Description
Uniovi Simur WearablePerMed Utils
Schaffolding
Execute PyScaffold command to create the project:
$ putup --markdown uniovi-simur-wearablepermed-utils -p wearablepermed_utils \
-d "Uniovi Simur WearablePerMed Utils." \
-u https://github.com/SiMuR-UO/uniovi-simur-wearablepermed-utils.git
Create a virtual environment inside for your project and active it:
$ python -m venv .venv
$ source .venv/bin/activate
Install and upgrade tox automation project manager:
$ pip install --upgrade tox
Install and upgrade project modules:
$ pip install -U numpy pandas scipy openpyxl matplotlib
Code and Debugging
Install library modules:
$ pip install -r requirements.txt
Install module locally for debugg
$ pip install -e .
Save project requirements:
$ pip freeze > requirements.txt
Project management
Project commands for: test, clean, build, generate documentation or publish your library in pypi repository Don't forget update the version library from setup.cfg project build file:
$ tox
$ tox -e clean
$ tox -e build
$ tox -e docs
$ tox -e publish -- --repository pypi
Testing
-
Convert binary file to csv:
$ sensor_bin_to_csv \ --bin-file /home/miguel/git/uniovi/simur/uniovi-simur-wearablepermed-utils/data/input/PMP1053/PMP1053_W1_C.BIN \ --csv-file /home/miguel/git/uniovi/simur/uniovi-simur-wearablepermed-utils/data/input/PMP1053/PMP1053_W1_C.csv -
Segment all sensor csv files for each participant and correct deviation if exists: For participant csv files without some deviation error
$ csv_to_segmented_activity \ --csv-file /home/miguel/git/uniovi/simur/uniovi-simur-wearablepermed-utils/data/input/PMP1053/PMP1053_W1_M.csv \ --excel-activity-log /home/miguel/git/uniovi/simur/uniovi-simur-wearablepermed-utils/data/input/PMP1053/PMP1053_RegistroActividades.xlsx \ --body-segment M \ --output /home/miguel/git/uniovi/simur/uniovi-simur-wearablepermed-utils/data/input/PMP1053/PMP1053_W1_seg_M.npzFor participant csv files with some deviation error
$ csv_to_segmented_activity \ --csv-file /home/miguel/git/uniovi/simur/uniovi-simur-wearablepermed-utils/data/input/PMP1053/PMP1053_W1_M.csv \ --excel-activity-log /home/miguel/git/uniovi/simur/uniovi-simur-wearablepermed-utils/data/input/PMP1053/PMP1053_RegistroActividades.xlsx \ --body-segment M \ --output /home/miguel/git/uniovi/simur/uniovi-simur-wearablepermed-utils/data/input/PMP1053/PMP1053_W1_seg_M.npz \ --sample-init 16088120 \ --start-time 17:40:00 -
Window segmented files for convolution model likes The argument include-not-estructure-data can be included if you want add not estructure data
$ segmented_activity_to_stack \ --npz-file /home/miguel/git/uniovi/simur/uniovi-simur-wearablepermed-utils/data/input/PMP1053/PMP1053_W1_seg_M.npz \ --crop-columns 1:7 \ --window-size 250 \ --window-overlapping-percent 50 \ --output /home/miguel/git/uniovi/simur/uniovi-simur-wearablepermed-utils/data/input/PMP1053/PMP1053_W1_tot_M.npz -
Extract features from windowed segmented files for random forest model likes
$ stack_to_features \ --stack-file /home/miguel/git/uniovi/simur/uniovi-simur-wearablepermed-utils/data/input/PMP1053/PMP1053_W1_tot_M.npz \ --output /home/miguel/git/uniovi/simur/uniovi-simur-wearablepermed-utils/data/input/PMP1053/PMP1053_W1_tot_M_features.npz∫ -
Partial aggregation for each participant datasets
$ aggregate_windows_features \ --dataset-folder /home/miguel/git/uniovi/simur/uniovi-simur-wearablepermed-utils/data/input/PMP1003 \ --ml-models ESANN,RandomForest \ --ml-sensors thigh,hip,wrist \ --output-folder /home/miguel/git/uniovi/simur/uniovi-simur-wearablepermed-utils/data/input/PMP1003 -
Total aggregation for all participant datasets to train models
$ model_aggregation \ --dataset-folder /home/miguel/git/uniovi/simur/uniovi-simur-wearablepermed-utils/data/input \ --output-folder /home/miguel/git/uniovi/simur/uniovi-simur-wearablepermed-utils/data/output \ --case-id case_sample
Pipeline:
Note
This project has been set up using PyScaffold 4.6. For details and usage information on PyScaffold see https://pyscaffold.org/.
1 maintainer
Metadata
1 maintainer
Release files for uniovi-simur-wearablepermed-utils 1.33.3
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Total release size: 1.3 MB
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