Difference between revisions of "Team:Cambridge-JIC/Make Your Own js"

Line 174: Line 174:
 
       }
 
       }
 
       if(options[3] == 0) {
 
       if(options[3] == 0) {
−
           ret += '<tr><td>1</td><td>amber LED* (RFP)</td><td>1.088</td><td><a href="http://uk.rs-online.com/web/p/visible-leds/8107834/" style="color:#0000bb">Brand: OSRAM Opto Semiconductors; Part No. LY CKBP-JYKX-36-1</a> (must be bought in multiples of 5)</td></tr><tr><td>1</td><td>dichroic mirror* (RFP)</td><td>19.40</td><td><a href="http://www.comaroptics.com/components/filters/dichroic-filters/long-pass-dichroic-filters#row-650_iy_116" style="color:#0000bb">Mfr: Comar; Part No. 650 IY 116</a></td></tr><tr><td>1</td><td>excitation filter* (RFP)</td><td>19.40</td><td><a href="http://www.comaroptics.com/components/filters/dichroic-filters/long-pass-dichroic-filters#row-534_ib_116" style="color:#0000bb">Mfr: Comar; Part No. 534 IB 116</a></td></tr><tr><td>1</td><td>emission filter* (RFP)</td><td>19.40</td><td><a href="http://www.comaroptics.com/components/filters/gelatin-and-polyester-colour-filters#row-575_wb_75" style="color:#0000bb">Mfr: Comar; Part No. 575 WB 75</a></td></tr>'
+
           ret += '<tr><td>1</td><td>amber LED* (RFP)</td><td>1.088</td><td><a href="http://uk.rs-online.com/web/p/visible-leds/8107834/" style="color:#0000bb">Brand: OSRAM Opto Semiconductors; Part No. LY CKBP-JYKX-36-1</a> (must be bought in multiples of 5)</td></tr><tr><td>1</td><td>dichroic mirror* (RFP)</td><td>19.40</td><td><a href="http://www.comaroptics.com/components/filters/dichroic-filters/long-pass-dichroic-filters#row-650_iy_116" style="color:#0000bb">Mfr: Comar; Part No. 650 IY 116</a></td></tr><tr><td>1</td><td>excitation filter* (RFP)</td><td>19.40</td><td><a href="http://www.comaroptics.com/components/filters/dichroic-filters/band-pass-dichroic-filters#row-534_ib_116" style="color:#0000bb">Mfr: Comar; Part No. 534 IB 116</a></td></tr><tr><td>1</td><td>emission filter* (RFP)</td><td>19.40</td><td><a href="http://www.comaroptics.com/components/filters/gelatin-and-polyester-colour-filters#row-575_wb_75" style="color:#0000bb">Mfr: Comar; Part No. 575 WB 75</a></td></tr>'
 
       }
 
       }
 
       if(options[4] == 0) {
 
       if(options[4] == 0) {

Revision as of 15:07, 17 September 2015

           quiz = function(elem){
               this.elem = $(elem);
               this.steps = [];

               this.step = function(question, answers) {
                   this.question = question;
                   this.answers = {};
                   this.bind = function(target, keys) {
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                       for (var i=0; i<keys.length; i++) {
                           key = keys[i];
                           this.answers[key].target = target;
                       }
                   };
                   this.elem = function(quiz, index) {
elem = $('
'); elem.append($('

').text(this.question)); for (key in this.answers) { elem.append($('
') 
                               .text(this.answers[key].answer)
                               .data("key", key)
                               .data("step", this)
                               .data("quiz", quiz)
                               .data("index", index)
                               .click(function(){
                                   key = $(this).data("key");
                                   step = $(this).data("step");
                                   quiz = $(this).data("quiz");
                                   index = $(this).data("index");
                                   ref = quiz.steps[index];
                                   ref.elem.find('.cam-quiz-selected').removeClass('cam-quiz-selected');
                                   $(this).addClass('cam-quiz-selected');

