Merge pull request #185 from datajoint/pytest

Add pytest

CHANGELOG.md

@@ -3,6 +3,12 @@
 Observes [Semantic Versioning](https://semver.org/spec/v2.0.0.html) standard and
  [Keep a Changelog](https://keepachangelog.com/en/1.0.0/) convention.
 
+## [0.3.4] - 2024-03-22
+
++ Add - pytest
++ Update - Ephys schema changed from `ephys_acute` to `ephys_no_curation` in `tutorial.ipynb`
+
+
 ## [0.3.3] - 2024-01-24
 + Update - remove PyPi release from `release.yml` since it will fail after the new `setup.py`
 

element_array_ephys/ephys_acute.py

@@ -1044,9 +1044,11 @@ def make(self, key):
         spike_time_key = (
             "spike_times_sec_adj"
             if "spike_times_sec_adj" in kilosort_dataset.data
-            else "spike_times_sec"
-            if "spike_times_sec" in kilosort_dataset.data
-            else "spike_times"
+            else (
+                "spike_times_sec"
+                if "spike_times_sec" in kilosort_dataset.data
+                else "spike_times"
+            )
         )
         spike_times = kilosort_dataset.data[spike_time_key]
         kilosort_dataset.extract_spike_depths()
@@ -1081,11 +1083,13 @@ def make(self, key):
                         "spike_sites": spike_sites[
                             kilosort_dataset.data["spike_clusters"] == unit
                         ],
-                        "spike_depths": spike_depths[
-                            kilosort_dataset.data["spike_clusters"] == unit
-                        ]
-                        if spike_depths is not None
-                        else None,
+                        "spike_depths": (
+                            spike_depths[
+                                kilosort_dataset.data["spike_clusters"] == unit
+                            ]
+                            if spike_depths is not None
+                            else None
+                        ),
                     }
                 )
 

element_array_ephys/ephys_chronic.py

@@ -973,9 +973,11 @@ def make(self, key):
         spike_time_key = (
             "spike_times_sec_adj"
             if "spike_times_sec_adj" in kilosort_dataset.data
-            else "spike_times_sec"
-            if "spike_times_sec" in kilosort_dataset.data
-            else "spike_times"
+            else (
+                "spike_times_sec"
+                if "spike_times_sec" in kilosort_dataset.data
+                else "spike_times"
+            )
         )
         spike_times = kilosort_dataset.data[spike_time_key]
         kilosort_dataset.extract_spike_depths()
@@ -1010,11 +1012,13 @@ def make(self, key):
                         "spike_sites": spike_sites[
                             kilosort_dataset.data["spike_clusters"] == unit
                         ],
-                        "spike_depths": spike_depths[
-                            kilosort_dataset.data["spike_clusters"] == unit
-                        ]
-                        if spike_depths is not None
-                        else None,
+                        "spike_depths": (
+                            spike_depths[
+                                kilosort_dataset.data["spike_clusters"] == unit
+                            ]
+                            if spike_depths is not None
+                            else None
+                        ),
                     }
                 )
 

element_array_ephys/ephys_no_curation.py

@@ -988,9 +988,11 @@ def make(self, key):
         spike_time_key = (
             "spike_times_sec_adj"
             if "spike_times_sec_adj" in kilosort_dataset.data
-            else "spike_times_sec"
-            if "spike_times_sec" in kilosort_dataset.data
-            else "spike_times"
+            else (
+                "spike_times_sec"
+                if "spike_times_sec" in kilosort_dataset.data
+                else "spike_times"
+            )
         )
         spike_times = kilosort_dataset.data[spike_time_key]
         kilosort_dataset.extract_spike_depths()

element_array_ephys/ephys_precluster.py

@@ -962,9 +962,11 @@ def make(self, key):
         spike_time_key = (
             "spike_times_sec_adj"
             if "spike_times_sec_adj" in kilosort_dataset.data
-            else "spike_times_sec"
-            if "spike_times_sec" in kilosort_dataset.data
-            else "spike_times"
+            else (
+                "spike_times_sec"
+                if "spike_times_sec" in kilosort_dataset.data
+                else "spike_times"
+            )
         )
         spike_times = kilosort_dataset.data[spike_time_key]
         kilosort_dataset.extract_spike_depths()
@@ -999,11 +1001,13 @@ def make(self, key):
                         "spike_sites": spike_sites[
                             kilosort_dataset.data["spike_clusters"] == unit
                         ],
-                        "spike_depths": spike_depths[
-                            kilosort_dataset.data["spike_clusters"] == unit
-                        ]
-                        if spike_depths is not None
-                        else None,
+                        "spike_depths": (
+                            spike_depths[
+                                kilosort_dataset.data["spike_clusters"] == unit
+                            ]
+                            if spike_depths is not None
+                            else None
+                        ),
                     }
                 )
 

element_array_ephys/ephys_report.py

@@ -75,9 +75,11 @@ def make(self, key):
             fig_prefix = (
                 "-".join(
                     [
-                        v.strftime("%Y%m%d%H%M%S")
-                        if isinstance(v, datetime.datetime)
-                        else str(v)
+                        (
+                            v.strftime("%Y%m%d%H%M%S")
+                            if isinstance(v, datetime.datetime)
+                            else str(v)
+                        )
                         for v in key.values()
                     ]
                 )

element_array_ephys/probe.py

@@ -1,6 +1,7 @@
 """
 Neuropixels Probes
 """
+
 import datajoint as dj
 
 from .readers import probe_geometry

element_array_ephys/version.py

@@ -1,2 +1,3 @@
 """Package metadata."""
-__version__ = "0.3.3"
+
+__version__ = "0.3.4"