- Install Anaconda and VSCode
- Git clone the dsp_analysis repo onto your local machine.
- Open an Anaconda Prompt and change directory to the parent directory of the Github repository.
- Create the conda environment with an Anaconda Prompt
conda env create -n dsp-analysis environment.yml - To test your installation, open VSCode and go to File -> Open Folder -> open the local git repo you cloned (dsp_analysis).
- Test that the software is running properly. To do so, execute the following command in the terminal.
conda run -n dsp-analysis pytest .\tests\test_1_sample_data.py -W ignore::DeprecationWarning: - Verify that all tests were passed.
1 Place all the raw DSP output files in the same directory
2. In VS Coe, in a terminal, paste the following command. Be sure to change the input directory to the folder where your raw files are. You can select any output directory you like.
conda run -n dsp-analysis python .dspy\run_dspy.py -i "[full path to directory containing raw files]" -o "[full path to output directory of your choice]"
3. Next, open Matlab and run trajectory_wrapper.m. Be sure to change the scriptDir and the trajDir as instructed in that file.
4. Save a copy of the meta data matching the columns of .\tests\test_data\meta_data.csv
5. Finally, back in the terminal, paste the following command
conda run -n dsp-analysis python .\dspy\merge_dspy.py -i "[full path to the directory containing the OUTPUT of the previous steps"] -m "[full path to your metadata file]" - o "[full path to desired output file]