What is this repository for?

FIMTrack is a larval tracking program to acquire locomotion trajectories and conformation information of Drosophila melanogaster larvae. It is optimized for FIM images. FIM is an acronym for FTIR-based Imaging Method, whereby FTIR is the short form for Frustrated Total Internal Reflection. Details can be found in

• B. Risse, S. Thomas, N. Otto, T. Löpmeier, D. Valkov, X. Jiang, and C. Klämbt, "FIM, a Novel FTIR-Based Imaging Method for High Throughput Locomotion Analysis," PLoS ONE, vol. 8, no. 1, p. e53963, Jan. 2013.

• Risse, B., Jiang, X., & Klämbt, C. (2013). FIM: Frustrated Total Internal Reflection Based Imaging for Biomedical Applications. ERCIM News, 95(Image Understanding), 11-12.

• B. Risse, N. Otto, D. Berh, X. Jiang, and C. Klämbt, "FIM Imaging and FIMTrack: Two New Tools Allowing High-throughput and Cost Effective Locomotion Analysis," Journal of Visualized Experiments: JoVE, no. 94, p. e52207, 2014.

• B. Risse, D. Berh, N. Otto, X. Jiang, and C. Klämbt, "Quantifying subtle locomotion phenotypes of Drosophila larvae using internal structures based on FIM images," Computers in Biology and Medicine, vol. 63, pp. 269-276, 2015.

For more informations contact fim[AT]uni-muenster[DOT]de

Building FIMTrack

First download QCustomPlot (ver. 1.3.2) and place the header file qcustomplot.h and the source files qcustomplot.cpp in the Utility folder of FIMTrack.

Linux

These are instructions for Ubuntu/Debian systems, the packages should be similar on other distributions.

Dependencies

    sudo apt-get install git libopencv-dev qt5-default g++

Building

    git clone https://github.com/i-git/FIMTrack.git FIMTrack
    cd FIMTrack
    qmake FIMTrack.pro
    make
    cd build/release/bin
    ./FIMTrack

OS X El Capitan 10.11 and Yosemite 10.10

We suggest to use Xcode and Homebrew for building FIMTrack on Mac OS X.

Dependencies

• Git
  • sudo brew install git
• OpenCV
  • sudo brew tap homebrew/science
  • sudo brew install opencv --c++11
• Qt
  • sudo brew tap homebrew/versions
  • sudo brew install qt5
  • sudo brew link --force qt5

Building

    git clone https://github.com/i-git/FIMTrack.git FIMTrack
    cd FIMTrack
    qmake FIMTrack.pro
    make
    cd build/release/bin
    ./FIMTrack