Team:Cornell/testing/notebook/drylab/post

From 2012.igem.org

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<h6 style="margin:79px 0px 0px">Dry Lab</h6>
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<h6>Dry Lab</h6>
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<a href="https://2012.igem.org/Team:Cornell/testing/notebook/drylab/pre">Pre</a>
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<a href="https://2012.igem.org/Team:Cornell/testing/notebook/drylab/1">Week 1</a>
<a href="https://2012.igem.org/Team:Cornell/testing/notebook/drylab/1">Week 1</a>
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<h3>Sunday</h3>
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<h3>Friday, August 31th, 2012</h3>
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It has been said that <span class="has-tip" data-width="250" title="Description of what astronomy is.">astronomy</span> is a humbling and character-building experience. There is perhaps no better demonstration of the folly of human conceits than this distant image of our tiny world. To me, it underscores our responsibility to deal more kindly with one another, and to preserve and cherish the pale blue dot, the only home we've ever known. <a href="#" class="technical-desc" for="#technical-desc1" style="display:block;margin-top:20px;">Technical Notes</a>
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Focus: (No more focus)<p></p>
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Cranking up productivity: math modeling of pollutant transport, progress on ADK serial output, and concept for food canisters.<a href="#" class="technical-desc" for="#technical-desc1" style="display:block;margin-top:20px;">Details</a>
<div class="hide-me panel" style="background:white;margin-top: 20px;" id="technical-desc1">
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<h6>Entry:</h6>
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Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
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We had a dry lab meeting today. Everyone provided a brief update on their progress on assignments. Now that everyone is now geared toward specific assignments, the change will be reflected in the format of this entry as well as future logs.<p></p>
 +
So far, Maneesh has been working on math modeling. He is developing a simple, economic model of pollutant transport, using a program called Fluent. In order to run simulations, Maneesh looked up various river topography maps. By understanding how contaminants disperse and run downstream from its source, we can determine the optimal placement of our system in any environment. <p></p>
 +
Lydia has been working with our new member, Paras, on the serial output from the microcontroller to a computer. She has also connected the solar panel wires to a watertight electrical socket that Dan ordered online.<p></p>
 +
Meanwhile, Manny and I have been working on the design of the food canister and finalized the concept today. We originally went for a food tank that would be built around the food tank as an anchor. However, the complexity of the design would require welding and a lengthy manufacturing process. Thus, we decided to not use the food tank as a support structure, and with input from Dan, we looked online for a hexacomb plate to serve as an anchor for everything that will sit on the bottom of the case. And by “everything” I mean the battery and food tank. For  increased  freedom, we went for a six-pack concept, with each canister holding approximately a month’s supply of sustenance.<p></p>
 +
And Dan, like always, has been very busy moving the team along. Since the micropumps are too weak to pull the water through the system, Dan ordered British TCS pumps that are much stronger and still considerably compact. During the week, he designed and machined the inlet and outlet fittings for the device. These consist short hollow rods connected to thin metal plates, which were screwed into the case. The screws have washers and the plates are cushioned by rubber rings to block leaks. Water will only be able to get in through tubes hooked up to the rods. Lastly, he has started work on the junction for the solar panel wires, now known as the receptacle. <p></p>
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#pollutant transport #math modeling #microcontroller #food tank #serial output #blog
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<h3>Monday</h3>
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<h3>Thursday, September 6th, 2012</h3>
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It has been said that astronomy is a humbling and character-building experience. There is perhaps no better demonstration of the folly of human conceits than this distant image of our tiny world. To me, it underscores our responsibility to deal more kindly with one another, and to preserve and cherish the pale blue dot, the only home we've ever known.
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Work continues as usual. However, there is word of a new team website.
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<a href="#" class="technical-desc" for="#technical-desc7" style="display:block;margin-top:20px;">Technical Notes</a>
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<a href="#" class="technical-desc" for="#technical-desc7" style="display:block;margin-top:20px;">Details</a>
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<h6>Entry:</h6>
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Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
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Earlier this week, I met Manny and Dan at the machine shop after lunch. The 4 inch diameter aluminum rods were too thick to be cut on the bandsaw. Additionally, they couldn’t fit into the lathes, so we needed to either CNC or get the machinists over at Clark Hall to cut it for us via waterjet. With nothing to machine, Manny went ahead and cut the clear tubing to be used for the canister body.<p></p>
 +
Lydia and Paras made some progress in fixing the communication issue between the Arduino Mega ADK and computer. Meanwhile, Kelvin fixed random bugs in the client, partially dabbling in aesthetics, such as adding a border and shifting the time and date stamps in the output table. <p></p>
 +
Although we haven’t heard from Eric in a while, we now know that that there is a prototype with the general format and a structure for the notebook that we discussed during mid-June. These blog entries will soon be able to move into their online house. <p></p>
 +
 
