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|
%global _empty_manifest_terminate_build 0
Name: python-heartpy
Version: 1.2.7
Release: 1
Summary: Heart Rate Analysis Toolkit
License: GNU General Public License (GPL)
URL: https://github.com/paulvangentcom/heartrate_analysis_python
Source0: https://mirrors.aliyun.com/pypi/web/packages/0b/20/4ecd6d0cbe00678b931e7712ba7eade122bd352d99b3932896de51c50a40/heartpy-1.2.7.tar.gz
BuildArch: noarch
Requires: python3-cycler
Requires: python3-kiwisolver
Requires: python3-pyparsing
Requires: python3-numpy
Requires: python3-scipy
Requires: python3-matplotlib
Requires: python3-numpy
Requires: python3-scipy
Requires: python3-matplotlib
Requires: python3-numpy
Requires: python3-scipy
Requires: python3-matplotlib
Requires: python3-numpy
Requires: python3-scipy
Requires: python3-matplotlib
Requires: python3-matplotlib
Requires: python3-numpy
Requires: python3-scipy
Requires: python3-matplotlib
%description
# HeartPy - Python Heart Rate Analysis Toolkit
[](https://doi.org/10.5281/zenodo.1324311) [](https://travis-ci.org/paulvangentcom/heartrate_analysis_python) [](https://codecov.io/gh/paulvangentcom/heartrate_analysis_python) 
**Like HeartPy? Don't forget to leave a star!**
# Structural update
HeartPy V1.2 has landed! The structure of the package has been reworked to be in separate modules now in preparation of the next big update, which will feature many analysis expansions and the first steps towards a GUI for HeartPy. HeartPy has been growing steadily and had reached the point where it became cluttered and unwieldy to keep in a single file. The API remains unchanged.
An 'Examples' folder has been added to the repo which will be expanded soon. Now there's two notebooks explaining how to analyse ppg signals from smartwatches and smart rings.
Colorblind support has been added, see [this notebook in the examples folder](https://github.com/paulvangentcom/heartrate_analysis_python/blob/master/examples/6_colorblind_mode/Colorblind_mode.ipynb)
# Installation
```
python setup.py install
```
Alternatively, we're also on PIP:
```
python -m pip install heartpy
```
That's it! Note that Github always has the newest version.
# Documentation
The official documentation is online! [You can find the official documentation here](https://python-heart-rate-analysis-toolkit.readthedocs.io)
# Python 2.7
The module compiles and and runs fine on Python 2.7, **but** the some unit tests fail.
# Tutorial notebooks are now available in Examples/
These show how to handle various analysis tasks with HeartPy, from smartwatch data, smart ring data, regular PPG, and regular (and very noisy) ECG. The notebooks sometimes don't render through the github engine, so either open them locally, or use an online viewer like [nbviewer](https://nbviewer.jupyter.org/).
We recommend you follow the notebooks in order:
- [1. Analysing a PPG signal](https://github.com/paulvangentcom/heartrate_analysis_python/blob/master/examples/1_regular_PPG/Analysing_a_PPG_signal.ipynb), a notebook for starting out with HeartPy using built-in examples.
- [2. Analysing an ECG signal](https://github.com/paulvangentcom/heartrate_analysis_python/blob/master/examples/2_regular_ECG/Analysing_a_regular_ECG_signal.ipynb), a notebook for working with HeartPy and typical ECG data.
- [3. Analysing smartwatch data](https://github.com/paulvangentcom/heartrate_analysis_python/blob/master/examples/3_smartwatch_data/Analysing_Smartwatch_Data.ipynb), a notebook on analysing low resolution PPG data from a smartwatch.
- [4. Analysing smart ring data](https://github.com/paulvangentcom/heartrate_analysis_python/blob/master/examples/4_smartring_data/Analysing_Smart_Ring_Data.ipynb), a notebook on analysing smart ring PPG data.
- [5. Analysing noisy ECG data](https://github.com/paulvangentcom/heartrate_analysis_python/blob/master/examples/5_noisy_ECG/Analysing_Noisy_ECG.ipynb), an advanced notebook on working with very noisy ECG data, using data from the MIT-BIH noise stress test dataset.
