center>
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      <center>
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        <p style="text-align: center; font-size: 20px;"><strong>Add the Platforms</strong><br></p>
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          <div class="col-md-3">
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            <center>
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                <li><br></li>
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                <li>
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                  <div style="border-style: solid; border-color: #162844; border-radius: 25px;">
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                    <img width="100%" style="border-style: solid; border-color: #162844; border-radius: 25px;" src="//2017.igem.org/wiki/images/f/f1/IGEM-York-Laser-Platform-Screws.jpg">
 +
                  </div>
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                </li>
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              </ul>
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            <center>
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          </div>
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          <div class="col-md-3">
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            <center>
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                  <div style="border-style: solid; border-color: #162844; border-radius: 25px;">
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                    <img width="100%" style="border-style: solid; border-color: #162844; border-radius: 25px;" src="//2017.igem.org/wiki/images/5/5f/IGEM-York-Laser-Platform-Screws-Attached.jpg">
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                  </div>
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                </li>
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          <div class="col-md-3">
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                  <div style="border-style: solid; border-color: #162844; border-radius: 25px;">
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                    <img width="100%" style="border-style: solid; border-color: #162844; border-radius: 25px;" src="//2017.igem.org/wiki/images/0/06/IGEM-York-Laser-Platform-Screws-Attached-to-Neck.jpg">
 +
                  </div>
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                </li>
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              </ul>
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            <center>
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          </div>
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          <div class="col-md-3">
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            <center>
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              <ul style="list-style: none;">
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                <li>
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                  <div style="border-style: solid; border-color: #162844; border-radius: 25px;">
 +
                    <img width="100%" style="border-style: solid; border-color: #162844; border-radius: 25px;" src="//2017.igem.org/wiki/images/c/c1/IGEM-York-Laser-Platform-in-Place.jpg">
 +
                  </div>
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                </li>
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            <center>
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          </div>
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        </div>
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        <p style="font-size: 18px; text-align: center;">Attach the screws and fixings to the platform. (We used Item <a style="color: #0000ff;" href="//product.item24.co.uk/en/home/products/product-catalogue/productdetails/products/construction-profiles-5/profile-5-80x20-natural-37086.html">profile extrusion</a>, so we used their <a style="color: #0000ff;" href="//product.item24.co.uk/en/home/products/product-catalogue/productdetails/products/t-slot-nuts-st-1/t-slot-nut-5-st-m5-bright-zinc-plated-37001.html">T-slot nut</a> fixings.) Then, slide each of the platforms into place.</p>
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            <center>
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              <ul style="list-style: none;">
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                <li>
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                  <div style="border-style: solid; border-color: #162844; border-radius: 25px;">
 +
                    <img width="100%" style="border-style: solid; border-color: #162844; border-radius: 25px;" src="//2017.igem.org/wiki/images/e/e5/IGEM-York-CircuitryCover-Real.jpg">
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                  </div>
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          <div class="col-md-4">
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                <li>
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                  <div style="border-style: solid; border-color: #162844; border-radius: 25px;">
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                    <img width="100%" style="border-style: solid; border-color: #162844; border-radius: 25px;" src="//2017.igem.org/wiki/images/d/dc/IGEM-York-CircuitryCover-Top.jpg">
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                  </div>
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                </li>
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            <center>
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          </div>
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          <div class="col-md-2">
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          </div>
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        <p style="font-size: 18px; text-align: center;">Finally, add the top cover to conceal the circuitry.</p>
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      </center>
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<br><hr><br>
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      <center>
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        <p style="text-align: center; font-size: 40px;"><strong>Congratulations!</strong><br></p>
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        <div class="row">
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          <div style="width: 30%;">
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          <div style="width: 40%;">
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            <center>
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              <ul style="list-style: none;">
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                <li>
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                  <div style="border-style: solid; border-color: #162844; border-radius: 25px;">
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                    <img width="100%" style="border-style: solid; border-color: #162844; border-radius: 25px;" src="//2017.igem.org/wiki/images/1/18/IGEM-York-Full-Assembly.jpg">
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                  </div>
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                </li>
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              </ul>
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            <center>
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          </div>
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          <div style="width: 30%;">
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          </div>
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        </div>
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        <p style="font-size: 24px; text-align: center;">Well done! You now have an assembled Digital Inline Holographic Microscope!</p>
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     <div class="text-center">
 
     <div class="text-center">
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       <h1>GREEN TITLE</h1>
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       <h1>Milli-fluidic Analysis Chamber</h1>
 
