Merge remote-tracking branch 'upstream/main' into update-docs

Author: MilagrosMarin

CHANGELOG.md

@@ -3,6 +3,10 @@
 Observes [Semantic Versioning](https://semver.org/spec/v2.0.0.html) standard and
  [Keep a Changelog](https://keepachangelog.com/en/1.0.0/) convention.
 
+## [0.4.2] - 2025-03-25
+
++ Fix - Add key_source to `ProbeLevelReport` to filter for 'good' quality units
+
 ## [0.4.1] - 2025-02-13
 
 + Fix - Auto generate ProbeInsertion allows duplicate probes (e.g. probe reuse)

element_array_ephys/ephys_report.py

@@ -50,6 +50,12 @@ class ProbeLevelReport(dj.Computed):
     ---
     drift_map_plot: attach
     """
+    
+    @property
+    def key_source(self):
+        return ephys.CuratedClustering & (
+            ephys.CuratedClustering.Unit & "cluster_quality_label='good'"
+        )
 
     def make(self, key):
         from .plotting.probe_level import plot_driftmap

element_array_ephys/spike_sorting/si_spike_sorting.py

@@ -275,7 +275,7 @@ def make(self, key):
 
         postprocessing_params = params["SI_POSTPROCESSING_PARAMS"]
 
-        job_kwargs = postprocessing_params.get(
+        job_kwargs = postprocessing_params.pop(
             "job_kwargs", {"n_jobs": -1, "chunk_duration": "1s"}
         )
 
@@ -366,7 +366,7 @@ def make(self, key):
 
         postprocessing_params = params["SI_POSTPROCESSING_PARAMS"]
 
-        job_kwargs = postprocessing_params.get(
+        job_kwargs = postprocessing_params.pop(
             "job_kwargs", {"n_jobs": -1, "chunk_duration": "1s"}
         )
 
@@ -383,6 +383,8 @@ def _export_to_phy():
                 sorting_analyzer=sorting_analyzer,
                 output_folder=analyzer_output_dir / "phy",
                 use_relative_path=True,
+                remove_if_exists=True,
+                copy_binary=True,
                 **job_kwargs,
             )
 
@@ -395,6 +397,7 @@ def _export_report():
             si.exporters.export_report(
                 sorting_analyzer=sorting_analyzer,
                 output_folder=analyzer_output_dir / "spikeinterface_report",
+                remove_if_exists=True,
                 **job_kwargs,
             )
 

element_array_ephys/version.py

@@ -1,3 +1,3 @@
 """Package metadata."""
 
-__version__ = "0.4.1"
+__version__ = "0.4.2"