                                   for (var i=quiz.steps.length; --i>index;) {
                                       quiz.steps[i].elem.remove();
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                                   quiz.steps[index].option = key;
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                                           var nindex = quiz.steps.length;
                                           var nref = {
                                               'step': nstep,
                                               'elem': nstep.elem(quiz, nindex),
                                               'option': undefined
                                           };
                                           quiz.steps.push(nref);
                                           quiz.elem.append(nref.elem);
                                           break;
                                       case "function":
                                           options = [];
                                           for (var i=0; i<quiz.steps.length; i++) {
                                               options.push(quiz.steps[i].option);
                                           }
                                           var nref = {
                                               'step': undefined,
'elem': $('
') 
                                                   .append(nstep(options)),
                                               'option': undefined
                                           };
                                           quiz.steps.push(nref);
                                           quiz.elem.append(nref.elem);
                                           break;
                                       default:
                                           alert("Quiz error! Please contact the site maintainers....");
                                           break;
                                   }
                               }));
                       }
                       return elem;
                   };

                   for (key in answers) {
                       answer = answers[key];
                       this.answers[key] = {
                           'answer': answer,
                           'target': undefined
                       };
                   }
               };

               this.start = function(step) {
                   index = this.steps.length;
                   ref = {
                       'step': step,
                       'elem': step.elem(this, index),
                       'option': undefined
                   };
                   this.steps.push(ref);
                   this.elem.append(ref.elem);
               };
           };

           $(document).ready(function(){
               q = new quiz('#cam-quiz');

               step0 = new q.step("Tell us which options you'd like for your microscope.", {
                   1: "Okay!"
               });
               step1 = new q.step("Besides bright-field, do you need dark-field imaging?", {
                   0: "Yes",
                   1: "No"
               });
               step2 = new q.step("Do you need to image GFP fluorescence?", {
                   0: "Yes",
                   1: "No"
               });
               step3 = new q.step("Do you need to image RFP fluorescence?", {
                   0: "Yes",
                   1: "No"
               });
               step4 = new q.step("Do you need to image other fluorescent proteins, e.g. YFP?", {
                   0: "Yes",
                   1: "No"
               });
               step5 = new q.step("Do you want your microscope to be manual, motorised, or will you need to swap between both?", {
                   0: "Manual only",
                   1: "Motorised only",
                   2: "Both",
               });
               step6 = new q.step("Do you need your microscope to be fully battery-powered, e.g. for fieldwork?", {
                   0: "Yes",
                   1: "No"
               });

final = function(options) { 

     window.location.href="#CC0";
ret = '<h3>Thanks!</h3>

Here\'s what you\'ll need\:


