A package for processing signals recorded using wearable sensors, such as Electrocardiogram (ECG), Photoplethysmogram (PPG), Electrodermal activity (EDA) and 3-axis acceleration (ACC).
Home Page: https://biobss.readthedocs.io/en/latest/
License: MIT License
Hello,
I encountered an issue when trying to install BIOBSS using pip. The error message is as follows:
ERROR: Cannot install biobss==0.1.0 and biobss==0.1.1 because these package versions have conflicting dependencies.
The conflict is caused by:
biobss 0.1.1 depends on plotly-resampler==0.8.2
biobss 0.1.0 depends on plotly-resampler==0.8.2
To fix this you could try to:
1. loosen the range of package versions you've specified
2. remove package versions to allow pip attempt to solve the dependency conflict
ERROR: ResolutionImpossible: for help visit https://pip.pypa.io/en/latest/topics/dependency-resolution/#dealing-with-dependency-conflicts
Upon checking the dependency file, it seems that plotly==5.11.0 is required. I was wondering if there might be a possibility to adjust this to resolve the conflict?
Thank you for your assistance.
how to find the Spectral and split raw data into different sub frequency signal
Users can add their own methods to process and feature extraction queue. If these method takes inputs as dictionaries additional method need to convert signals to dictionary.
AttributeError Traceback (most recent call last)
[<ipython-input-9-fc9babe80238>](https://localhost:8080/#) in <module>
1 #Plot ACC signals using Matplotlib (default)
----> 2 biobss.imutools.plot_acc(signals=signals, peaks=peaks, sampling_rate=fs, method='matplotlib', show_peaks=True)
1 frames
[/usr/local/lib/python3.8/dist-packages/biobss/imutools/acc_plot.py](https://localhost:8080/#) in _plot_acc_matplotlib(signals, peaks, x_values, x_label, figsize, show_peaks)
142 i += 1
143
--> 144 fig.supxlabel(x_label)
145 fig.supylabel("Amplitude")
146 fig.tight_layout()
AttributeError: 'Figure' object has no attribute 'supxlabel'
---------------------------------------------------------------------------
ImportError Traceback (most recent call last)
[/usr/local/lib/python3.8/dist-packages/IPython/core/formatters.py](https://localhost:8080/#) in __call__(self, obj)
339 pass
340 else:
--> 341 return printer(obj)
342 # Finally look for special method names
343 method = get_real_method(obj, self.print_method)
4 frames
[/usr/local/lib/python3.8/dist-packages/matplotlib/backends/backend_agg.py](https://localhost:8080/#) in print_png(self, filename_or_obj, metadata, pil_kwargs, *args, **kwargs)
503 Metadata in the PNG file as key-value pairs of bytes or latin-1
504 encodable strings.
--> 505 According to the PNG specification, keys must be shorter than 79
506 chars.
507
ImportError: cannot import name '_png' from 'matplotlib' (/usr/local/lib/python3.8/dist-packages/matplotlib/__init__.py)load_sample_data function does not work when installed via pip
Installing the current HEAD of biobss has an issue on import:
(venv) [rbirmin@cnode7 BIOBSS]$ python
Python 3.8.13 (default, Aug 16 2022, 12:16:29)
[GCC 9.3.1 20200408 (Red Hat 9.3.1-2)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import biobss
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "/home/rbirmin/BIOBSS/biobss/__init__.py", line 7, in <module>
from biobss import ( # isort: skip
File "/home/rbirmin/BIOBSS/biobss/ecgtools/__init__.py", line 4, in <module>
from .ecg_plot import *
File "/home/rbirmin/BIOBSS/biobss/ecgtools/ecg_plot.py", line 4, in <module>
from ..plottools import *
File "/home/rbirmin/BIOBSS/biobss/plottools/__init__.py", line 1, in <module>
from .plot_tools import *
File "/home/rbirmin/BIOBSS/biobss/plottools/plot_tools.py", line 5, in <module>
from plotly_resampler import register_plotly_resampler
File "/home/rbirmin/BIOBSS/venv/lib64/python3.8/site-packages/plotly_resampler/__init__.py", line 4, in <module>
from .figure_resampler import FigureResampler, FigureWidgetResampler
File "/home/rbirmin/BIOBSS/venv/lib64/python3.8/site-packages/plotly_resampler/figure_resampler/__init__.py", line 13, in <module>
from .figure_resampler import FigureResampler
File "/home/rbirmin/BIOBSS/venv/lib64/python3.8/site-packages/plotly_resampler/figure_resampler/figure_resampler.py", line 18, in <module>
import dash
File "/home/rbirmin/BIOBSS/venv/lib64/python3.8/site-packages/dash/__init__.py", line 5, in <module>
from .dependencies import ( # noqa: F401,E402
File "/home/rbirmin/BIOBSS/venv/lib64/python3.8/site-packages/dash/dependencies.py", line 4, in <module>
from ._validate import validate_callback
File "/home/rbirmin/BIOBSS/venv/lib64/python3.8/site-packages/dash/_validate.py", line 5, in <module>
import flask
File "/home/rbirmin/BIOBSS/venv/lib64/python3.8/site-packages/flask/__init__.py", line 5, in <module>
from . import json as json
File "/home/rbirmin/BIOBSS/venv/lib64/python3.8/site-packages/flask/json/__init__.py", line 6, in <module>
from ..globals import current_app
File "/home/rbirmin/BIOBSS/venv/lib64/python3.8/site-packages/flask/globals.py", line 25, in <module>
app_ctx: AppContext = LocalProxy( # type: ignore[assignment]
TypeError: __init__() got an unexpected keyword argument 'unbound_message'
Context and commands before this:
(venv) [rbirmin@cnode7 BIOBSS]$ python --version
Python 3.8.13
(venv) [rbirmin@cnode7 BIOBSS]$ git rev-parse HEAD
6be24b9c6ebfecf8e13d52b48c1c8d130c28ac5f
(venv) [rbirmin@cnode7 BIOBSS]$ pip install -r requirements.txt > requirements_log.out
(venv) [rbirmin@cnode7 BIOBSS]$ pip install . > setup_log.out
The venv is clean except for these commands.
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