- [6. Colorblind mode - How To and Styles](https://github.com/paulvangentcom/heartrate_analysis_python/blob/master/examples/6_colorblind_mode/Colorblind_mode.ipynb)
# More information
**HeartPy**, the **Python Heart Rate Analysis Toolkit** is a module for heart rate analysis in Python. It started as pure-python implementation to analyse physiological data taken in naturalistic driving and cycling experiments.
The module takes a discrete heart rate signal and outputs time-domain and frequency-domain measures often found in scientific literature:
Time domain:
* beats per minute, BPM
* interbeat interval, IBI
* standard deviation if intervals between adjacent beats, SDNN
* standard deviation of successive differences between adjacent R-R intervals, SDSD
* root mean square of successive differences between adjacend R-R intervals, RMSSD
* proportion of differences between R-R intervals greater than 20ms, 50ms, pNN20, pNN50
* median absolute deviation, MAD
* Poincare analysis (SD1, SD2, S, SD1/SD2)
* Poincare plotting
Frequency domain (ranges per Shaffer and Ginsberg: https://doi.org/10.3389/fpubh.2017.00258)
* very low frequency component (0.0033–0.04 Hz), VLF
* low frequency component (0.04–0.15 Hz), LF
* high frequency component (0.15–0.4 Hz), HF
* lf/hf ratio, LF/HF
**When using the package in your research, please cite**:
van Gent, P., Farah, H., van Nes, N., & van Arem, B. (2019). Analysing Noisy Driver Physiology Real-Time Using Off-the-Shelf Sensors: Heart Rate Analysis Software from the Taking the Fast Lane Project. Journal of Open Research Software, 7(1), 32. DOI: http://doi.org/10.5334/jors.241
van Gent, P., Farah, H., van Nes, N., & van Arem, B. (2019). HeartPy: A novel heart rate algorithm for the analysis of noisy signals. Transportation Research Part F: Traffic Psychology and Behaviour, 66, 368–378. https://doi.org/10.1016/j.trf.2019.09.015
## Documentation
[You can find the official documentation here](https://python-heart-rate-analysis-toolkit.readthedocs.io)
The module is also to some extent described in my tutorial series:
* [Analyzing a Discrete Heart Rate Signal Using Python - Part 1](http://www.paulvangent.com/2016/03/15/analyzing-a-discrete-heart-rate-signal-using-python-part-1/)
* [Analyzing a Discrete Heart Rate Signal Using Python - Part 2](http://www.paulvangent.com/2016/03/21/analyzing-a-discrete-heart-rate-signal-using-python-part-2/)
* [Analyzing a Discrete Heart Rate Signal Using Python - Part 3](http://www.paulvangent.com/2016/03/30/analyzing-a-discrete-heart-rate-signal-using-python-part-3/)
* Analyzing a Discrete Heart Rate Signal Using Python - Part 4: in development
## License
The module is licensed under the [GNU General Public License Version3, GPL-v3](https://opensource.org/licenses/GPL-3.0)
## Validation
Initial results of the validation have been reported in [1, 2].
[1]van Gent, P., Farah, H., van Nes, N., & van Arem, B. (2018). Heart Rate Analysis for Human Factors: Development and Validation of an Open Source Toolkit for Noisy Naturalistic Heart Rate Data. In Proceedings of the 6th HUMANIST Conference (pp. 173–178).