<thead></thead><tbody>' 
     if(options[1] == 0) {
ret += '' 
     }
     if(options[2] == 0 && options[3] == 0 && options[4] == 0) {
ret += '' 
     }
     else if((options[2] == 0 && options[3] == 0) || (options[2] == 0 && options[4] == 0) || (options[3] == 0 && options[4] == 0)) {
ret += '' 
     } else if(options[2] == 0 || options[3] == 0 || options[4] == 0) {
ret += '' 
     }
     if(options[5] == 0 || options[5] == 2) {
ret += '' 
     }
     if(options[5] == 1 || options[5] == 2) {
ret += '' 
     }
     if((options[5] == 1 || options[5] == 2) && options[6] == 1) {
ret += '' 
     }
     if((options[5] == 1 || options[5] == 2) && options[6] == 0) {
ret += '' 
     }
     if(options[6] == 0 && !(options[5] == 1 || options[5] == 2)) {
ret += '' 
    }
ret += '</tbody>
3D PRINTED COMPONENTS
#PartCost/unit (GBP)STL & SCAD files
1main stage
1base
2side supports for z axis
1z axis in 3 parts (vertical + horizontal + connector)
1connecting ring bw z axes
13-legged camera holder
2slide clips
1bright-field cube
1dark-field tube in 3 parts
3epicubes
3sets of drawers (for filters and mirrors)
2epicubes
2sets of drawers (for filters and mirrors)
1epicube
1set of drawers (for filters and mirrors)
3screw gears
3manual gears
3screw holders
3screw gears for motors
3motor holders
1battery holder for RPi
2battery holders for RPi
1battery holder for RPi
' ret += '
<thead></thead><tbody>' 
     if(options[2] == 0 && options[3] == 0 && options[4] == 0) {
ret += '' 
     }
     else if((options[2] == 0 && options[3] == 0) || (options[2] == 0 && options[4] == 0) || (options[3] == 0 && options[4] == 0)) {
ret += '' 
     } else if(options[2] == 0 || options[3] == 0 || options[4] == 0) {
ret += '' 
     }
     if(options[2] == 0) {
ret += '' 
     }
     if(options[3] == 0) {
ret += '' 
     }
     if(options[4] == 0) {
ret += '' 
     }
     if(options[5] == 1 || options[5] == 2) {
ret += '' 
     }
     if((options[5] == 1 || options[5] == 2) && options[6] == 1) {
ret += '' 
     }
     if((options[5] == 1 || options[5] == 2) && options[6] == 0) {
ret += '' 
     }
     if(options[6] == 0 && !(options[5] == 1 || options[5] == 2)) {
ret += '' 
    }
     if(options[6] == 0) {
ret += '' 
     }
     if(options[6] == 1) {
ret += '' 
     }
ret += '</tbody>
OFF-THE-SHELF COMPONENTS
#PartCost/unit (GBP)Details & link to provider
1white LED (bright-field)0.554<a href="http://uk.rs-online.com/web/p/visible-leds/7133955/?searchTerm=NSPW500DS&relevancy-data=636F3D3226696E3D4931384E4B6E6F776E41734D504E266C753D656E266D6D3D6D61746368616C6C7061727469616C26706D3D5E5B5C707B4C7D5C707B4E647D2D2C2F255C2E5D2B2426706F3D313326736E3D592673743D4D414E5F504152545F4E554D4245522677633D424F5448267573743D4E535057353030445326" style="color:#0000bb">Mfr: Nichia; Part No. NSPW500DS</a> (must be bought in multiples of 5)
1ball lens12.20<a href="http://www.comaroptics.com/components/lenses/simple-convex-lenses/sapphire-and-glass-ball-lenses#row-03_vq_04" style="color:#0000bb">Mfr: Comar; Part No: 03 VQ 04</a>
225 mm long M4 screws0.107Buy at hardware store<a ref="https://www.mackay.co.uk/forgefix-machine-screw-pozi-pan-head-zp-m4-25mm-blister-10-msph425b-screws-fixings-hardware-security-toolbank-brands.html" style="color:#0000bb"> (reference price/unit for a pack of 10)</a>
