Improved some recognizers, ensured scores are emitted in results

QutEcoacoustics · Sep 20, 2023 · 112bab0 · 112bab0
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commit 112bab0
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Showing 8 changed files with 208 additions and 231 deletions.
diff --git a/src/AnalysisConfigFiles/RecognizerConfigFiles/Truskinger.NinoxConnivens.yml b/src/AnalysisConfigFiles/RecognizerConfigFiles/Truskinger.NinoxConnivens.yml
@@ -1,5 +1,4 @@
 ---
-
 # Barking Owl = Truskinger.NinoxConnivens
 # Resample rate must be 2 X the desired Nyquist
 #ResampleRate: 22050
@@ -11,48 +10,48 @@ SegmentOverlap: 0
 # Each of these profiles will be analyzed
 # This profile is required for the species-specific recognizer and must have the current name.
 Profiles:
-    BarkingOwlSyllable: !ForwardTrackParameters
-        SpeciesName: Ninox connivens
-        FrameSize: 1024
-        FrameStep: 256
-        WindowFunction: HANNING
+  BarkingOwlSyllable: !ForwardTrackParameters
+    SpeciesName: Ninox connivens
+    FrameSize: 1024
+    FrameStep: 256
+    WindowFunction: HANNING
 
-        # min and max of the freq band to search
-        MinHertz: 220
-        MaxHertz: 1150
-        MinDuration: 0.15
-        MaxDuration: 0.18
-        # Scan the frequency band at these thresholds
-        DecibelThresholds:
-            - 6.0
-            - 9.0
-            - 12.0
+    # min and max of the freq band to search
+    MinHertz: 220
+    MaxHertz: 1150
+    MinDuration: 0.15
+    MaxDuration: 0.18
+    # Scan the frequency band at these thresholds
+    DecibelThresholds:
+      - 6.0
+      - 9.0
+      - 12.0
 
 #################### POST-PROCESSING of EVENTS ###################
 
 PostProcessing:
-# # The following generic post-processing steps are determined by config settings.
-# # Step 1: Combine overlapping events - events derived from all profiles.
-# # Step 2: Combine possible syllable sequences and filter on excess syllable count.
-# # Step 3: Remove events whose bandwidth is too small or large.
-# # Step 4: Remove events that have excessive noise in their side-bands.
+  # # The following generic post-processing steps are determined by config settings.
+  # # Step 1: Combine overlapping events - events derived from all profiles.
+  # # Step 2: Combine possible syllable sequences and filter on excess syllable count.
+  # # Step 3: Remove events whose bandwidth is too small or large.
+  # # Step 4: Remove events that have excessive noise in their side-bands.
 
-#     # 1: Combine overlapping events
-#     CombineOverlappingEvents: true
+  #     # 2: Combine possible syllable sequences
+  SyllableSequence:
+    CombinePossibleSyllableSequence: true
+    SyllableStartDifference: 0.6
+    SyllableHertzGap: 350
+    FilterSyllableSequence: true
+    SyllableMaxCount: 12
+    ExpectedPeriod: 0.4
 
-#     # 2: Combine possible syllable sequences
-#     SyllableSequence:
-#         CombinePossibleSyllableSequence: true
-#         SyllableStartDifference: 0.6
-#         SyllableHertzGap: 350
-#         FilterSyllableSequence: true
-#         SyllableMaxCount: 2
-#         ExpectedPeriod: 0.4
+    #     # 1: Combine overlapping events
+  CombineOverlappingEvents: true
 
-#     # 3: Remove events whose duration lies outside 3 SDs of an expected value.
-#     #Duration:
-#         ExpectedDuration: 0.14
-#         DurationStandardDeviation: 0.01
+  #     # 3: Remove events whose duration lies outside 3 SDs of an expected value.
+  Duration:
+    ExpectedDuration: 1.0
+    DurationStandardDeviation: 0.2
 
 #     # 4: Remove events whose bandwidth lies outside 3 SDs of an expected value.
 #  #   Bandwidth:
@@ -68,12 +67,8 @@ PostProcessing:
 # Options to save results files
 # Available options for saving spectrograms (case-sensitive): [False/Never | True/Always | WhenEventsDetected]
 # "True" is useful when debugging but "WhenEventsDetected" is required for operational use.
-SaveSonogramImages: WhenEventsDetected
+SaveSonogramImages: false
 