[2] van Gent, P., Farah, H., van Nes, N., & van Arem, B. (2019). HeartPy: A novel heart rate algorithm for the analysis of noisy signals. Transportation Research Part F: Traffic Psychology and Behaviour, 66, 368–378. https://doi.org/10.1016/j.trf.2019.09.015
## To-do
The module is still in active development. See the changelog for past changes. The to-do for the coming months is:
to do before V1.3
- [X] Same but for PPG - morphology too variable, method unstable
- [ ] Add 'strictness parameter' to affect how HeartPy evaluates peaks for acceptance/rejection
- [ ] Autoscale data during process() method
- [ ] expand enhance_peaks to only include those above a threshold
- [ ] Add method to handle NaN data automatically
- [ ] clean_rr method now removes incorrect values, update to allow for replacement by median of surrounding data points
- [ ] Report validation performance on repo (published paper + key-points document once published)
- [ ] Change backend structure in anticipation of GUI development
- [ ] Develop GUI for HeartPy
%package -n python3-heartpy
Summary: Heart Rate Analysis Toolkit
Provides: python-heartpy
BuildRequires: python3-devel
BuildRequires: python3-setuptools
BuildRequires: python3-pip
%description -n python3-heartpy
# HeartPy - Python Heart Rate Analysis Toolkit
[](https://doi.org/10.5281/zenodo.1324311) [](https://travis-ci.org/paulvangentcom/heartrate_analysis_python) [](https://codecov.io/gh/paulvangentcom/heartrate_analysis_python) 
**Like HeartPy? Don't forget to leave a star!**
# Structural update
HeartPy V1.2 has landed! The structure of the package has been reworked to be in separate modules now in preparation of the next big update, which will feature many analysis expansions and the first steps towards a GUI for HeartPy. HeartPy has been growing steadily and had reached the point where it became cluttered and unwieldy to keep in a single file. The API remains unchanged.
An 'Examples' folder has been added to the repo which will be expanded soon. Now there's two notebooks explaining how to analyse ppg signals from smartwatches and smart rings.
Colorblind support has been added, see [this notebook in the examples folder](https://github.com/paulvangentcom/heartrate_analysis_python/blob/master/examples/6_colorblind_mode/Colorblind_mode.ipynb)
# Installation
```
python setup.py install
```
Alternatively, we're also on PIP:
```
python -m pip install heartpy
```
That's it! Note that Github always has the newest version.
# Documentation
The official documentation is online! [You can find the official documentation here](https://python-heart-rate-analysis-toolkit.readthedocs.io)
# Python 2.7
The module compiles and and runs fine on Python 2.7, **but** the some unit tests fail.
# Tutorial notebooks are now available in Examples/
These show how to handle various analysis tasks with HeartPy, from smartwatch data, smart ring data, regular PPG, and regular (and very noisy) ECG. The notebooks sometimes don't render through the github engine, so either open them locally, or use an online viewer like [nbviewer](https://nbviewer.jupyter.org/).
We recommend you follow the notebooks in order:
- [1. Analysing a PPG signal](https://github.com/paulvangentcom/heartrate_analysis_python/blob/master/examples/1_regular_PPG/Analysing_a_PPG_signal.ipynb), a notebook for starting out with HeartPy using built-in examples.
- [2. Analysing an ECG signal](https://github.com/paulvangentcom/heartrate_analysis_python/blob/master/examples/2_regular_ECG/Analysing_a_regular_ECG_signal.ipynb), a notebook for working with HeartPy and typical ECG data.
- [3. Analysing smartwatch data](https://github.com/paulvangentcom/heartrate_analysis_python/blob/master/examples/3_smartwatch_data/Analysing_Smartwatch_Data.ipynb), a notebook on analysing low resolution PPG data from a smartwatch.
- [4. Analysing smart ring data](https://github.com/paulvangentcom/heartrate_analysis_python/blob/master/examples/4_smartring_data/Analysing_Smart_Ring_Data.ipynb), a notebook on analysing smart ring PPG data.
- [5. Analysing noisy ECG data](https://github.com/paulvangentcom/heartrate_analysis_python/blob/master/examples/5_noisy_ECG/Analysing_Noisy_ECG.ipynb), an advanced notebook on working with very noisy ECG data, using data from the MIT-BIH noise stress test dataset.
- [6. Colorblind mode - How To and Styles](https://github.com/paulvangentcom/heartrate_analysis_python/blob/master/examples/6_colorblind_mode/Colorblind_mode.ipynb)
# More information
**HeartPy**, the **Python Heart Rate Analysis Toolkit** is a module for heart rate analysis in Python. It started as pure-python implementation to analyse physiological data taken in naturalistic driving and cycling experiments.
