output file

catalystneuro · Nov 23, 2024 · e534a33 · e534a33
1 parent 7c96fcd
commit e534a33
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Showing 2 changed files with 9 additions and 1 deletion.
diff --git a/examples/example_1.py b/examples/example_1.py
@@ -30,7 +30,12 @@ def main():
                 url="https://dandiarchive.s3.amazonaws.com/blobs/057/ecb/057ecbef-e732-4e94-8d99-40ebb74d346e",
             )
         ],
-        outputFiles=[DendroJobOutputFile(name="output", fileBaseName="output.txt")],
+        outputFiles=[
+            DendroJobOutputFile(
+                name="output",
+                fileBaseName="cells0_clean.nwb",
+            )
+        ],
         parameters=[
             DendroJobParameter(name=k, value=v) for k, v in parameters_dict.items()
         ],

diff --git a/voluseg/VolusegProcessor.py b/voluseg/VolusegProcessor.py
@@ -57,6 +57,7 @@ def run(context: VolusegContext):
         parameters0["t_baseline"] = context.t_baseline
         parameters0["t_section"] = context.t_section
         parameters0["thr_mask"] = context.thr_mask
+        parameters0["output_to_nwb"] = True
 
         voluseg.step0_process_parameters(parameters0)
         filename_parameters = str(
@@ -79,3 +80,5 @@ def run(context: VolusegContext):
 
         print("Clean cells...")
         voluseg.step5_clean_cells(parameters)
+
+        context.output.upload("/tmp/voluseg_output/cells0_clean.nwb")