maggotuba time segment extension mechanism made optional

Project.toml

 name = "TaggingBackends"
 uuid = "e551f703-3b82-4335-b341-d497b48d519b"
 authors = ["François Laurent", "Institut Pasteur"]
-version = "0.14"
+version = "0.14.1"
 
 [deps]
 Dates = "ade2ca70-3891-5945-98fb-dc099432e06a"

src/LarvaDatasets.jl

@@ -555,6 +555,7 @@ function write_larva_dataset_hdf5(output_dir::String,
         includeall="edited",
         seed=nothing,
         distributed_sampling=true,
+        past_future_extensions=true,
         )
     if distributed_sampling
         new_write_larva_dataset_hdf5(output_dir, input_data;
@@ -570,8 +571,10 @@ function write_larva_dataset_hdf5(output_dir::String,
             fixmwt=fixmwt,
             frameinterval=frameinterval,
             includeall=includeall,
+            past_future_extensions=past_future_extensions,
             seed=seed)
     else
+        past_future_extensions || throw("not implemented")
         legacy_write_larva_dataset_hdf5(output_dir, input_data, window_length;
             labels=labels,
             labelpointers=labelpointers,
@@ -595,6 +598,7 @@ function new_write_larva_dataset_hdf5(output_dir, input_data;
         balance=true,
         frameinterval=0.1,
         includeall="edited",
+        past_future_extensions=true,
         seed=nothing,
         kwargs...)
     repo = if input_data isa String
@@ -608,7 +612,7 @@ function new_write_larva_dataset_hdf5(output_dir, input_data;
     end
     @assert !isnothing(frameinterval)
     window = TimeWindow(window_length * frameinterval, round(Int, 1 / frameinterval);
-                        maggotuba_compatibility=true)
+                        maggotuba_compatibility=past_future_extensions)
     selectors = isnothing(labels) ? getprimarylabels(first(Dataloaders.files(repo))) : labels
     min_max_ratio = balance ? 2 : 20
     index = if isnothing(includeall)
@@ -627,7 +631,7 @@ function new_write_larva_dataset_hdf5(output_dir, input_data;
     total_sample_size = length(loader.index)
     classcounts, _ = Dataloaders.groupby(selectors, loader.index.targetcounts)
     #
-    extended_window_length = 3 * window_length
+    extended_window_length = past_future_extensions ? 3 * window_length : window_length
     date = Dates.format(Dates.now(), "yyyy_mm_dd")
     win = window_length # shorter name to keep next line within the allowed text width
     output_file = "larva_dataset_$(date)_$(win)_$(win)_$(total_sample_size).hdf5"

src/taggingbackends/explorer.py

@@ -485,10 +485,14 @@ run `poetry add {pkg}` from directory: \n
 
     def generate_dataset(self, input_files,
             labels=None, window_length=20, sample_size=None, balance=True,
-            include_all=None, frame_interval=None, seed=None):
+            include_all=None, frame_interval=None, seed=None,
+            past_future_extensions=None):
         """
         Generate a *larva_dataset hdf5* file in data/interim/{instance}/
         """
+        if past_future_extensions is None:
+            past_future_extensions = True
+            logging.warning("Upcoming breaking change: pass argument past_future_extensions=True to BackendExplorer.generate_dataset to maintain current behavior")
         return TaggingBackends.LarvaDatasets.write_larva_dataset_hdf5(
                 str(self.interim_data_dir()),
                 input_files if isinstance(input_files, list) else str(input_files),
@@ -498,6 +502,7 @@ run `poetry add {pkg}` from directory: \n
                 balance=balance,
                 includeall=include_all,
                 frameinterval=frame_interval,
+                past_future_extensions=past_future_extensions,
                 seed=seed)
 
     def compile_trxmat_database(self, input_dir,