 # Available options for saving data files (case-sensitive): [False/Never | True/Always | WhenEventsDetected]
 SaveIntermediateWavFiles: Never
 SaveIntermediateCsvFiles: false
-
-
-
-...
diff --git a/src/AnalysisConfigFiles/RecognizerConfigFiles/Truskinger.PetaurusAustralis.yml b/src/AnalysisConfigFiles/RecognizerConfigFiles/Truskinger.PetaurusAustralis.yml
@@ -1,5 +1,4 @@
 ---
-
 # Yellow Bellied Glider = Truskinger.PetaurusAustralis.yml
 # Resample rate must be 2 X the desired Nyquist
 #ResampleRate: 22050
@@ -16,7 +15,6 @@ CommonParameters: &common_parameters
     NoiseReductionType: Modal
     BgNoiseThreshold: 0.0
 
-
 # Each of these profiles will be analyzed
 # This profile is required for the species-specific recognizer and must have the current name.
 Profiles:
@@ -68,13 +66,13 @@ Profiles:
 
 PostProcessing:
     PostProcessInDecibelGroups: false
-# # The following generic post-processing steps are determined by config settings.
-# # Step 1: Combine overlapping events - events derived from all profiles.
-# # Step 2: Combine possible syllable sequences and filter on excess syllable count.
-# # Step 3: Remove events whose bandwidth is too small or large.
-# # Step 4: Remove events that have excessive noise in their side-bands.
+    # # The following generic post-processing steps are determined by config settings.
+    # # Step 1: Combine overlapping events - events derived from all profiles.
+    # # Step 2: Combine possible syllable sequences and filter on excess syllable count.
+    # # Step 3: Remove events whose bandwidth is too small or large.
+    # # Step 4: Remove events that have excessive noise in their side-bands.
 
-#     # 1: Combine overlapping events
+    #     # 1: Combine overlapping events
     CombineOverlappingEvents: false
 
     # 2: Combine possible syllable sequences
@@ -85,32 +83,28 @@ PostProcessing:
         # SyllableMaxCount: 3
         # ExpectedPeriod: 0.1
 
-# #     # 3: Remove events whose duration lies outside 3 SDs of an expected value.
+    # #     # 3: Remove events whose duration lies outside 3 SDs of an expected value.
     Duration:
         ExpectedDuration: 2.5
         DurationStandardDeviation: 0.6
 
-#     # 4: Remove events whose bandwidth lies outside 3 SDs of an expected value.
-#  #   Bandwidth:
-#         ExpectedBandwidth: 280
-#         BandwidthStandardDeviation: 40
+    #     # 4: Remove events whose bandwidth lies outside 3 SDs of an expected value.
+    #  #   Bandwidth:
+    #         ExpectedBandwidth: 280
+    #         BandwidthStandardDeviation: 40
 
-#     # 5: Filter the events for excess activity in their sidebands, i.e. upper and lower buffer zones
-#     SidebandActivity:
-#         LowerHertzBuffer: 150
-#         UpperHertzBuffer: 400
-#         MaxAverageSidebandDecibels: 3.0
+    #     # 5: Filter the events for excess activity in their sidebands, i.e. upper and lower buffer zones
+    #     SidebandActivity:
+    #         LowerHertzBuffer: 150
+    #         UpperHertzBuffer: 400
+    #         MaxAverageSidebandDecibels: 3.0
     RemoveEnclosedEvents: false
 
 # Options to save results files
 # Available options for saving spectrograms (case-sensitive): [False/Never | True/Always | WhenEventsDetected]
 # "True" is useful when debugging but "WhenEventsDetected" is required for operational use.
-SaveSonogramImages: Always
+SaveSonogramImages: false
 