 +
#notebook #food tank
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<h3>Tuesday</h3>
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<h3>Thursday, September 13th, 2012</h3>
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It has been said that astronomy is a humbling and character-building experience. There is perhaps no better demonstration of the folly of human conceits than this distant image of our tiny world. To me, it underscores our responsibility to deal more kindly with one another, and to preserve and cherish the pale blue dot, the only home we've ever known.
+
We manned up and machined canister caps, but efforts were outshone by Rafael’s impressive animations.
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<a href="#" class="technical-desc" for="#technical-desc2" style="display:block;margin-top:20px;">Technical Notes</a>
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It has been said that astronomy is a humbling and character-building experience. There is perhaps no better demonstration of the folly of human conceits than this distant image of our tiny world. To me, it underscores our responsibility to deal more kindly with one another, and to preserve and cherish the pale blue dot, the only home we've ever known.
+
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Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
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Dan worked on the receptacle for the case, and looked up strainers as an alternative to sediment filters. Dan also asked about waterjet cutting service at Clark Hall. We found someone who would cut it for us, but we ultimately decided it was easier and cheaper to make the caps out of polycarbonate instead of aluminum. This way, we could still cut the caps and face the surfaces using the mill instead. Hence, Dan and I headed over to the machine shop today after class to start working on the caps.<p></p>
 +
Rafael has been working on the animation of the electron transfer across the bacterial cell membrane. He made computer models of CymA, MtrA, MtrB and MtrC protein structures, and played around with Autodesk Maya. In Maya, he created a virtual periplasmic environment for the background, and was able to employ point-on-poly constraints to get the embedded CymA protein to ripple with the surrounding membrane. Most recently, he animated the MtrA - CymA interaction and spent much time adjusting camerawork and lighting.<p></p>
 +
 
 +
#receptacle #food tank #animation
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<h3>Thursday</h3>
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<h3>Thursday, September 20th, 2012</h3>
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It has been said that astronomy is a humbling and character-building experience. There is perhaps no better demonstration of the folly of human conceits than this distant image of our tiny world. To me, it underscores our responsibility to deal more kindly with one another, and to preserve and cherish the pale blue dot, the only home we've ever known.
+
Plumbers clear the pipeworks, while machinists  and technicians grind on.  
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<a href="#" class="technical-desc" for="#technical-desc4" style="display:block;margin-top:20px;">Technical Notes</a>
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<a href="#" class="technical-desc" for="#technical-desc4" style="display:block;margin-top:20px;">Details</a>
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<h6>Entry:</h6>
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Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
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With the chassis assembly completed, Dan turned his attention to pipework. After making a draft of the pipe layout, he ordered pipes, tube fittings, valves pressure gauges and rotameters (for reading flow rate). When the parts came in, Dan and Manny assembled the parts and ziptied sections to a metal mesh, which will be fixed onto the roof of the chassis.<p></p>
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At the machine shop this week, Dan, Manny and I found a lathe head large enough to find the 4 inch diameter food tank caps. Manny drilled input/output holes, while I threaded on the mill. Dan discovered a facing tool on the mill that gives the best finish we have ever seen.<p></p>
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On the more technical side of life, Maneesh wrote a MATLAB function that calculates the optimal distance the biosensor should be from the contamination source. Kelvin received and set up the Android phone to be used in our biosensor; he also asked CIT (Cornell’s information technologies department) about obtaining a static IP but is still waiting for a response.<p></p>
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#food tank #math modeling #Android #phone
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It has been said that astronomy is a humbling and character-building experience. There is perhaps no better demonstration of the folly of human conceits than this distant image of our tiny world. To me, it underscores our responsibility to deal more kindly with one another, and to preserve and cherish the pale blue dot, the only home we've ever known.
+
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<a href="#" class="technical-desc" for="#technical-desc5" style="display:block;margin-top:20px;">Technical Notes</a>
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Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
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It has been said that astronomy is a humbling and character-building experience. There is perhaps no better demonstration of the folly of human conceits than this distant image of our tiny world. To me, it underscores our responsibility to deal more kindly with one another, and to preserve and cherish the pale blue dot, the only home we've ever known.
+
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<a href="#" class="technical-desc" for="#technical-desc6" style="display:block;margin-top:20px;">Technical Notes</a>
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Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
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<a href="https://2012.igem.org/Team:Cornell/testing/notebook/drylab/12#pillTab2"><< Previous Week</a>
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Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
+
We had a dry lab meeting today. Everyone provided a brief update on their progress on assignments. Now that everyone is now geared toward specific assignments, the change will be reflected in the format of this entry as well as future logs.<p></p>
 +
So far, Maneesh has been working on math modeling. He is developing a simple, economic model of pollutant transport, using a program called Fluent. In order to run simulations, Maneesh looked up various river topography maps. By understanding how contaminants disperse and run downstream from its source, we can determine the optimal placement of our system in any environment. <p></p>
 +
Lydia has been working with our new member, Paras, on the serial output from the microcontroller to a computer. She has also connected the solar panel wires to a watertight electrical socket that Dan ordered online.<p></p>
 +
Meanwhile, Manny and I have been working on the design of the food canister and finalized the concept today. We originally went for a food tank that would be built around the food tank as an anchor. However, the complexity of the design would require welding and a lengthy manufacturing process. Thus, we decided to not use the food tank as a support structure, and with input from Dan, we looked online for a hexacomb plate to serve as an anchor for everything that will sit on the bottom of the case. And by “everything” I mean the battery and food tank. For  increased  freedom, we went for a six-pack concept, with each canister holding approximately a month’s supply of sustenance.<p></p>
 +
And Dan, like always, has been very busy moving the team along. Since the micropumps are too weak to pull the water through the system, Dan ordered British TCS pumps that are much stronger and still considerably compact. During the week, he designed and machined the inlet and outlet fittings for the device. These consist short hollow rods connected to thin metal plates, which were screwed into the case. The screws have washers and the plates are cushioned by rubber rings to block leaks. Water will only be able to get in through tubes hooked up to the rods. Lastly, he has started work on the junction for the solar panel wires, now known as the receptacle. <p></p>
 +
 
