change interval_type to pipeline

CHANGELOG.md

@@ -23,7 +23,7 @@
 - Position:
     - Refactor input validation in DLC pipeline. #688
     - DLC path handling from config, and normalize naming convention. #722
-- IntervalList: Add secondary key `interval_type` #742
+- IntervalList: Add secondary key `pipeline` #742
 
 ## [0.4.3] (November 7, 2023)
 

notebooks/01_Insert_Data.ipynb

@@ -2052,11 +2052,11 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "`IntervalList` has an additional secondary key `interval_type` which can describe the origin of the data.\n",
+    "`IntervalList` has an additional secondary key `pipeline` which can describe the origin of the data.\n",
     "Because it is a _secondary_ key, it is not required to uniquely identify an entry. \n",
     "Current values for this key from spyglass pipelines are:\n",
     "\n",
-    "| interval_type | Source|\n",
+    "| pipeline | Source|\n",
     "| ---   | --- |\n",
     "| position | sg.common.PositionSource |\n",
     "| lfp_v0 | sg.common.LFP |\n",

notebooks/py_scripts/01_Insert_Data.py

@@ -302,11 +302,11 @@
     - {"interval_list_name": "pos 2 valid times"}
 ).fetch("interval_list_name")
 
-# `IntervalList` has an additional secondary key `interval_type` which can describe the origin of the data.
+# `IntervalList` has an additional secondary key `pipeline` which can describe the origin of the data.
 # Because it is a _secondary_ key, it is not required to uniquely identify an entry.
 # Current values for this key from spyglass pipelines are:
 #
-# | interval_type | Source|
+# | pipeline | Source|
 # | ---   | --- |
 # | position | sg.common.PositionSource |
 # | lfp_v0 | sg.common.LFP |

src/spyglass/common/common_behav.py

@@ -76,7 +76,7 @@ def insert_from_nwbfile(cls, nwb_file_name):
                     **sess_key,
                     **ind_key,
                     valid_times=epoch_list[0]["valid_times"],
-                    interval_type="position",
+                    pipeline="position",
                 )
             )
 

src/spyglass/common/common_ephys.py

@@ -495,7 +495,7 @@ def make(self, key):
                 "nwb_file_name": key["nwb_file_name"],
                 "interval_list_name": key["interval_list_name"],
                 "valid_times": lfp_valid_times,
-                "interval_type": "lfp_v0",
+                "pipeline": "lfp_v0",
             },
             replace=True,
         )
@@ -839,7 +839,7 @@ def make(self, key):
                     "nwb_file_name": key["nwb_file_name"],
                     "interval_list_name": key["interval_list_name"],
                     "valid_times": lfp_band_valid_times,
-                    "interval_type": "lfp_band",
+                    "pipeline": "lfp_band",
                 }
             )
         else:

src/spyglass/common/common_interval.py

@@ -23,7 +23,7 @@ class IntervalList(SpyglassMixin, dj.Manual):
     interval_list_name: varchar(170)  # descriptive name of this interval list
     ---
     valid_times: longblob  # numpy array with start/end times for each interval
-    interval_type = "": varchar(100)  # type of interval list (e.g. 'position', 'spikesorting_recording_v1')
+    pipeline = "": varchar(100)  # type of interval list (e.g. 'position', 'spikesorting_recording_v1')
     """
 
     # See #630, #664. Excessive key length.

src/spyglass/lfp/analysis/v1/lfp_band.py

@@ -353,7 +353,7 @@ def make(self, key):
                     "nwb_file_name": key["nwb_file_name"],
                     "interval_list_name": key["interval_list_name"],
                     "valid_times": lfp_band_valid_times,
-                    "interval_type": "lfp band",
+                    "pipeline": "lfp band",
                 }
             )
         else:

src/spyglass/lfp/v1/lfp.py

@@ -166,7 +166,7 @@ def make(self, key):
                 "nwb_file_name": key["nwb_file_name"],
                 "interval_list_name": key["interval_list_name"],
                 "valid_times": lfp_valid_times,
-                "interval_type": "lfp_v1",
+                "pipeline": "lfp_v1",
             },
             replace=True,
         )

src/spyglass/lfp/v1/lfp_artifact.py

@@ -192,7 +192,7 @@ def make(self, key):
             "nwb_file_name": key["nwb_file_name"],
             "interval_list_name": key["artifact_removed_interval_list_name"],
             "valid_times": key["artifact_removed_valid_times"],
-            "interval_type": "lfp_artifact",
+            "pipeline": "lfp_artifact",
         }
 
         LFPArtifactRemovedIntervalList.insert1(key, replace=True)

src/spyglass/spikesorting/spikesorting_artifact.py

@@ -130,7 +130,7 @@ def make(self, key):
                 "artifact_removed_interval_list_name"
             ]
             tmp_key["valid_times"] = key["artifact_removed_valid_times"]
-            tmp_key["interval_type"] = "spikesorting_artifact_v0"
+            tmp_key["pipeline"] = "spikesorting_artifact_v0"
             IntervalList.insert1(tmp_key, replace=True)
 
             # insert into computed table

src/spyglass/spikesorting/spikesorting_recording.py

@@ -400,7 +400,7 @@ def make(self, key):
                 "nwb_file_name": key["nwb_file_name"],
                 "interval_list_name": recording_name,
                 "valid_times": sort_interval_valid_times,
-                "interval_type": "spikesorting_recording_v0",
+                "pipeline": "spikesorting_recording_v0",
             },
             replace=True,
         )

src/spyglass/spikesorting/v1/artifact.py

@@ -156,7 +156,7 @@ def make(self, key):
                 ).fetch1("nwb_file_name"),
                 interval_list_name=str(key["artifact_id"]),
                 valid_times=artifact_removed_valid_times,
-                interval_type="spikesorting_artifact_v1",
+                pipeline="spikesorting_artifact_v1",
             ),
             skip_duplicates=True,
         )

src/spyglass/spikesorting/v1/recording.py

@@ -275,7 +275,7 @@ def make(self, key):
                 ),
                 "interval_list_name": key["recording_id"],
                 "valid_times": sort_interval_valid_times,
-                "interval_type": "spikesorting_recording_v1",
+                "pipeline": "spikesorting_recording_v1",
             }
         )
         AnalysisNwbfile().add(