[database] Stimului included

database.py

@@ -4,6 +4,7 @@ import nixio as nix
 import os
 import glob
 import util as ut
+import uuid
 
 from IPython import embed
 
@@ -181,7 +182,7 @@ class Repro(dj.Manual):
     def get_template_tuple(repro_id=None):
         tup = dict(repro_id=None, dataset_id=None, run=0, repro_name="", settings=None, start=None, duration=None)
         if repro_id is not None:
-            d = dict((RePro() & {"repro_id": repro_id}).fetch1())
+            d = dict((Repro() & {"repro_id": repro_id}).fetch1())
             return d
         return tup
 
@@ -189,14 +190,25 @@ class Repro(dj.Manual):
 @schema
 class Stimulus(dj.Manual):
     definition = """
-    stimulus_id : int
-    -> Repro 
+    stimulus_id : varchar(50)
+    -> Repro
     ---
-    settings : varchar(3000)
+    stimulus_index : int
+    stimulus_name : varchar(512)
     start : float
     duration : float
+    settings : varchar(3000)
     """
 
+    @staticmethod
+    def get_template_tuple(stimulus_id=None):
+        if stimulus_id is not None:
+            tup = dict((Stimulus & {"stimulus_id": stimulus_id}).fetch1())
+        else:
+            tup = dict(stimulus_id=None, stimulus_index=None, stimulus_name="", start=0.0, duration=0.0, settings=None)
+        return tup
+
+
 def populate_datasets(data_path):
     print("Importing dataset %s" % data_path)
     if not os.path.exists(data_path):
@@ -341,6 +353,31 @@ def populate_repros(data_path):
                     rp["start"] = t.position[0]
                     rp["duration"] = t.extent[0]
                     Repro.insert1(rp, skip_duplicates=True)
+                    repro = dict((Repro & dict(repro_id="BaselineActivity_2", dataset_id="2018-11-20-ae-invivo-1")).fetch1())
+                    repro.pop("settings")
+                    repro.pop("repro_name")
+                    repro.pop("start")
+                    repro.pop("duration")
+                    # import Stimuli
+                    mtags = ut.find_mtags_for_tag(b, t)
+                    stim_index = 0
+                    for mt in mtags:
+                        mt_positions = np.atleast_2d(mt.positions[:]).T
+                        mt_extents = np.atleast_2d(mt.extents[:]).T
+                        for i in range(mt.positions.shape[0]):
+                            settings = ut.mtag_settings_to_yaml(mt, i)
+                            stim_start = mt_positions[i, 0]
+                            stim_duration = mt_extents[i, 0]
+
+                            stim = Stimulus.get_template_tuple()
+                            stim["stimulus_id"] = str(uuid.uuid1())
+                            stim["stimulus_index"] = stim_index
+                            stim["start"] = stim_start
+                            stim["duration"] = stim_duration
+                            stim["settings"] = settings
+                            stim.update(repro)
+                            Stimulus.insert1(stim, skip_duplicates=True)
+                            stim_index += 1
             f.close()
             f = None
     else: