S.AP.P.H.O. Project

Scattering-based APparatus for Portable Haematological analysis via Optics

Information

This repository is the main repository for the SAPPHO project. The design, fabrication, calibration, and testing of a non-invasive, portable Mie scattering-based blood quality sensor are presented in this project. The prototype device currently consists of a 1500x1-pixel photodiode array sensor, a 650 nm laser diode, and a novel case designed to facilitate a variety of optical experiments. Furthermore, this project presents the findings of several in-vivo and in-vitro experiments performed with either the current device or previous prototypes of the device. The SAPPHO project began with our thesis (Scattering measurements with the Beaglebone microcomputer for portable biomedical sensors), but its roots can be traced back to the work of Stratos Gkagkanis (@StratosGK), Konstantinos Karakostas (@konkarak), Ilias Kavoukis (@iliaskavoukis), and Dr. Michail E. Kiziroglou (@m.kiziroglou).

Directories

• ./debian-mirror
  • In case the official Beagleboard website stops distributing the Debian image (bone-debian-8.7-iot-armhf-2017-03-19-4gb.img.xz) used in our thesis, this directory contains links to mirrors.
• ./sappho-analysis
  • The sappho-analysis directory contains scripts for analyzing samples taken with the Toshiba TCD1103GFG PDA or the AMS TSL1401CL PDA.
• ./sappho-cad
  • This directory houses .stl files for the 3D-printed case as well as other peripherals.
• ./sappho-docs
  • The sappho-docs directory contains pdf documents such as our thesis and its presentation, our publications, and the TeX source code for some legal documents required for the project.
• ./sappho-pcb
  • The directory sappho-pcb contains the files required for printing and/or editing the project's PCB
• ./sappho-pda
  • This directory contains the source code required for using the Toshiba TCD1103GFG PDA sensor in conjunction with the Beaglebone Black Rev. C microcomputer, as well as some installation scripts. This code has been forked from StratosGK's "SGK_PDA" driver for the AMS TSL1401CL PDA. Please copy this directory under the directory /home/debian/.

Installation & Building

Beaglebone Black Rev. C

Prerequisites

• Edit /etc/systemd/journald.conf (limit the amount of storage used for logging purposes):
  • SystemMaxUse=16M
  • #MaxLevelStore=warning
  • #MaxLevelSyslog=warning
• Edit /boot/uEnv.txt (disable the Universal Cape):
  • dtb=am335x-boneblack-overlay.dtb
  • cmline-coherent_pool=1M net.ifname=0 quiet
  • #cape_universal=enable
• Reboot the Beaglebone microcomputer
  • sudo reboot
• Replace the Linux kernel:
  • cd /opt/scripts/tools/
  • git pull
  • sudo ./update_kernel.sh --bone-kernel --lts4_4
• Reboot the Beaglebone microcomputer again

Installation

• Clone the repository on the Beaglebone microcomputer
  • git clone https://github.com/bandisast/sappho-pda-driver.git
• Execute the installation script:
  • cd ~/sappho-pda/Tools
  • sudo bash fullInstall.sh
• Compile the C source code
  • cd ..
  • cd Code
  • make

You should now be able to use the driver as such: ./sappho_exec framesCount intgrTime fpsCount. For example, ./sappho_exec 10 40 50.

Future plans

• Support the Arduino UNO R4
• Support the Espressif ESP32D
• Support the Raspberry Pi RP2040
• Support an STM32 microcontroller

Current Primary Contributors

• @bandisast
• @MariaMich