 # Available options for saving data files (case-sensitive): [False/Never | True/Always | WhenEventsDetected]
 SaveIntermediateWavFiles: Never
 SaveIntermediateCsvFiles: false
-
-
-
-...
diff --git a/src/AnalysisConfigFiles/RecognizerConfigFiles/Truskinger.TytoNovaehollandiae.yml b/src/AnalysisConfigFiles/RecognizerConfigFiles/Truskinger.TytoNovaehollandiae.yml
@@ -1,5 +1,4 @@
 ---
-
 # Masked Owl = Truskinger.TytoNovaehollandiae.yml
 # Resample rate must be 2 X the desired Nyquist
 #ResampleRate: 22050
@@ -14,51 +13,48 @@ SpeciesName: Tyto novaehollandiae
 # Each of these profiles will be analyzed
 # This profile is required for the species-specific recognizer and must have the current name.
 Profiles:
-    MaskedOwlCall: !BlobParameters
-        SpeciesName: Tyto novaehollandiae
-        FrameSize: 256
-        FrameStep: 128
-        WindowFunction: HANNING
-
-        # min and max of the freq band to search
-        MinHertz: 1050
-        MaxHertz: 2900
-        MinDuration: 1.5
-        MaxDuration: 3.0
-        BottomHertzBuffer: 300
-        TopHertzBuffer: 300
-        # Scan the frequency band at these thresholds
-        DecibelThresholds:
-            - 1.0
-            - 9.0
-            - 12.0
-    MaskedOwlCallAed: !AedParameters
-        IntensityThreshold: 3
-        SmallAreaThreshold: 1000
-        BandpassMinimum: 1200
-        BandpassMaximum: 2800
-
+  MaskedOwlCall: !BlobParameters
+    SpeciesName: Tyto novaehollandiae
+    FrameSize: 256
+    FrameStep: 128
+    WindowFunction: HAMMING
+
+    # min and max of the freq band to search
+    MinHertz: 1050
+    MaxHertz: 3500
+    MinDuration: 0.1
+    MaxDuration: 3.0
+    BottomHertzBuffer: 300
+    TopHertzBuffer: 300
+    # Scan the frequency band at these thresholds
+    DecibelThresholds:
+      - 2.0
+  # MaskedOwlCallAed: !AedParameters
+  #     IntensityThreshold: 3
+  #     SmallAreaThreshold: 1000
+  #     BandpassMinimum: 1200
+  #     BandpassMaximum: 2800
 
 #################### POST-PROCESSING of EVENTS ###################
 
 PostProcessing:
-# # The following generic post-processing steps are determined by config settings.
-# # Step 1: Combine overlapping events - events derived from all profiles.
-# # Step 2: Combine possible syllable sequences and filter on excess syllable count.
-# # Step 3: Remove events whose bandwidth is too small or large.
-# # Step 4: Remove events that have excessive noise in their side-bands.
-
-#     # 1: Combine overlapping events
-#     CombineOverlappingEvents: true
-
-#     # 2: Combine possible syllable sequences
-    SyllableSequence:
-        CombinePossibleSyllableSequence: true
-        SyllableStartDifference: 2
-        SyllableHertzGap: 300
-        FilterSyllableSequence: true
-        SyllableMaxCount: 2
-        ExpectedPeriod: 2
+  # # The following generic post-processing steps are determined by config settings.
+  # # Step 1: Combine overlapping events - events derived from all profiles.
+  # # Step 2: Combine possible syllable sequences and filter on excess syllable count.
+  # # Step 3: Remove events whose bandwidth is too small or large.
+  # # Step 4: Remove events that have excessive noise in their side-bands.
+
+  #     # 1: Combine overlapping events
+  #     CombineOverlappingEvents: true
+
+  #     # 2: Combine possible syllable sequences
+  SyllableSequence:
+    CombinePossibleSyllableSequence: true
+    SyllableStartDifference: 2
+    SyllableHertzGap: 300
+    FilterSyllableSequence: true
+    SyllableMaxCount: 3
+    ExpectedPeriod: 1.2
 
 #     # 3: Remove events whose duration lies outside 3 SDs of an expected value.
 #     #Duration:
@@ -79,12 +75,8 @@ PostProcessing:
 # Options to save results files
 # Available options for saving spectrograms (case-sensitive): [False/Never | True/Always | WhenEventsDetected]
 # "True" is useful when debugging but "WhenEventsDetected" is required for operational use.
-SaveSonogramImages: WhenEventsDetected
+SaveSonogramImages: false
 
 # Available options for saving data files (case-sensitive): [False/Never | True/Always | WhenEventsDetected]
 SaveIntermediateWavFiles: Never
 SaveIntermediateCsvFiles: false
-
-
-
-...