tractatus / mmcore_opencv_imgui

A minimal reproducible example showing how to get MMCore image buffer into OpenCV and display the result through Imgui

MMCore, OpenCV, Imgui

A minimal reproducible example using MMCore to handle microscope I/O,
OpenCV for image processing and
Imgui for bloat-free GUI with minimal dependencies.

About The Project

I still havent completely made the compilation of MMCore entirely into CMake so just download the orignal micromanager source code and compile it through their automake instructions.

Installation

Step 1-3 follows the compilation advice for MicroManager Java which compiles MMDevice and makes makefile for MMCore. After compiling take the entire folder mmCoreAndDevices and place in this directory. See: https://github.com/micro-manager/micro-manager/blob/efb524723a90ed1a329b4423c698edfde59d0629/doc/how-to-build.md

1. Install MicroManager from binary as usual and check that it works with your microscope. Then Clone the MicroManager repo:

   git clone https://github.com/micro-manager/micro-manager.git

2. First check that you have the following dependencies for compiling micromanager:

   which autoconf
   which automake
   which glibtool
   which pkg-config
   brew info boost
   brew info opencv4

   If not install with homebrew. Boost is necessary for micromanager, opencv is not but this C++ repo uses OpenCV to process the image.

3. Generate configure file:

   ./autogen.sh

4. Run configure

   ./configure

5. Compile

   make

6. Move to mmCoreAndDevices/MMCore and make sure it is compiled

   cd ./mmCoreAndDevices/MMCore
   make
   cd ../..

7. Clone this repo and copy the mmCoreAndDevices directory and replace it:

   git clone https://github.com/tractatus/MMCore_OpenCV_Imgui.git
   cp -r ./mmCoreAndDevices ./MMCore_OpenCV_Imgui/

8. Compile:

   cd MMCore_OpenCV_Imgui
   cmake .
   make

9. Run:

   ./micromanager