The module takes a discrete heart rate signal and outputs time-domain and frequency-domain measures often found in scientific literature:
Time domain:
* beats per minute, BPM
* interbeat interval, IBI
* standard deviation if intervals between adjacent beats, SDNN
* standard deviation of successive differences between adjacent R-R intervals, SDSD
* root mean square of successive differences between adjacend R-R intervals, RMSSD
* proportion of differences between R-R intervals greater than 20ms, 50ms, pNN20, pNN50
* median absolute deviation, MAD
* Poincare analysis (SD1, SD2, S, SD1/SD2)
* Poincare plotting
Frequency domain (ranges per Shaffer and Ginsberg: https://doi.org/10.3389/fpubh.2017.00258)
* very low frequency component (0.0033–0.04 Hz), VLF
* low frequency component (0.04–0.15 Hz), LF
* high frequency component (0.15–0.4 Hz), HF
* lf/hf ratio, LF/HF
**When using the package in your research, please cite**:
van Gent, P., Farah, H., van Nes, N., & van Arem, B. (2019). Analysing Noisy Driver Physiology Real-Time Using Off-the-Shelf Sensors: Heart Rate Analysis Software from the Taking the Fast Lane Project. Journal of Open Research Software, 7(1), 32. DOI: http://doi.org/10.5334/jors.241
van Gent, P., Farah, H., van Nes, N., & van Arem, B. (2019). HeartPy: A novel heart rate algorithm for the analysis of noisy signals. Transportation Research Part F: Traffic Psychology and Behaviour, 66, 368–378. https://doi.org/10.1016/j.trf.2019.09.015
## Documentation
[You can find the official documentation here](https://python-heart-rate-analysis-toolkit.readthedocs.io)
The module is also to some extent described in my tutorial series:
* [Analyzing a Discrete Heart Rate Signal Using Python - Part 1](http://www.paulvangent.com/2016/03/15/analyzing-a-discrete-heart-rate-signal-using-python-part-1/)
* [Analyzing a Discrete Heart Rate Signal Using Python - Part 2](http://www.paulvangent.com/2016/03/21/analyzing-a-discrete-heart-rate-signal-using-python-part-2/)
* [Analyzing a Discrete Heart Rate Signal Using Python - Part 3](http://www.paulvangent.com/2016/03/30/analyzing-a-discrete-heart-rate-signal-using-python-part-3/)
* Analyzing a Discrete Heart Rate Signal Using Python - Part 4: in development
## License
The module is licensed under the [GNU General Public License Version3, GPL-v3](https://opensource.org/licenses/GPL-3.0)
## Validation
Initial results of the validation have been reported in [1, 2].
[1]van Gent, P., Farah, H., van Nes, N., & van Arem, B. (2018). Heart Rate Analysis for Human Factors: Development and Validation of an Open Source Toolkit for Noisy Naturalistic Heart Rate Data. In Proceedings of the 6th HUMANIST Conference (pp. 173–178).
[2] van Gent, P., Farah, H., van Nes, N., & van Arem, B. (2019). HeartPy: A novel heart rate algorithm for the analysis of noisy signals. Transportation Research Part F: Traffic Psychology and Behaviour, 66, 368–378. https://doi.org/10.1016/j.trf.2019.09.015
## To-do
The module is still in active development. See the changelog for past changes. The to-do for the coming months is:
to do before V1.3
- [X] Same but for PPG - morphology too variable, method unstable
- [ ] Add 'strictness parameter' to affect how HeartPy evaluates peaks for acceptance/rejection
- [ ] Autoscale data during process() method
- [ ] expand enhance_peaks to only include those above a threshold
- [ ] Add method to handle NaN data automatically
- [ ] clean_rr method now removes incorrect values, update to allow for replacement by median of surrounding data points
- [ ] Report validation performance on repo (published paper + key-points document once published)
- [ ] Change backend structure in anticipation of GUI development
- [ ] Develop GUI for HeartPy
%package help
Summary: Development documents and examples for heartpy
Provides: python3-heartpy-doc
%description help
# HeartPy - Python Heart Rate Analysis Toolkit
[](https://doi.org/10.5281/zenodo.1324311) [](https://travis-ci.org/paulvangentcom/heartrate_analysis_python) [](https://codecov.io/gh/paulvangentcom/heartrate_analysis_python) 
**Like HeartPy? Don't forget to leave a star!**
# Structural update
HeartPy V1.2 has landed! The structure of the package has been reworked to be in separate modules now in preparation of the next big update, which will feature many analysis expansions and the first steps towards a GUI for HeartPy. HeartPy has been growing steadily and had reached the point where it became cluttered and unwieldy to keep in a single file. The API remains unchanged.