140 mm long M4 screw0.107Buy at hardware store<a ref="https://www.mackay.co.uk/forgefix-machine-screw-pozi-pan-head-zp-m4-40mm-blister-6-msph440b-screws-fixings-hardware-security-toolbank-brands.html" style="color:#0000bb"> (reference price/unit for a pack of 10)</a>
3M4 nuts0.0043Buy at hardware store<a ref="https://www.mackay.co.uk/forgefix-hexagon-nut-zp-m4-bag-100-100nut4-hexagonal-nuts-bolts-fixings-hardware-security-toolbank-brands.html" style="color:#0000bb"> (reference price/unit for a pack of 100)</a>
3M4 washers0.0037Buy at hardware store<a ref="https://www.mackay.co.uk/forgefix-flat-washer-heavyduty-zp-m4-bag-100-100hdwash4-washers-bolts-nuts-fixings-hardware-security-toolbank-brands.html" style="color:#0000bb"> (reference price/unit for a pack of 100)</a>
1Raspberry Pi 2 Model B26.60<a href="http://uk.rs-online.com/web/p/processor-microcontroller-development-kits/832-6274/" style="color:#0000bb">Processor part number: BCM2836</a>
1Ralink RT5370 WiFi adapter9.10<a href="http://www.amazon.co.uk/gp/product/B00IQFGJSS?psc=1&redirect=true&ref_=oh_aui_detailpage_o02_s00" style="color:#0000bb">Amazon Standard Identification Number (ASIN)\: B00IQFGJSS</a>
1Arduino UNO with its USB B connector21.00<a href="https://shop.pimoroni.com/products/arduino-uno" style="color:#0000bb">Mfr: Arduino; Part No. A000066</a>
1breadboard2.82<a href="http://uk.farnell.com/multicomp/mcbb400/breadboard-solderless-300v-abs/dp/2395961?ost=2395961&mckv=ezr2Yisy&CMP=KNC-GUK-FUK-GEN-SHOPPING-MULTICOMP&CAGPSPN=pla&gclid=Cj0KEQjwg9-vBRCK7L7wmO2u0JcBEiQA_tzoaEPR46s_SrENpnwFOv5PS_hqUNVzk8VV5QPxB9AZBwYaAupo8P8HAQ&CAWELAID=120173390000249291&gross_price=true" style="color:#0000bb">Mfr: Multicomp; Part No. MCBB400</a>
116GB micro SD card5.43<a href="http://www.amazon.co.uk/SanDisk-Ultra-Imaging-C10-MicroSDHC/dp/B00MBTP8Q4/ref=sr_1_6?ie=UTF8&qid=1442328635&sr=8-6&keywords=micro+sd+16gb+memory+cards" style="color:#0000bb">Model number: SDSDQUIN-016G-G4; ASIN: B00MBTP8Q4</a>
2220 ohm resistors0.065<a href="http://uk.rs-online.com/web/p/through-hole-fixed-resistors/0131794/" style="color:#0000bb">Brand: TE Connectivity; Part No. CFR100J220R</a> (must be bought in multiples of 10)
1ethernet cable9.99<a href="http://www.pcworld.co.uk/gbuk/computing-accessories/computer-accessories/power-and-cables/computing-cables-and-adaptors/sandstrom-scat65m12-rj45-to-rj45-cat-6-ethernet-cable-5m-12567142-pdt.html" style="color:#0000bb">Mfr: Sandstrøm; Product code: 874926</a>
1100 m spool insulated single-core wire13.45<a href="http://uk.rs-online.com/web/p/single-core-control-cable/7244311/" style="color:#0000bb">Brand: Lapp; Part No. 4510021</a>
3RPi cameras22.18<a href="http://www.misco.co.uk/product/217272/Raspberry-Pi-NoIR-Camera-Board?fromProductList=Search+result" style="color:#0000bb">Brand: Raspberry Pi; Part No. PiNoir</a>
1RPi ribbon cable0.00Comes with RPi camera
2RPi cameras22.18<a href="http://www.misco.co.uk/product/217272/Raspberry-Pi-NoIR-Camera-Board?fromProductList=Search+result" style="color:#0000bb">Brand: Raspberry Pi; Part No. PiNoir</a>
1RPi ribbon cable0.00Comes with RPi camera
