eHooke_1.0

Built with Python 3.6

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Currently this project requires the following libraries:

keras==2.2.4

scikit_image==0.15.0

newer versions of these libraries were not tested with current code

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Setup instructions:

1. Install Anaconda3 or Miniconda3

https://www.anaconda.com/distribution/

2. Clone or Download as zip this project

3. Open Terminal inside eHooke directory

4. Create the environment

conda env create --file environment.yml

5. Activate environment

conda activate eHookeEnvironment

7. Test setup (optional)

python test.py

if program asks you to save a report and pcc scores everything is properly running

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Usage Instructions:

1. Open Terminal inside eHooke directory

2. Activate environment (use if you created a new env)

conda activate eHookeEnvironment

3. Run eHooke with GUI

python interface.py

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Create an "executable":

On windows

1. Open a simple text editor

2. Write:

call activate eHookeEnvironment

python interface.py

call conda deactivate

3. Save file as run.bat (file extension needs to be .bat) inside eHooke folder

4. Create a shortcut for this file to run it from anywhere

Enjoy!

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Instructions Manual

https://github.com/BacterialCellBiologyLab/eHooke/wiki