An 'Examples' folder has been added to the repo which will be expanded soon. Now there's two notebooks explaining how to analyse ppg signals from smartwatches and smart rings.
Colorblind support has been added, see [this notebook in the examples folder](https://github.com/paulvangentcom/heartrate_analysis_python/blob/master/examples/6_colorblind_mode/Colorblind_mode.ipynb)
# Installation
```
python setup.py install
```
Alternatively, we're also on PIP:
```
python -m pip install heartpy
```
That's it! Note that Github always has the newest version.
# Documentation
The official documentation is online! [You can find the official documentation here](https://python-heart-rate-analysis-toolkit.readthedocs.io)
# Python 2.7
The module compiles and and runs fine on Python 2.7, **but** the some unit tests fail.
# Tutorial notebooks are now available in Examples/
These show how to handle various analysis tasks with HeartPy, from smartwatch data, smart ring data, regular PPG, and regular (and very noisy) ECG. The notebooks sometimes don't render through the github engine, so either open them locally, or use an online viewer like [nbviewer](https://nbviewer.jupyter.org/).
We recommend you follow the notebooks in order:
- [1. Analysing a PPG signal](https://github.com/paulvangentcom/heartrate_analysis_python/blob/master/examples/1_regular_PPG/Analysing_a_PPG_signal.ipynb), a notebook for starting out with HeartPy using built-in examples.
- [2. Analysing an ECG signal](https://github.com/paulvangentcom/heartrate_analysis_python/blob/master/examples/2_regular_ECG/Analysing_a_regular_ECG_signal.ipynb), a notebook for working with HeartPy and typical ECG data.
- [3. Analysing smartwatch data](https://github.com/paulvangentcom/heartrate_analysis_python/blob/master/examples/3_smartwatch_data/Analysing_Smartwatch_Data.ipynb), a notebook on analysing low resolution PPG data from a smartwatch.
- [4. Analysing smart ring data](https://github.com/paulvangentcom/heartrate_analysis_python/blob/master/examples/4_smartring_data/Analysing_Smart_Ring_Data.ipynb), a notebook on analysing smart ring PPG data.
- [5. Analysing noisy ECG data](https://github.com/paulvangentcom/heartrate_analysis_python/blob/master/examples/5_noisy_ECG/Analysing_Noisy_ECG.ipynb), an advanced notebook on working with very noisy ECG data, using data from the MIT-BIH noise stress test dataset.
- [6. Colorblind mode - How To and Styles](https://github.com/paulvangentcom/heartrate_analysis_python/blob/master/examples/6_colorblind_mode/Colorblind_mode.ipynb)
# More information
**HeartPy**, the **Python Heart Rate Analysis Toolkit** is a module for heart rate analysis in Python. It started as pure-python implementation to analyse physiological data taken in naturalistic driving and cycling experiments.
The module takes a discrete heart rate signal and outputs time-domain and frequency-domain measures often found in scientific literature:
Time domain:
* beats per minute, BPM
* interbeat interval, IBI
* standard deviation if intervals between adjacent beats, SDNN
* standard deviation of successive differences between adjacent R-R intervals, SDSD
* root mean square of successive differences between adjacend R-R intervals, RMSSD
* proportion of differences between R-R intervals greater than 20ms, 50ms, pNN20, pNN50
* median absolute deviation, MAD
* Poincare analysis (SD1, SD2, S, SD1/SD2)
* Poincare plotting
Frequency domain (ranges per Shaffer and Ginsberg: https://doi.org/10.3389/fpubh.2017.00258)
* very low frequency component (0.0033–0.04 Hz), VLF
* low frequency component (0.04–0.15 Hz), LF
* high frequency component (0.15–0.4 Hz), HF
* lf/hf ratio, LF/HF
**When using the package in your research, please cite**:
van Gent, P., Farah, H., van Nes, N., & van Arem, B. (2019). Analysing Noisy Driver Physiology Real-Time Using Off-the-Shelf Sensors: Heart Rate Analysis Software from the Taking the Fast Lane Project. Journal of Open Research Software, 7(1), 32. DOI: http://doi.org/10.5334/jors.241
van Gent, P., Farah, H., van Nes, N., & van Arem, B. (2019). HeartPy: A novel heart rate algorithm for the analysis of noisy signals. Transportation Research Part F: Traffic Psychology and Behaviour, 66, 368–378. https://doi.org/10.1016/j.trf.2019.09.015
## Documentation
[You can find the official documentation here](https://python-heart-rate-analysis-toolkit.readthedocs.io)
The module is also to some extent described in my tutorial series:
* [Analyzing a Discrete Heart Rate Signal Using Python - Part 1](http://www.paulvangent.com/2016/03/15/analyzing-a-discrete-heart-rate-signal-using-python-part-1/)
* [Analyzing a Discrete Heart Rate Signal Using Python - Part 2](http://www.paulvangent.com/2016/03/21/analyzing-a-discrete-heart-rate-signal-using-python-part-2/)
* [Analyzing a Discrete Heart Rate Signal Using Python - Part 3](http://www.paulvangent.com/2016/03/30/analyzing-a-discrete-heart-rate-signal-using-python-part-3/)
* Analyzing a Discrete Heart Rate Signal Using Python - Part 4: in development
## License
The module is licensed under the [GNU General Public License Version3, GPL-v3](https://opensource.org/licenses/GPL-3.0)
## Validation
Initial results of the validation have been reported in [1, 2].