1RPi camera22.18<a href="http://www.misco.co.uk/product/217272/Raspberry-Pi-NoIR-Camera-Board?fromProductList=Search+result" style="color:#0000bb">Brand: Raspberry Pi; Part No. PiNoir</a>
1RPi ribbon cable0.00Comes with RPi camera
1blue LED (GFP)0.225<a href="http://onecall.farnell.com/kingbright/l-10934vbc-ds-d/led-3mm-blue-4000mcd-470nm/dp/2373492?ost=2373492" style="color:#0000bb">Mfr: Kingbright; Part No. L-10934VBC/DS-D</a>
1550nm dichroic mirror, 25x16mm (GFP)19.40<a href="http://www.comaroptics.com/components/filters/dichroic-filters/long-pass-dichroic-filters#row-550_iy_116" style="color:#0000bb">Mfr: Comar; Part No. 550 1Y 116</a>
1490nm excitation filter, 25x16mm (GFP)19.40<a href="http://www.comaroptics.com/components/filters/dichroic-filters/short-pass-dichroic-filters#row-495_ik_116" style="color:#0000bb">Mfr: Comar; Part No. 495 1K 116</a>
1500nm emission filter, 25x16mm (GFP)19.40<a href="http://www.comaroptics.com/components/filters/dichroic-filters/band-pass-dichroic-filters#row-515_ib_116" style="color:#0000bb">Mfr: Comar; Part No. 515 1B 116</a>
1amber LED* (RFP)1.088<a href="http://uk.rs-online.com/web/p/visible-leds/8107834/" style="color:#0000bb">Brand: OSRAM Opto Semiconductors; Part No. LY CKBP-JYKX-36-1</a> (must be bought in multiples of 5)
1dichroic mirror* (RFP)19.40<a href="http://www.comaroptics.com/components/filters/dichroic-filters/long-pass-dichroic-filters#row-650_iy_116" style="color:#0000bb">Mfr: Comar; Part No. 650 IY 116</a>
1excitation filter* (RFP)19.40<a href="http://www.comaroptics.com/components/filters/dichroic-filters/band-pass-dichroic-filters#row-534_ib_116" style="color:#0000bb">Mfr: Comar; Part No. 534 IB 116</a>
1emission filter* (RFP)19.40<a href="http://www.comaroptics.com/components/filters/gelatin-and-polyester-colour-filters#row-575_wb_75" style="color:#0000bb">Mfr: Comar; Part No. 575 WB 75</a>
5LEDs**?tailored to FP
1dichroic mirror**?tailored to FP
1excitation filter**?tailored to FP
1emission filter**?tailored to FP
3stepper motors3.95<a href="http://onecall.farnell.com/adafruit-industries/858/stepper-motor-512-step-5vdc/dp/MC02058?ost=MC02058" style="color:#0000bb">Mfr: Adafruit Industries; Part No. 858</a>
2UNL2003A Darlington driver chips0.42<a href="http://uk.rs-online.com/web/p/darlington-transistors/4368451/" style="color:#0000bb">Mfr: Texas Instruments; Part No. ULN2003AN</a>
19V battery connector0.172<a href="http://uk.rs-online.com/web/p/battery-holders-mounts/0489021/" style="color:#0000bb">Brand: RS; Stock No. 489-021</a>
29V battery connectors0.172<a href="http://uk.rs-online.com/web/p/battery-holders-mounts/0489021/" style="color:#0000bb">Brand: RS; Stock No. 489-021</a>
19V battery connector0.172<a href="http://uk.rs-online.com/web/p/battery-holders-mounts/0489021/" style="color:#0000bb">Brand: RS; Stock No. 489-021</a>
11 Low Profile MoPi power board25.00<a href="https://shop.pimoroni.com/products/mopi-mobile-pi-power?utm_medium=cpc&utm_source=googlepla&variant=909042229&gclid=Cj0KEQjwg9-vBRCK7L7wmO2u0JcBEiQA_tzoaMQfkAkb65Xgv6GXoWhTroobFXImuYP392yZocnZEJIaAoYM8P8HAQ" style="color:#0000bb">Product code: MOPI-LP</a>
12A micro USB power cable5.66<a href="http://uk.rs-online.com/web/p/plug-in-power-supply/7653311/" style="color:#0000bb">Mfr: RS; Part No. HNP10I-microUSB</a>
' ret += '

