Measurement control and analysis for optical microscopy
Run in terminal:
```
$ sudo apt-get install python3-pip python3-h5py git
$ sudo pip3 install comtypes lantz
$ sudo apt-get install build-essential python3-dev cython3 python3-setuptools python3-pip python3-wheel python3-numpy python3-pytest python3-blosc python3-brotli python3-snappy python3-lz4 libz-dev libblosc-dev liblzma-dev liblz4-dev libzstd-dev libpng-dev libwebp-dev libbz2-dev libopenjp2-7-dev libjpeg-turbo8-dev libjxr-dev liblcms2-dev libcharls-dev libaec-dev libbrotli-dev libsnappy-dev libzopfli-dev libgif-dev libtiff-dev
$ pip3 install imagecodecs
$ pip3 install tifffile pyqtgraph
$ git clone https://github.com/fedebarabas/
```- Install WinPython 3.4.
- Browse to Laboratory for Fluorescence Dynamics and download tifffile for Python 3.4 to
$PATH\WinPython-64bit-3.4.4.1\python-3.4.4.amd64\. Open WinPython Command Prompt and run:
$ pip install comtypes lantz tifffile-2016.4.19-cp34-cp34m-win_amd64.whl- Clone Repository by running:
` $ git clone https://github.com/marcnol/tormenta.git`
Don't install these libraries if you have different equipment or you just want to test the software without instruments (offline mode). -Support for Labjack's T7 DAQ - LJM Library - LJM Library Python wrapper -Support for webcam image acquisition - Pygame
Open WinPython Command Prompt, go to tormenta's repository directory and run:
$ python -m tormenta
The documentation is under construction in http://fedebarabas.github.io/tormenta/
If you used the code/program for your paper, please cite
Barabas et al., Note: Tormenta: An open source Python-powered control software for camera based optical microscopy, Review of Scientific Instruments, 2016.
https://doi.org/10.1063/1.4972392
Feel free to contact me with comments or suggestions. Use any part of the code that suits your needs.
Federico Barabas fede.barabas[AT]gmail.com