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       <p style="font-size: 18px;">MAIN BODY</p>
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       <p style="font-size: 18px;">We have written a protocol detailing the assembly of both iterations of our milli-fluidic chamber. One uses PDMS and the other uses poly-acryl to form the chamber itself while both make use of glass slides.</p>
 +
      <p style="font-size: 18px;">See the images below for the end results once the protocol has been followed.</p>
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      <center>
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                    <img width="100%" style="border-style: solid; border-color: rgb(11,33,10); border-radius: 25px;" src="//2017.igem.org/wiki/images/c/c0/IGEM-York-PDMS-and-PDMSChamber.jpg">
 +
                  </div>
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                </li>
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                <li><em>Moulded PDMS and PDMS constructed chamber.</em></li>
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              </ul>
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            <center>
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          </div>
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          <div class="col-md-4">
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                  <div style="border-style: solid; border-color: rgb(11,33,10); border-radius: 25px;">
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                    <img width="100%" style="border-style: solid; border-color: rgb(11,33,10); border-radius: 25px;" src="//2017.igem.org/wiki/images/1/18/IGEM-York-Polyacryl-Piece-Real.jpg">
 +
                  </div>
 +
                </li>
 +
                <li><em>Poly-acryl piece.</em></li>
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              </ul>
 +
            <center>
 +
          </div>
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          <div class="col-md-4">
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            <center>
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                  <div style="border-style: solid; border-color: rgb(11,33,10); border-radius: 25px;">
 +
                    <img width="100%" style="border-style: solid; border-color: rgb(11,33,10); border-radius: 25px;" src="//2017.igem.org/wiki/images/3/3d/IGEM-York-Polyacryl-Chamber-Real.jpg">
 +
                  </div>
 +
                </li>
 +
                <li><em>Poly-acryl constructed chamber.</em></li>
 +
              </ul>
 +
            <center>
 +
          </div>
 +
        </div>
 +
      </center>
 +
      <p style="font-size: 18px;">Please keep in mind when using this chamber design (or similar) that, due to it's low volume capacity, a slow pumping rate is required to prevent motion blur during observations. We used a 3V peristaltic pump with a flow rate on order millilitres, though this was still considerably faster than our camera was able to capture. Fortunately, with small peristaltic pumps, the flow is not constant; there are periods wherein the fluid stops moving completely. This allows for non-blurred images to be captured.</p>
 
     </div>
 
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    <br style="line-height: 10px;">
 
   </div>
 
   </div>
 
</section>
 
</section>

Latest revision as of 16:29, 31 October 2017

YORK


Hardware

Upright DIHM & Analysis Chamber


Upright DIHM

As outlined on the Description page, we made our microscope out of an aluminium diecast box, a piece of profile extrusion and some plastic blocks. The designs are available via our Downloads page. Once all the parts are acquired, the following assembly process should be used. We have provided step by step instructions, below.


Assembly

Connect the Base and Profile Extrusion


Tap the holes in the profile extrusion so that it can be screwed onto the base as shown.



Prepare the Raspberry Pi




Connect the Explorer hat PRO and Camera Module V2 to the Raspberry Pi 3 as in the images. Note that we removed the lens from the camera.



Connect the Raspberry Pi


Screw the Camera into the position shown using nylon (non-conductive) screws. Connect the power cable to the Pi through the back of the base. This is also where HDMI/USB connections should be made.



Build the Circuitry


We used a 635 nm laser diode and corresponding socket from Thorlabs. Soldering the socket prevents heat damage to the diode itself. Our variable resistor (potentiometer) had a maximum value of 200 Ω.



Connect the Laser


Feed the wires from the circuitry through the profile extrusion, as shown, then connect the positive to the Explorer Hat's 5V output and negative to ground. At this point, the Pi can be sealed inside the diecast box, by adding the base plate.



Add the Platforms



Attach the screws and fixings to the platform. (We used Item profile extrusion, so we used their T-slot nut fixings.) Then, slide each of the platforms into place.


Finally, add the top cover to conceal the circuitry.



Congratulations!

Well done! You now have an assembled Digital Inline Holographic Microscope!


Milli-fluidic Analysis Chamber

We have written a protocol detailing the assembly of both iterations of our milli-fluidic chamber. One uses PDMS and the other uses poly-acryl to form the chamber itself while both make use of glass slides.

See the images below for the end results once the protocol has been followed.

  • Moulded PDMS and PDMS constructed chamber.
  • Poly-acryl piece.
  • Poly-acryl constructed chamber.

Please keep in mind when using this chamber design (or similar) that, due to it's low volume capacity, a slow pumping rate is required to prevent motion blur during observations. We used a 3V peristaltic pump with a flow rate on order millilitres, though this was still considerably faster than our camera was able to capture. Fortunately, with small peristaltic pumps, the flow is not constant; there are periods wherein the fluid stops moving completely. This allows for non-blurred images to be captured.


  • ABOUT US
  • We are an overgraduate team representing the University of York.
  • Our Quicker Way to Analyse Co-Cultures (QWACC) is our entry into the Hardware track for iGEM 2017.
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