viewspikes: a Gui to display electrophysiology features in IBL sessions

atlasview/atlasview.py

@@ -261,7 +261,7 @@ class ControllerTopView(PgImageController):
     """
     TopView ControllerTopView
     """
-    def __init__(self, qmain: TopView, res: int = 25, volume='image'):
+    def __init__(self, qmain: TopView, res: int = 25, volume='image', **kwargs):
         super(ControllerTopView, self).__init__(qmain)
         self.volume = volume
         self.atlas = AllenAtlas(res)

setup.py

@@ -12,6 +12,7 @@
     entry_points={
         'console_scripts': [
             'atlas=atlasview.atlasview:main',
+            'align=atlaselectrophysiology.ephys_atlas_gui:main',
         ]
     },
 )

viewspikes/README.md

@@ -12,6 +12,13 @@ Pre-requisites:
 
 ```
 conda activate iblenv
-pip install easyqc
+pip install viewephys
 pip install -U pyqtgraph
 ```
+
+
+## Roadmap
+- multi-probe displays for sessions with several probes
+- make sure NP2.0 4 shanks is supported
+- display LFP
+- speed up the raster plots in pyqtgraph

viewspikes/example_view_ephys_session.py

@@ -0,0 +1,15 @@
+from pathlib import Path
+from one.api import ONE
+from brainbox.io.one import EphysSessionLoader, SpikeSortingLoader
+from iblapps.viewspikes.gui import view_raster
+
+PATH_CACHE = Path("/datadisk/Data/NAWG/01_lick_artefacts/openalyx")
+
+one = ONE(base_url="https://openalyx.internationalbrainlab.org", cache_dir=PATH_CACHE)
+
+pid = '5135e93f-2f1f-4301-9532-b5ad62548c49'
+eid, pname = one.pid2eid(pid)
+
+
+self = view_raster(pid=pid, one=one, stream=False)
+