 +
#pollutant transport #math modeling #microcontroller #food tank #serial output #blog
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<h3>Monday</h3>
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<h3>Thursday, September 6th, 2012</h3>
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Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
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Earlier this week, I met Manny and Dan at the machine shop after lunch. The 4 inch diameter aluminum rods were too thick to be cut on the bandsaw. Additionally, they couldn’t fit into the lathes, so we needed to either CNC or get the machinists over at Clark Hall to cut it for us via waterjet. With nothing to machine, Manny went ahead and cut the clear tubing to be used for the canister body.<p></p>
 +
Lydia and Paras made some progress in fixing the communication issue between the Arduino Mega ADK and computer. Meanwhile, Kelvin fixed random bugs in the client, partially dabbling in aesthetics, such as adding a border and shifting the time and date stamps in the output table. <p></p>
 +
Although we haven’t heard from Eric in a while, we now know that that there is a prototype with the general format and a structure for the notebook that we discussed during mid-June. These blog entries will soon be able to move into their online house. <p></p>
 +
 
 +
#notebook #food tank
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<img src="https://static.igem.org/mediawiki/2012/e/e1/Smile_square.jpg">
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<h3>Tuesday</h3>
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<h3>Thursday, September 13th, 2012</h3>
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Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
+
Dan worked on the receptacle for the case, and looked up strainers as an alternative to sediment filters. Dan also asked about waterjet cutting service at Clark Hall. We found someone who would cut it for us, but we ultimately decided it was easier and cheaper to make the caps out of polycarbonate instead of aluminum. This way, we could still cut the caps and face the surfaces using the mill instead. Hence, Dan and I headed over to the machine shop today after class to start working on the caps.<p></p>
 +
Rafael has been working on the animation of the electron transfer across the bacterial cell membrane. He made computer models of CymA, MtrA, MtrB and MtrC protein structures, and played around with Autodesk Maya. In Maya, he created a virtual periplasmic environment for the background, and was able to employ point-on-poly constraints to get the embedded CymA protein to ripple with the surrounding membrane. Most recently, he animated the MtrA - CymA interaction and spent much time adjusting camerawork and lighting.<p></p>
 +
 
 +
#receptacle #food tank #animation
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<img src="https://static.igem.org/mediawiki/2012/e/e1/Smile_square.jpg">
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<h3>Wednesday</h3>
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Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
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<div class="nine columns">
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<h3>Saturday</h3>
+
<h3>Thursday, September 20th, 2012</h3>
-
Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
+
With the chassis assembly completed, Dan turned his attention to pipework. After making a draft of the pipe layout, he ordered pipes, tube fittings, valves pressure gauges and rotameters (for reading flow rate). When the parts came in, Dan and Manny assembled the parts and ziptied sections to a metal mesh, which will be fixed onto the roof of the chassis.<p></p>
 +
At the machine shop this week, Dan, Manny and I found a lathe head large enough to find the 4 inch diameter food tank caps. Manny drilled input/output holes, while I threaded on the mill. Dan discovered a facing tool on the mill that gives the best finish we have ever seen.<p></p>
 +
On the more technical side of life, Maneesh wrote a MATLAB function that calculates the optimal distance the biosensor should be from the contamination source. Kelvin received and set up the Android phone to be used in our biosensor; he also asked CIT (Cornell’s information technologies department) about obtaining a static IP but is still waiting for a response.<p></p>
 +
 
