[pyproject] renaming

oephys2nix/main.py

@@ -131,6 +131,7 @@ def convert(
         stim = StimulusToNix(open_ephys, str(relacs), str(nix_path))
         stim.create_repros_automatically()
         stim.print_table()
+        stim.close()
 
 
 @app.command()

oephys2nix/sorting.py

@@ -1,21 +1,11 @@
 import logging
 import pathlib
-import sys
 
-import matplotlib.pyplot as plt
 import nixio
 import numpy as np
-import rlxnix as rlx
 import spikeinterface.core as si
-from IPython import embed
-from neo.io import OpenEphysBinaryIO
 from nixio.exceptions import DuplicateName
 from rich.console import Console
-from rich.table import Table
-from rlxnix.plugins.efish.utils import extract_am
-from scipy import signal
-
-from oephys2nix.metadata import create_dict_from_section, create_metadata_from_dict
 
 log = logging.getLogger(__name__)
 console = Console()
@@ -46,6 +36,7 @@ class AppendSorting:
             self.sorting, mode="extremum", peak_sign="neg", outputs="index"
         )
         self.data = self.block.data_arrays["data"]
+        self._clean()
         self.append_sorting_to_recording()
 
     def append_sorting_to_recording(self):
@@ -87,6 +78,19 @@ class AppendSorting:
                     f"unit-{unit}", "sorting.spike_index", multi_tag_positions
                 )
                 multi_tag.references.append(self.data)
+            gr.mulit_tags.append(positions)
+
+    def _clean(self):
+        try:
+            gr = self.block.groups["units"]
+        except IndexError:
+            return
+
+        for das in gr.data_arrays:
+            del self.das[das.name]
+        for mtag in gr.multi_tags:
+            del self.block.mulit_tags[mtag.name]
+            del self.das[mtag.name + "-positions"]
 
     def close(self):
         self.nixfile.close()

oephys2nix/stimulus_recreation.py

@@ -438,10 +438,19 @@ class StimulusToNix:
                     continue
 
                 last_repro_name = self.dataset.repro_runs()[i - 1].name
+                try:
+                    log.debug("Did find the last repro")
                     last_repro_position = (
                         self.block.groups[last_repro_name].tags[0].position[0]
                         + self.block.groups[last_repro_name].tags[0].extent[0]
                     )
+                except KeyError:
+                    log.debug("Last repro did not exit")
+                    log.info("Finish writing")
+                    break
+                    embed()
+                    exit()
+
                 self._append_tag(
                     repro,
                     last_repro_position.reshape(-1, 1),

pyproject.toml

@@ -1,5 +1,5 @@
 [project]
-name = "oepyhs2nix"
+name = "oephys2nix"
 version = "0.1.1"
 description = "Converting ophen-ephys data to nix format"
 readme = "README.md"