Merge pull request #8 from catalystneuro/jfm-1

Fix NwbRecording creation

common/processor_pipeline.py

@@ -37,7 +37,7 @@ def run_pipeline(context: PipelineContext):
     logger.info('Creating input recording')
     recording = NwbRecordingExtractor(
         file=ff,
-        electrical_series_location=context.recording_context.electrical_series_path,
+        electrical_series_path=context.recording_context.electrical_series_path,
         # file_path=context.input.get_url(),
         # stream_mode="remfile"
     )

si_kilosort25/Dockerfile

@@ -12,11 +12,14 @@ RUN git clone https://github.com/SpikeInterface/spikeinterface_pipelines.git &&
     # git checkout dev && \
     pip install -e .
 
-# Install spikeinterface from source, for now
-RUN git clone https://github.com/SpikeInterface/spikeinterface.git && \
-    cd spikeinterface && \
-    # git checkout dev && \
-    pip install -e .[full]
+# # Install spikeinterface from source, for now
+# RUN git clone https://github.com/SpikeInterface/spikeinterface.git && \
+#     cd spikeinterface && \
+#     # git checkout dev && \
+#     pip install -e .[full]
+
+# Install spikeinterface
+RUN pip install spikeinterface[full]==0.100.0
 
 # Copy files into the container
 WORKDIR /app

si_kilosort3/Dockerfile

@@ -12,11 +12,14 @@ RUN git clone https://github.com/SpikeInterface/spikeinterface_pipelines.git &&
     # git checkout dev && \
     pip install -e .
 
-# Install spikeinterface from source, for now
-RUN git clone https://github.com/SpikeInterface/spikeinterface.git && \
-    cd spikeinterface && \
-    # git checkout dev && \
-    pip install -e .[full]
+# # Install spikeinterface from source, for now
+# RUN git clone https://github.com/SpikeInterface/spikeinterface.git && \
+#     cd spikeinterface && \
+#     # git checkout dev && \
+#     pip install -e .[full]
+
+# Install spikeinterface
+RUN pip install spikeinterface[full]==0.100.0
 
 # Copy files into the container
 WORKDIR /app