Merge pull request #333 from pynapple-org/dev

New version 0.7

.github/workflows/main.yml

@@ -6,6 +6,11 @@ on:
     branches: [ main ]
   pull_request:
     branches: [ main, dev ]
+    types:
+      - opened
+      - reopened
+      - synchronize
+      - ready_for_review
 
 jobs:
   lint:

.gitignore

@@ -1,12 +1,15 @@
+*.npz
 *.nwb
 *.pickle
 *.py.md5
-*.npz
+#*.npz
 /docs/generated/gallery/*.md
 /docs/generated/gallery/*.ipynb
 /docs/generated/gallery/*.py
 /docs/generated/gallery/*.zip
 
+/tests/npzfilestest
+
 # Byte-compiled / optimized / DLL files
 __pycache__/
 *.py[cod]

README.md

@@ -31,6 +31,15 @@ pynapple is a light-weight python library for neurophysiological data analysis.
 New release :fire:
 ------------------
 
+### pynapple >= 0.7
+
+Pynapple now implements signal processing. For example, to filter a 1250 Hz sampled time series between 10 Hz and 20 Hz:
+
+```python
+nap.apply_bandpass_filter(signal, (10, 20), fs=1250)
+```
+New functions includes power spectral density and Morlet wavelet decomposition. See the [documentation](https://pynapple-org.github.io/pynapple/reference/process/) for more details.
+
 ### pynapple >= 0.6
 
 Starting with 0.6, [`IntervalSet`](https://pynapple-org.github.io/pynapple/reference/core/interval_set/) objects are behaving as immutable numpy ndarray. Before 0.6, you could select an interval within an `IntervalSet` object with:
@@ -45,8 +54,6 @@ With pynapple>=0.6, the slicing is similar to numpy and it returns an `IntervalS
 new_intervalset = intervalset[0]
 ```
 
-See the [documentation](https://pynapple-org.github.io/pynapple/reference/core/interval_set/) for more details.
-
 ### pynapple >= 0.4
 
 Starting with 0.4, pynapple rely on the [numpy array container](https://numpy.org/doc/stable/user/basics.dispatch.html) approach instead of Pandas for the time series. Pynapple builtin functions will remain the same except for functions inherited from Pandas. 

docs/AUTHORS.md

@@ -5,14 +5,15 @@ Development Lead
 ----------------
 
 -   Guillaume Viejo <[email protected]>
+- 	Edoardo Balzani <[email protected]>
 
 
 Contributors
 ------------
 
-- 	Edoardo Balzani <[email protected]>
 -	Adrien Peyrache
 - 	Dan Levenstein
 -	Sofia Skromne Carrasco
 -	Davide Spalla
-- 	Luigi Petrucco
+- 	Luigi Petrucco
+  - ... [and many more!](https://github.com/pynapple-org/pynapple/graphs/contributors) 

docs/HISTORY.md

@@ -6,7 +6,29 @@ Another postdoc in the lab, Francesco Battaglia, then made major contributions t
 Around 2016-2017, Luke Sjulson started *TSToolbox2*, still in Matlab and which includes some important changes.
 
 In 2018, Francesco started neuroseries, a Python package built on Pandas. It was quickly adopted in Adrien's lab, especially by Guillaume Viejo, a postdoc in the lab. Gradually, the majority of the lab was using it and new functions were constantly added.
-In 2021, Guillaume and other trainees in Adrien's lab decided to fork from neuroseries and started *pynapple*. The core of pynapple is largely built upon neuroseries. Some of the original changes to TSToolbox made by Luke were included in this package, especially the *time_support* property of all ts/tsd objects.
+In 2021, Guillaume and other trainees in Adrien's lab decided to fork from neuroseries and started *pynapple*. 
+The core of pynapple is largely built upon neuroseries. Some of the original changes to TSToolbox made by Luke were included in this package, especially the *time_support* property of all ts/tsd objects.
+
+Since 2023, the development of pynapple is lead by [Guillaume Viejo](https://www.simonsfoundation.org/people/guillaume-viejo/) 
+and [Edoardo Balzani](https://www.simonsfoundation.org/people/edoardo-balzani/) at the Center for Computational Neuroscience 
+of the Flatiron institute.
+
+
+
+0.7.0 (2024-09-16)
+------------------
+
+- Morlet wavelets spectrogram with utility for plotting the wavelets.
+- (Mean) Power spectral density. Returns a Pandas DataFrame.
+- Convolve function works for any dimension of time series and any dimensions of kernel.
+- `dtype` in count function
+- `get_slice`: public method with a simplified API, argument start, end, time_units. returns a slice that matches behavior of Base.get.
+- `_get_slice`: private method, adds the argument "mode" this can be: "after_t", "before_t", "closest_t", "restrict".
+- `split` method for IntervalSet. Argument is `interval_size` in time unit.
+- Changed os import to pathlib.
+- Fixed pickling issue. TsGroup can now be saved as pickle.
+- TsGroup can be created from an iterable of Ts/Tsd objects.
+- IntervalSet can be created from (start, end) pairs
 
 0.6.6 (2024-05-28)
 ------------------