Merge branch 'main' into fix-node-pipeline

Author: alejoe91

pyproject.toml

@@ -62,7 +62,7 @@ extractors = [
     "MEArec>=1.8",
     "pynwb>=2.6.0",
     "hdmf-zarr>=0.11.0",
-    "pyedflib>=0.1.30",
+    "pyedflib>=0.1.30,<0.1.39",
     "sonpy;python_version<'3.10'",
     "lxml", # lxml for neuroscope
     "scipy",

src/spikeinterface/sorters/external/kilosort.py

@@ -206,7 +206,7 @@ def _get_specific_options(cls, ops, params) -> dict:
 
         # options for posthoc merges (under construction)
         ops["fracse"] = 0.1  # binning step along discriminant axis for posthoc merges (in units of sd)
-        ops["epu"] = np.Inf
+        ops["epu"] = np.inf
 
         ops["ForceMaxRAMforDat"] = 20e9  # maximum RAM the algorithm will try to use; on Windows it will autodetect.
 

src/spikeinterface/sorters/external/kilosortbase.py

@@ -96,7 +96,7 @@ def _generate_ops_file(cls, recording, params, sorter_output_folder, binary_file
         ops["fbinary"] = str(binary_file_path.absolute())  # will be created for 'openEphys'
         ops["fproc"] = str((sorter_output_folder / "temp_wh.dat").absolute())  # residual from RAM of preprocessed data
         ops["root"] = str(sorter_output_folder.absolute())  # 'openEphys' only: where raw files are
-        ops["trange"] = [0, np.Inf]  #  time range to sort
+        ops["trange"] = [0, np.inf]  #  time range to sort
         ops["chanMap"] = str((sorter_output_folder / "chanMap.mat").absolute())
 
         ops["fs"] = recording.get_sampling_frequency()  # sample rate