Please note that:


    ' 
         if(options[3] == 0) {
    ret += '
  • We haven\'t managed to get RFP imaging working yet so the items marked with an asterisk (*) are provided for guidance only\! You may need to find alternative LEDs, filters and dichroic mirror in order to achieve RFP fluorescence.

    • ' 
         }
     if(options[4] == 0) {
    ret += '
  • You are looking to image another fluorescent protein e.g. YFP. You will need to find adequate LEDs, filters and dichroic mirror - these items are marked with two asterisks (**). Otherwise, just follow instructions as usual.

    • ' 
         }
    ret += '
  • The filters and mirrors are larger than what is needed for a single epicube: if cut carefully into WxD rectangles, a single mirror or filter can be used for N epicubes.

  • Only 1 LED is needed per epicube, but we recommend purchasing a few so as to have spares.

  • We recommend purchasing 1 RPi camera for each imaging mode (e.g. if you want to image bright-field + GFP + RFP, buy 3 cameras). This is so that you can fix each camera to one cube and leave it there. You CAN buy a single camera for several imaging modes and swap it between cubes, but this will increase the risk of damaging the CCD.

  • We provide STL and SCAD files for each 3D printed component so that these can be viewed or edited. When it comes to printing the components, we recommend you print all components in one go, using this file [INCLUDE FILE]. Also, make sure to check out our 3D printing tips [LINK TO SO YOU THINK YOU CAN PRINT]

  • If you do not have access to a 3D printer, you can send your files to a 3D printing service and they’ll ship your printed parts.
' ret += '

Assembly instructions:


  1. Remove the lens from the Raspberry Pi camera. Using a pair of pliers (the kind with a ridged surface), grip the top circular plastic part of the lens and rotate counter-clockwise. We find it\'s easiest to grip the lens firmly and rotate the sensor, rather than the other way around.

  2. Using super glue (we recommend Loctite\; apply with a brush) glue the following parts\:
    • nuts (x3) on the bottom of the stage
    • legs (x1 large + x2 small)
    • screw caps (x3)
      • ' 
           if(options[5] == 0) {
      ret += '
    • screw holders (x3)
      • ' 
           }
     if(options[5] == 1) {
      ret += '
    • motor holders (x3)
      • ' 
           }
     if(options[5] == 2) {
      ret += '
    • motor holders (x3) or screw holders (x3) depending on whether motorised or manual mode is used
      • ' 
           }
      ret += '
    • the 2 parts of the z axis together
    • RPi lens into lens holder
    • supporting axes (x2) into cube holder
    • washer into large leg (around the hole)

  3. Fit the following parts in (you might have to file all holes until they are smooth and large enough...)\:
    • slide the main z axis into its slot (the central one) from the bottom, make sure it can move smoothly
    • slide the remaining z axis assembly in from top
    • make sure the main z axis fits into the slot in the camera holder, if it does - glue it in place
    • slide the lens (with its holder) into the camera cube
    • click the camera cube into the square hole of the camera holder, make sure it goes all the way down (front face of cube at the level of the bottom surface of the holder)
    • detach the camera sensor from the camera board, click the RPi Cam sensor into the camera cube, click the SUNNY back to the board (make sure it stays connected at all times!!!)
    • put screws into holes on the top cover, place a washer under each screwtop and screw into the nuts (make sure the superglue has dried...) - now you can move the stage and the z axis and you are ready to image!

    4. ' 
         if(options[5] == 1) {
    ret += '
  4. To add the motors: place the camshaft of the motor into the hole designated for it (in the screw cap) and click the motor in - the body should now touch the holder surface, press hard so that it glues in...repeat for all three motors

    5. ' 
         }
     if(options[5] == 2) {
    ret += '
  5. To use the microscope in motorised mode, add the motors as follows: place the camshaft of the motor into the hole designated for it (in the screw cap) and click the motor in - the body should now touch the holder surface, press hard so that it glues in...repeat for all three motors.

    6. ' 
         }
    ret +='
' return $('
').html(ret)

} 

               step0.bind(step1, [1]);

               step1.bind(step2, [0]);
               step1.bind(step2, [1]);

               step2.bind(step3, [0]);
               step2.bind(step3, [1]);

               step3.bind(step4, [0]);
               step3.bind(step4, [1]);

               step4.bind(step5, [0]);
               step4.bind(step5, [1]);

               step5.bind(step6, [0]);
               step5.bind(step6, [1]);
               step5.bind(step6, [2]);

               step6.bind(final, [0]);
               step6.bind(final, [1]);

               q.start(step0);
});