 +
#food tank #math modeling #Android #phone
</div>
</div>
<div class="three columns">
<div class="three columns">
-
<img src="http://placehold.it/250x250/321852">
+
<img src="https://static.igem.org/mediawiki/2012/e/e1/Smile_square.jpg">
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<a href="https://2012.igem.org/Team:Cornell/testing/notebook/drylab/2#pillTab2"><< Previous Week</a>
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<a href="https://2012.igem.org/Team:Cornell/testing/notebook/drylab/2#pillTab3"><< Previous Week</a>
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<a href="https://2012.igem.org/Team:Cornell/testing/notebook/drylab/12#pillTab3"><< Previous Week</a>
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<div class="row">
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<div class="nine columns">
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<h3>Sunday</h3>
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It has been said that astronomy is a humbling and character-building experience. There is perhaps no better demonstration of the folly of human conceits than this distant image of our tiny world. To me, it underscores our responsibility to deal more kindly with one another, and to preserve and cherish the pale blue dot, the only home we've ever known.
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<div class="panel" style="background:white;margin-top: 20px;">
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<h6>Technical Stuff:</h6>
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Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
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It has been said that astronomy is a humbling and character-building experience. There is perhaps no better demonstration of the folly of human conceits than this distant image of our tiny world. To me, it underscores our responsibility to deal more kindly with one another, and to preserve and cherish the pale blue dot, the only home we've ever known.
+
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<div class="panel" style="background:white;margin-top: 20px;">
+
-
<h6>Technical Stuff:</h6>
+
-
Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
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It has been said that astronomy is a humbling and character-building experience. There is perhaps no better demonstration of the folly of human conceits than this distant image of our tiny world. To me, it underscores our responsibility to deal more kindly with one another, and to preserve and cherish the pale blue dot, the only home we've ever known.
+
-
<div class="panel" style="background:white;margin-top: 20px;">
+
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<h6>Technical Stuff:</h6>
+
-
Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
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<div class="nine columns">
-
<h3>Wednesday</h3>
+
<h3>Friday, August 31th, 2012</h3>
-
It has been said that astronomy is a humbling and character-building experience. There is perhaps no better demonstration of the folly of human conceits than this distant image of our tiny world. To me, it underscores our responsibility to deal more kindly with one another, and to preserve and cherish the pale blue dot, the only home we've ever known.
+
Focus: (No more focus)<p></p>
 +
 
 +
Cranking up productivity: math modeling of pollutant transport, progress on ADK serial output, and concept for food canisters.
<div class="panel" style="background:white;margin-top: 20px;">
<div class="panel" style="background:white;margin-top: 20px;">
-
<h6>Technical Stuff:</h6>
+
<h6>Entry:</h6>
-
Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
+
We had a dry lab meeting today. Everyone provided a brief update on their progress on assignments. Now that everyone is now geared toward specific assignments, the change will be reflected in the format of this entry as well as future logs.<p></p>
 +
So far, Maneesh has been working on math modeling. He is developing a simple, economic model of pollutant transport, using a program called Fluent. In order to run simulations, Maneesh looked up various river topography maps. By understanding how contaminants disperse and run downstream from its source, we can determine the optimal placement of our system in any environment. <p></p>
 +
Lydia has been working with our new member, Paras, on the serial output from the microcontroller to a computer. She has also connected the solar panel wires to a watertight electrical socket that Dan ordered online.<p></p>
 +
Meanwhile, Manny and I have been working on the design of the food canister and finalized the concept today. We originally went for a food tank that would be built around the food tank as an anchor. However, the complexity of the design would require welding and a lengthy manufacturing process. Thus, we decided to not use the food tank as a support structure, and with input from Dan, we looked online for a hexacomb plate to serve as an anchor for everything that will sit on the bottom of the case. And by “everything” I mean the battery and food tank. For  increased  freedom, we went for a six-pack concept, with each canister holding approximately a month’s supply of sustenance.<p></p>
 +
And Dan, like always, has been very busy moving the team along. Since the micropumps are too weak to pull the water through the system, Dan ordered British TCS pumps that are much stronger and still considerably compact. During the week, he designed and machined the inlet and outlet fittings for the device. These consist short hollow rods connected to thin metal plates, which were screwed into the case. The screws have washers and the plates are cushioned by rubber rings to block leaks. Water will only be able to get in through tubes hooked up to the rods. Lastly, he has started work on the junction for the solar panel wires, now known as the receptacle. <p></p>
 +
 
 +
#pollutant transport #math modeling #microcontroller #food tank #serial output #blog
</div>
</div>
</div>
</div>
<div class="three columns">
<div class="three columns">
-
<img src="http://placehold.it/250x250/321852">
+
<img src="https://static.igem.org/mediawiki/2012/e/e1/Smile_square.jpg">
</div>
</div>
</div>
</div>
<div class="row">
<div class="row">
<div class="nine columns">
<div class="nine columns">
-
<h3>Thursday</h3>
+
<h3>Thursday, September 6th, 2012</h3>
-
It has been said that astronomy is a humbling and character-building experience. There is perhaps no better demonstration of the folly of human conceits than this distant image of our tiny world. To me, it underscores our responsibility to deal more kindly with one another, and to preserve and cherish the pale blue dot, the only home we've ever known.
+
Work continues as usual. However, there is word of a new team website.
<div class="panel" style="background:white;margin-top: 20px;">
<div class="panel" style="background:white;margin-top: 20px;">
-
<h6>Technical Stuff:</h6>
+
<h6>Entry:</h6>
-
Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
+
 +
 