[1]van Gent, P., Farah, H., van Nes, N., & van Arem, B. (2018). Heart Rate Analysis for Human Factors: Development and Validation of an Open Source Toolkit for Noisy Naturalistic Heart Rate Data. In Proceedings of the 6th HUMANIST Conference (pp. 173–178).
[2] van Gent, P., Farah, H., van Nes, N., & van Arem, B. (2019). HeartPy: A novel heart rate algorithm for the analysis of noisy signals. Transportation Research Part F: Traffic Psychology and Behaviour, 66, 368–378. https://doi.org/10.1016/j.trf.2019.09.015
## To-do
The module is still in active development. See the changelog for past changes. The to-do for the coming months is:
to do before V1.3
- [X] Same but for PPG - morphology too variable, method unstable
- [ ] Add 'strictness parameter' to affect how HeartPy evaluates peaks for acceptance/rejection
- [ ] Autoscale data during process() method
- [ ] expand enhance_peaks to only include those above a threshold
- [ ] Add method to handle NaN data automatically
- [ ] clean_rr method now removes incorrect values, update to allow for replacement by median of surrounding data points
- [ ] Report validation performance on repo (published paper + key-points document once published)
- [ ] Change backend structure in anticipation of GUI development
- [ ] Develop GUI for HeartPy
%prep
%autosetup -n heartpy-1.2.7
%build
%py3_build
%install
%py3_install
install -d -m755 %{buildroot}/%{_pkgdocdir}
if [ -d doc ]; then cp -arf doc %{buildroot}/%{_pkgdocdir}; fi
if [ -d docs ]; then cp -arf docs %{buildroot}/%{_pkgdocdir}; fi
if [ -d example ]; then cp -arf example %{buildroot}/%{_pkgdocdir}; fi
if [ -d examples ]; then cp -arf examples %{buildroot}/%{_pkgdocdir}; fi
pushd %{buildroot}
if [ -d usr/lib ]; then
find usr/lib -type f -printf "\"/%h/%f\"\n" >> filelist.lst
fi
if [ -d usr/lib64 ]; then
find usr/lib64 -type f -printf "\"/%h/%f\"\n" >> filelist.lst
fi
if [ -d usr/bin ]; then
find usr/bin -type f -printf "\"/%h/%f\"\n" >> filelist.lst
fi
if [ -d usr/sbin ]; then
find usr/sbin -type f -printf "\"/%h/%f\"\n" >> filelist.lst
fi
touch doclist.lst
if [ -d usr/share/man ]; then
find usr/share/man -type f -printf "\"/%h/%f.gz\"\n" >> doclist.lst
fi
popd
mv %{buildroot}/filelist.lst .
mv %{buildroot}/doclist.lst .
%files -n python3-heartpy -f filelist.lst
%dir %{python3_sitelib}/*
%files help -f doclist.lst
%{_docdir}/*
%changelog
* Thu Jun 08 2023 Python_Bot <Python_Bot@openeuler.org> - 1.2.7-1
- Package Spec generated
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