So this is a basic water treatment device. The Nanotech part is the Light Blue box off center to the left. In this box are membranes in an alternating fashion. Those membranes are coated with nano-particles that various institutions and Universities wish to test. Water of different salinities and salt contents flow through the device, they empty out into the different vessels and the membranes above are collecting the scaling, fouling or impurities. This is accomplished using Electro Dialysis Methasis. Typically, this procedure is done using Reverse Osmosis but EDM has the potential to recover above 95% as compared to 80% from RO’s.

My big surprise this summer is all the physical labor involved with this device…

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This numbers look meaninless but it can put smile on my face. 

This numbers can be converted to human pulse hopfully soon. This numbers are indacting the change of my faces color. With good calculation I can change them in pulses

Hey Guys these last few weeks have been nothing far from eventful. I think most of you would agree how emotional Research life could be from Meetings, Lab time, Abstracts, Field trips etc. Below I placed a few snips of how I have documented a few of my moments on twitter! Kool fact- my PI Dr Michael Wong Followed me and commented on one of my post. If you are on twitter follow me @mprosperscience

MAKING A GUI IS HARD!

I was away last week but was still working on Python. This week I managed to get a graphical user interface working that showed both the output from the camera as a signal but also from a pulse sensor as well.

Here is my short script to actually measure the frame rate of the webcam. My Macbook Air does 30 fps which is very common.

I spend the majority of the week learning to work with GUI elements in Python. This means windows, buttons, images, and general stuff where a program runs in a window instead of in the terminal. I had to learn how to add plots, and scale, and “listen” for events like a mouse click. In Python this is called signals and having a python program act on a signal is done with a slot. You create a program component (a function) to respond when a signal is given.

Here is an animated GIF showing a comparison of the signals from the camera versus a finger pulse sensor. The top window is the raw camera feed. Note my finger is covering the camera fully here. I have yet to get the peak detection to work very well.

First iteration: got the camera signal and image to display in a GUI.

https://t.co/EQy5gr0d2X I can actually see my pulse. It’s coming from my forehead and the signal is noisy but there is signal! @PathsUp @RiceU_STEM This is my implementation of a remote PPG using Python.

— Jimmy Newland (@newtonsenigma) June 25, 2019

Second iteration: got the camera signal and the

https://t.co/G9liIAE2Ni Slow but steady progress. Here I am comparing the signal from a webcam with a finger over it to a pulse sensor attached to the same finger on the other hand. They seem pretty synchronized. @PathsUp @RiceU_STEM

— Jimmy Newland (@newtonsenigma) June 27, 2019

I also added Butterworth bandpass filtering to the signal which seems to need my signal to noise ratio to improve. And I am using HeartPy to find the peaks in the signal. Both processes worked to some degree but the whole system is so environment dependent that I can’t say it is in beta… more like alpha version. But progress is progress.

I also wrote code to save the streams of data as CSV files which can be processed as a whole after the fact.

I want to add some other stuff to the GUI like buttons to start and stop and the readings from the pulse sensor and the camera. Plus signal analysis using a fast Fourier transform is going to be hard.

My goal for this week was to use the webcam to track the face and locate a region of interest (ROI) and then use that ROI to measure the heart rate (HR). These things were done with success, but I still have a few bugs/kinks to work out. Check out my and pics below:

Video 1: Face  and ROI Tracking with motion

Video 2: Face and ROI Tracking Static

Video 3: Heart Rate Detection using Webcam

Video 4: Using Pulse Ox to compare webcam HR

I was trying the program using natural lighting outside. However,  yesterday (6/28/19) when I tried to run the program again using an additional green light source, the program kept freezing and wouldn’t take the HR. I will have to debug the code and try to figure out the issue.

I’ve also set up a meeting for this weekend with my friend Doug to help me learn how to build an app since I have no experience building an app.

I wanted to start off by mentioning that this has been a TOUGH week. I almost named my blog post this week ” Hard Knock Life!”, but I decided to focus on the positive aspect instead.

Monday and Tuesday

Crashing and burning, through the first two days. I had problems download two particular libraries- “matplotlib” and “scify”. I had to resort to using command prompt-I was very uncomfortable using it. After spending two days, just jumping from one video to another trying to find why my libraries were not working, I brought in my own laptop. No luck with that either.

Success!!!

Wednesday morning, I got some external help and finally got my libraries up and running in Sublime Text.  I spend the next two days trying to draw a rectangle, slicing the array from the rectangle to collect data for skin color changes in the forehead area.

How to add, average and collect data?

On Friday, I successfully got the data. Next, I need to check if I’m slicing it correctly. I need to store this data in a list. Then, graph it using matplotlib. I’ll be spending some time learning about matplotlib today. I’m somewhat content that I managed to collect data at least, considering how I started the week.

I’ll be attaching videos from my progress, even some that might be really simple- stuff I programmed in Week 1. Just to show how far I’ve come in my journey.

face_detection

color_tracking

finalcode_sofar

Hi RET Mad Scientists,

This week I worked with my mentor and performed my project with taking bacteria, adding  fluorphore adding to it to indenting peptidoglycan tagging the L amino acids in it.  Its finished,  and we are now going to ship the product and control to Sweden so they can let us know if it worked or not,  Super excited about that.  Hopefully, they will give us the results before the poster project is due.  I enjoyed sharing my lab with y’all this morning and hope you have a great rest of the day.

Cheers,

Robert

My project is to help characterize the mechanical properties of my mentor’s peptide hydrogels after incubating in the media. Last week, we prepared a cell culture plate with hydrogels for 3, 5, 7, 10 and 12 days post-incubation. The hydrogels are incubating in media and are retrieved each day listed. I am using the Rheometer to determine the Storage Modulus (G’) and Loss Modulus (G”)  I am also collecting the media to determine the pH.  So… I am preparing “lots” of Excel graphs and data tables.

Once again the science gods have struck against me. My mentor and I were trying the membrane distillation system to grow crystals on the membranes; BUT when I got here this morning our feed solution container was empty and all over the floor. A piece of tubing came undone and it simply pumped the solution all over the floor. After cleaning it up I put the tubing back in, made another solution and came to the office. When I went back in (about 10 minutes) the tubing had popped off again and my solution was all over the floor again. I cleaned the floor, shoved the tubing in even harder and made another solution. I then went to the restroom and came back and once again my solution was all over the floor. I figured by now my readings were useless. I went ahead cleaned the floor and shut off the machine. I went and got coffee and am trying to figure out what to do now. I ran into the RET-U that is also using the machine as he is suppose to use it today at noon. I warned him of the problem and told him that I loosed the bracket holding the tubing together shoved the tubing pieces together and tightened it but have no idea if that is going to work.  My mentor has a doctor appointment so hopefully after the lab tours today we can check if we got any crystal growth before the incidents occurred. Hope everyone else is more successful in their experiments!

Hello Team,

Tomorrow let’s meet in front of Keck no later than 9:00 am. We will visit the lovely Ms. Kaitlin’s lab.  I was told we can catch the bus to BRC. It must be kind of far.

All agree? Type Yay!