 +
Earlier this week, I met Manny and Dan at the machine shop after lunch. The 4 inch diameter aluminum rods were too thick to be cut on the bandsaw. Additionally, they couldn’t fit into the lathes, so we needed to either CNC or get the machinists over at Clark Hall to cut it for us via waterjet. With nothing to machine, Manny went ahead and cut the clear tubing to be used for the canister body.<p></p>
 +
Lydia and Paras made some progress in fixing the communication issue between the Arduino Mega ADK and computer. Meanwhile, Kelvin fixed random bugs in the client, partially dabbling in aesthetics, such as adding a border and shifting the time and date stamps in the output table. <p></p>
 +
Although we haven’t heard from Eric in a while, we now know that that there is a prototype with the general format and a structure for the notebook that we discussed during mid-June. These blog entries will soon be able to move into their online house. <p></p>
 +
 
 +
#notebook #food tank
</div>
</div>
</div>
</div>
<div class="three columns">
<div class="three columns">
-
<img src="http://placehold.it/250x250/321852">
+
<img src="https://static.igem.org/mediawiki/2012/e/e1/Smile_square.jpg">
</div>
</div>
</div>
</div>
 +
<div class="row">
<div class="row">
<div class="nine columns">
<div class="nine columns">
-
<h3>Friday</h3>
+
<h3>Thursday, September 13th, 2012</h3>
-
It has been said that astronomy is a humbling and character-building experience. There is perhaps no better demonstration of the folly of human conceits than this distant image of our tiny world. To me, it underscores our responsibility to deal more kindly with one another, and to preserve and cherish the pale blue dot, the only home we've ever known.
+
We manned up and machined canister caps, but efforts were outshone by Rafael’s impressive animations.
<div class="panel" style="background:white;margin-top: 20px;">
<div class="panel" style="background:white;margin-top: 20px;">
-
<h6>Technical Stuff:</h6>
+
<h6>Entry:</h6>
-
Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
+
Dan worked on the receptacle for the case, and looked up strainers as an alternative to sediment filters. Dan also asked about waterjet cutting service at Clark Hall. We found someone who would cut it for us, but we ultimately decided it was easier and cheaper to make the caps out of polycarbonate instead of aluminum. This way, we could still cut the caps and face the surfaces using the mill instead. Hence, Dan and I headed over to the machine shop today after class to start working on the caps.<p></p>
 +
Rafael has been working on the animation of the electron transfer across the bacterial cell membrane. He made computer models of CymA, MtrA, MtrB and MtrC protein structures, and played around with Autodesk Maya. In Maya, he created a virtual periplasmic environment for the background, and was able to employ point-on-poly constraints to get the embedded CymA protein to ripple with the surrounding membrane. Most recently, he animated the MtrA - CymA interaction and spent much time adjusting camerawork and lighting.<p></p>
 +
 
 +
#receptacle #food tank #animation
</div>
</div>
</div>
</div>
<div class="three columns">
<div class="three columns">
-
<img src="http://placehold.it/250x250/321852">
+
<img src="https://static.igem.org/mediawiki/2012/e/e1/Smile_square.jpg">
</div>
</div>
</div>
</div>
<div class="row last-ele">
<div class="row last-ele">
<div class="nine columns">
<div class="nine columns">
-
<h3>Saturday</h3>
+
<h3>Thursday, September 20th, 2012</h3>
-
It has been said that astronomy is a humbling and character-building experience. There is perhaps no better demonstration of the folly of human conceits than this distant image of our tiny world. To me, it underscores our responsibility to deal more kindly with one another, and to preserve and cherish the pale blue dot, the only home we've ever known.
+
Plumbers clear the pipeworks, while machinists  and technicians grind on.  
<div class="panel" style="background:white;margin-top: 20px;">
<div class="panel" style="background:white;margin-top: 20px;">
-
<h6>Technical Stuff:</h6>
+
<h6>Entry:</h6>
-
Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
+
With the chassis assembly completed, Dan turned his attention to pipework. After making a draft of the pipe layout, he ordered pipes, tube fittings, valves pressure gauges and rotameters (for reading flow rate). When the parts came in, Dan and Manny assembled the parts and ziptied sections to a metal mesh, which will be fixed onto the roof of the chassis.<p></p>
 +
At the machine shop this week, Dan, Manny and I found a lathe head large enough to find the 4 inch diameter food tank caps. Manny drilled input/output holes, while I threaded on the mill. Dan discovered a facing tool on the mill that gives the best finish we have ever seen.<p></p>
 +
On the more technical side of life, Maneesh wrote a MATLAB function that calculates the optimal distance the biosensor should be from the contamination source. Kelvin received and set up the Android phone to be used in our biosensor; he also asked CIT (Cornell’s information technologies department) about obtaining a static IP but is still waiting for a response.<p></p>
 +
 
