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OptoDMD

Control DMD device for patterned 1P optogenetics stimulation

Requirements

  • a modified DLP projector (replace lamp/LEDs by controllable high-power LEDs)
  • a two-photon microscope with ScanImage
  • High-power LEDs
  • a LabJack/arduino

Installation

Windows

install Arduino IDE

Install Ximea

Use zeromq with matlab

Ubuntu

LabJack USB driver

git clone https://github.com/labjack/exodriver.git
cd exodriver/
sudo ./install.sh

install Arduino IDE

Install AppImage from arduino's website (Ubuntu package is outdated)

Install Ximea

wget https://www.ximea.com/downloads/recent/XIMEA_Linux_SP.tgz
tar xzf XIMEA_Linux_SP.tgz
cd package
./install -pcie
cp -r api/Python/v3/ximea ~/miniconda3/envs/OptoDMD/lib/python3.8/site-packages/

Use zeromq with matlab

sudo apt install maven openjdk-8-jdk-headless
git clone https://github.com/zeromq/jeromq.git
git checkout tags/v0.6.0
cd jeromq
JAVA_HOME=/usr/lib/jvm/java-8-openjdk-amd64/ mvn clean install -DskipTests

Load Firmata Sketch on the Arduino

The sketch is available in the Arduino IDE’s built-in examples. To open it, access the File menu, then Examples, followed by Firmata, and finally StandardFirmata.

  1. Plug the USB cable into the PC.
  2. Select the appropriate board and port on the IDE.
  3. Press Upload.

Then copy target/jeromq-0.6.0.jar to the project root.