Fixups for release 0.8.1; bump version (#605)

Author: michaeldeistler

CHANGELOG.md

@@ -1,3 +1,9 @@
+# 0.8.1
+
+- fixups to tutorial notebooks (#604, @michaeldeistler)
+- remove `delete_channel()` (#604, @michaeldeistler)
+
+
 # 0.8.0
 
 ### New features
@@ -31,6 +37,10 @@ cell.set("axial_diffusion_CaCon_i", 1.0)
 ```
 - Introduce ion pumps (#438, @michaeldeistler)
 
+### Minor changes
+
+- rename `delete_channel()` to `delete()` (#438, @michaeldeistler)  
+
 ### Bug fixes
 
 - Fix for simulation of morphologies with inhomogenous numbers of compartments (#438, @michaeldeistler)

docs/tutorials/08_importing_morphologies.ipynb

@@ -1,6 +1,6 @@
 # This file is part of Jaxley, a differentiable neuroscience simulator. Jaxley is
 # licensed under the Apache License Version 2.0, see <https://www.apache.org/licenses/>
 
-VERSION = (0, 8, 0)
+VERSION = (0, 8, 1)
 
 __version__ = ".".join(map(str, VERSION))

jaxley/__version__.py

@@ -1864,10 +1864,6 @@ def delete_diffusion(self, state: str) -> None:
         self.base.diffusion_states.remove(state)
         self.base.nodes.drop(columns=[f"axial_diffusion_{state}"], inplace=True)
 
-    @deprecated("0.8.0", "Use `.delete(Channel())` instead.")
-    def delete_channel(self, channel: Channel):
-        self.delete(channel)
-
     def delete(self, channel: Union[Channel, Pump]):
         """Remove a channel or pump from the module.
 

jaxley/modules/base.py

@@ -4,7 +4,7 @@ build-backend = "setuptools.build_meta"
 
 [project]
 name = "Jaxley"
-version = "0.8.0"
+version = "0.8.1"
 description = "Differentiable neuron simulations."
 authors = [
     { name = "jaxleyverse", email = "jaxleyverse@gmail.com"},