 +
#food tank #math modeling #Android #phone
</div>
</div>
</div>
</div>
<div class="three columns">
<div class="three columns">
-
<img src="http://placehold.it/250x250/321852">
+
<img src="https://static.igem.org/mediawiki/2012/e/e1/Smile_square.jpg">
</div>
</div>
</div>
</div>
 +
 +
<div class="row last-ele">
<div class="row last-ele">
<div class="three columns">
<div class="three columns">
-
<a href="https://2012.igem.org/Team:Cornell/testing/notebook/drylab/2#pillTab3"><< Previous Week</a>
+
<a href="https://2012.igem.org/Team:Cornell/testing/notebook/drylab/12#pillTab3"><< Previous Week</a>
</div>
</div>
</div>
</div>

Latest revision as of 03:39, 4 October 2012

Progress Log
Details
Both

Post

  • Friday, August 31th, 2012

    Focus: (No more focus)

    Cranking up productivity: math modeling of pollutant transport, progress on ADK serial output, and concept for food canisters.Details
    Entry:
    We had a dry lab meeting today. Everyone provided a brief update on their progress on assignments. Now that everyone is now geared toward specific assignments, the change will be reflected in the format of this entry as well as future logs.

    So far, Maneesh has been working on math modeling. He is developing a simple, economic model of pollutant transport, using a program called Fluent. In order to run simulations, Maneesh looked up various river topography maps. By understanding how contaminants disperse and run downstream from its source, we can determine the optimal placement of our system in any environment.

    Lydia has been working with our new member, Paras, on the serial output from the microcontroller to a computer. She has also connected the solar panel wires to a watertight electrical socket that Dan ordered online.

    Meanwhile, Manny and I have been working on the design of the food canister and finalized the concept today. We originally went for a food tank that would be built around the food tank as an anchor. However, the complexity of the design would require welding and a lengthy manufacturing process. Thus, we decided to not use the food tank as a support structure, and with input from Dan, we looked online for a hexacomb plate to serve as an anchor for everything that will sit on the bottom of the case. And by “everything” I mean the battery and food tank. For increased freedom, we went for a six-pack concept, with each canister holding approximately a month’s supply of sustenance.

    And Dan, like always, has been very busy moving the team along. Since the micropumps are too weak to pull the water through the system, Dan ordered British TCS pumps that are much stronger and still considerably compact. During the week, he designed and machined the inlet and outlet fittings for the device. These consist short hollow rods connected to thin metal plates, which were screwed into the case. The screws have washers and the plates are cushioned by rubber rings to block leaks. Water will only be able to get in through tubes hooked up to the rods. Lastly, he has started work on the junction for the solar panel wires, now known as the receptacle.

    #pollutant transport #math modeling #microcontroller #food tank #serial output #blog

    Thursday, September 6th, 2012

    Work continues as usual. However, there is word of a new team website. Details
    Entry:
    Earlier this week, I met Manny and Dan at the machine shop after lunch. The 4 inch diameter aluminum rods were too thick to be cut on the bandsaw. Additionally, they couldn’t fit into the lathes, so we needed to either CNC or get the machinists over at Clark Hall to cut it for us via waterjet. With nothing to machine, Manny went ahead and cut the clear tubing to be used for the canister body.

    Lydia and Paras made some progress in fixing the communication issue between the Arduino Mega ADK and computer. Meanwhile, Kelvin fixed random bugs in the client, partially dabbling in aesthetics, such as adding a border and shifting the time and date stamps in the output table.

    Although we haven’t heard from Eric in a while, we now know that that there is a prototype with the general format and a structure for the notebook that we discussed during mid-June. These blog entries will soon be able to move into their online house.

    #notebook #food tank

    Thursday, September 13th, 2012

    We manned up and machined canister caps, but efforts were outshone by Rafael’s impressive animations. Details
    Entry:
    Dan worked on the receptacle for the case, and looked up strainers as an alternative to sediment filters. Dan also asked about waterjet cutting service at Clark Hall. We found someone who would cut it for us, but we ultimately decided it was easier and cheaper to make the caps out of polycarbonate instead of aluminum. This way, we could still cut the caps and face the surfaces using the mill instead. Hence, Dan and I headed over to the machine shop today after class to start working on the caps.

    Rafael has been working on the animation of the electron transfer across the bacterial cell membrane. He made computer models of CymA, MtrA, MtrB and MtrC protein structures, and played around with Autodesk Maya. In Maya, he created a virtual periplasmic environment for the background, and was able to employ point-on-poly constraints to get the embedded CymA protein to ripple with the surrounding membrane. Most recently, he animated the MtrA - CymA interaction and spent much time adjusting camerawork and lighting.

    #receptacle #food tank #animation

    Thursday, September 20th, 2012

    Plumbers clear the pipeworks, while machinists and technicians grind on. Details
    Entry:
    With the chassis assembly completed, Dan turned his attention to pipework. After making a draft of the pipe layout, he ordered pipes, tube fittings, valves pressure gauges and rotameters (for reading flow rate). When the parts came in, Dan and Manny assembled the parts and ziptied sections to a metal mesh, which will be fixed onto the roof of the chassis.

    At the machine shop this week, Dan, Manny and I found a lathe head large enough to find the 4 inch diameter food tank caps. Manny drilled input/output holes, while I threaded on the mill. Dan discovered a facing tool on the mill that gives the best finish we have ever seen.

    On the more technical side of life, Maneesh wrote a MATLAB function that calculates the optimal distance the biosensor should be from the contamination source. Kelvin received and set up the Android phone to be used in our biosensor; he also asked CIT (Cornell’s information technologies department) about obtaining a static IP but is still waiting for a response.

    #food tank #math modeling #Android #phone
  • Friday, August 31th, 2012

    We had a dry lab meeting today. Everyone provided a brief update on their progress on assignments. Now that everyone is now geared toward specific assignments, the change will be reflected in the format of this entry as well as future logs.

    So far, Maneesh has been working on math modeling. He is developing a simple, economic model of pollutant transport, using a program called Fluent. In order to run simulations, Maneesh looked up various river topography maps. By understanding how contaminants disperse and run downstream from its source, we can determine the optimal placement of our system in any environment.

    Lydia has been working with our new member, Paras, on the serial output from the microcontroller to a computer. She has also connected the solar panel wires to a watertight electrical socket that Dan ordered online.

    Meanwhile, Manny and I have been working on the design of the food canister and finalized the concept today. We originally went for a food tank that would be built around the food tank as an anchor. However, the complexity of the design would require welding and a lengthy manufacturing process. Thus, we decided to not use the food tank as a support structure, and with input from Dan, we looked online for a hexacomb plate to serve as an anchor for everything that will sit on the bottom of the case. And by “everything” I mean the battery and food tank. For increased freedom, we went for a six-pack concept, with each canister holding approximately a month’s supply of sustenance.

    And Dan, like always, has been very busy moving the team along. Since the micropumps are too weak to pull the water through the system, Dan ordered British TCS pumps that are much stronger and still considerably compact. During the week, he designed and machined the inlet and outlet fittings for the device. These consist short hollow rods connected to thin metal plates, which were screwed into the case. The screws have washers and the plates are cushioned by rubber rings to block leaks. Water will only be able to get in through tubes hooked up to the rods. Lastly, he has started work on the junction for the solar panel wires, now known as the receptacle.

    #pollutant transport #math modeling #microcontroller #food tank #serial output #blog

    Thursday, September 6th, 2012

    Earlier this week, I met Manny and Dan at the machine shop after lunch. The 4 inch diameter aluminum rods were too thick to be cut on the bandsaw. Additionally, they couldn’t fit into the lathes, so we needed to either CNC or get the machinists over at Clark Hall to cut it for us via waterjet. With nothing to machine, Manny went ahead and cut the clear tubing to be used for the canister body.

    Lydia and Paras made some progress in fixing the communication issue between the Arduino Mega ADK and computer. Meanwhile, Kelvin fixed random bugs in the client, partially dabbling in aesthetics, such as adding a border and shifting the time and date stamps in the output table.

    Although we haven’t heard from Eric in a while, we now know that that there is a prototype with the general format and a structure for the notebook that we discussed during mid-June. These blog entries will soon be able to move into their online house.

    #notebook #food tank

    Thursday, September 13th, 2012

    Dan worked on the receptacle for the case, and looked up strainers as an alternative to sediment filters. Dan also asked about waterjet cutting service at Clark Hall. We found someone who would cut it for us, but we ultimately decided it was easier and cheaper to make the caps out of polycarbonate instead of aluminum. This way, we could still cut the caps and face the surfaces using the mill instead. Hence, Dan and I headed over to the machine shop today after class to start working on the caps.

    Rafael has been working on the animation of the electron transfer across the bacterial cell membrane. He made computer models of CymA, MtrA, MtrB and MtrC protein structures, and played around with Autodesk Maya. In Maya, he created a virtual periplasmic environment for the background, and was able to employ point-on-poly constraints to get the embedded CymA protein to ripple with the surrounding membrane. Most recently, he animated the MtrA - CymA interaction and spent much time adjusting camerawork and lighting.

    #receptacle #food tank #animation

    Thursday, September 20th, 2012

    With the chassis assembly completed, Dan turned his attention to pipework. After making a draft of the pipe layout, he ordered pipes, tube fittings, valves pressure gauges and rotameters (for reading flow rate). When the parts came in, Dan and Manny assembled the parts and ziptied sections to a metal mesh, which will be fixed onto the roof of the chassis.

    At the machine shop this week, Dan, Manny and I found a lathe head large enough to find the 4 inch diameter food tank caps. Manny drilled input/output holes, while I threaded on the mill. Dan discovered a facing tool on the mill that gives the best finish we have ever seen.

    On the more technical side of life, Maneesh wrote a MATLAB function that calculates the optimal distance the biosensor should be from the contamination source. Kelvin received and set up the Android phone to be used in our biosensor; he also asked CIT (Cornell’s information technologies department) about obtaining a static IP but is still waiting for a response.

    #food tank #math modeling #Android #phone
  • Friday, August 31th, 2012

    Focus: (No more focus)

    Cranking up productivity: math modeling of pollutant transport, progress on ADK serial output, and concept for food canisters.
    Entry:
    We had a dry lab meeting today. Everyone provided a brief update on their progress on assignments. Now that everyone is now geared toward specific assignments, the change will be reflected in the format of this entry as well as future logs.

    So far, Maneesh has been working on math modeling. He is developing a simple, economic model of pollutant transport, using a program called Fluent. In order to run simulations, Maneesh looked up various river topography maps. By understanding how contaminants disperse and run downstream from its source, we can determine the optimal placement of our system in any environment.

    Lydia has been working with our new member, Paras, on the serial output from the microcontroller to a computer. She has also connected the solar panel wires to a watertight electrical socket that Dan ordered online.

    Meanwhile, Manny and I have been working on the design of the food canister and finalized the concept today. We originally went for a food tank that would be built around the food tank as an anchor. However, the complexity of the design would require welding and a lengthy manufacturing process. Thus, we decided to not use the food tank as a support structure, and with input from Dan, we looked online for a hexacomb plate to serve as an anchor for everything that will sit on the bottom of the case. And by “everything” I mean the battery and food tank. For increased freedom, we went for a six-pack concept, with each canister holding approximately a month’s supply of sustenance.

    And Dan, like always, has been very busy moving the team along. Since the micropumps are too weak to pull the water through the system, Dan ordered British TCS pumps that are much stronger and still considerably compact. During the week, he designed and machined the inlet and outlet fittings for the device. These consist short hollow rods connected to thin metal plates, which were screwed into the case. The screws have washers and the plates are cushioned by rubber rings to block leaks. Water will only be able to get in through tubes hooked up to the rods. Lastly, he has started work on the junction for the solar panel wires, now known as the receptacle.

    #pollutant transport #math modeling #microcontroller #food tank #serial output #blog

    Thursday, September 6th, 2012

    Work continues as usual. However, there is word of a new team website.
    Entry:
    Earlier this week, I met Manny and Dan at the machine shop after lunch. The 4 inch diameter aluminum rods were too thick to be cut on the bandsaw. Additionally, they couldn’t fit into the lathes, so we needed to either CNC or get the machinists over at Clark Hall to cut it for us via waterjet. With nothing to machine, Manny went ahead and cut the clear tubing to be used for the canister body.

    Lydia and Paras made some progress in fixing the communication issue between the Arduino Mega ADK and computer. Meanwhile, Kelvin fixed random bugs in the client, partially dabbling in aesthetics, such as adding a border and shifting the time and date stamps in the output table.

    Although we haven’t heard from Eric in a while, we now know that that there is a prototype with the general format and a structure for the notebook that we discussed during mid-June. These blog entries will soon be able to move into their online house.

    #notebook #food tank

    Thursday, September 13th, 2012

    We manned up and machined canister caps, but efforts were outshone by Rafael’s impressive animations.
    Entry:
    Dan worked on the receptacle for the case, and looked up strainers as an alternative to sediment filters. Dan also asked about waterjet cutting service at Clark Hall. We found someone who would cut it for us, but we ultimately decided it was easier and cheaper to make the caps out of polycarbonate instead of aluminum. This way, we could still cut the caps and face the surfaces using the mill instead. Hence, Dan and I headed over to the machine shop today after class to start working on the caps.

    Rafael has been working on the animation of the electron transfer across the bacterial cell membrane. He made computer models of CymA, MtrA, MtrB and MtrC protein structures, and played around with Autodesk Maya. In Maya, he created a virtual periplasmic environment for the background, and was able to employ point-on-poly constraints to get the embedded CymA protein to ripple with the surrounding membrane. Most recently, he animated the MtrA - CymA interaction and spent much time adjusting camerawork and lighting.

    #receptacle #food tank #animation

    Thursday, September 20th, 2012

    Plumbers clear the pipeworks, while machinists and technicians grind on.
    Entry:
    With the chassis assembly completed, Dan turned his attention to pipework. After making a draft of the pipe layout, he ordered pipes, tube fittings, valves pressure gauges and rotameters (for reading flow rate). When the parts came in, Dan and Manny assembled the parts and ziptied sections to a metal mesh, which will be fixed onto the roof of the chassis.

    At the machine shop this week, Dan, Manny and I found a lathe head large enough to find the 4 inch diameter food tank caps. Manny drilled input/output holes, while I threaded on the mill. Dan discovered a facing tool on the mill that gives the best finish we have ever seen.

    On the more technical side of life, Maneesh wrote a MATLAB function that calculates the optimal distance the biosensor should be from the contamination source. Kelvin received and set up the Android phone to be used in our biosensor; he also asked CIT (Cornell’s information technologies department) about obtaining a static IP but is still waiting for a response.

    #food tank #math modeling #Android #phone