Merge branch 'memory_demanding' into 'master'

`memory_demanding` for TF based transformers

See merge request !83

bob/bio/face/config/baseline/facenet_sanderberg.py

@@ -7,10 +7,14 @@ from bob.bio.base.pipelines.vanilla_biometrics import (
     VanillaBiometricsPipeline,
 )
 
-
+memory_demanding = False
 if "database" in locals():
     annotation_type = database.annotation_type
     fixed_positions = database.fixed_positions
+    memory_demanding = (
+        database.memory_demanding if hasattr(database, "memory_demanding") else False
+    )
+
 else:
     annotation_type = None
     fixed_positions = None
@@ -19,7 +23,9 @@ else:
 def load(annotation_type, fixed_positions=None):
 
     transformer = embedding_transformer_160x160(
-        FaceNetSanderberg_20170512_110547(), annotation_type, fixed_positions
+        FaceNetSanderberg_20170512_110547(memory_demanding=memory_demanding),
+        annotation_type,
+        fixed_positions,
     )
     algorithm = Distance()
 

bob/bio/face/config/baseline/inception_resnetv1_casiawebface.py

@@ -7,10 +7,14 @@ from bob.bio.base.pipelines.vanilla_biometrics import (
     VanillaBiometricsPipeline,
 )
 
-
+memory_demanding = False
 if "database" in locals():
     annotation_type = database.annotation_type
     fixed_positions = database.fixed_positions
+    memory_demanding = (
+        database.memory_demanding if hasattr(database, "memory_demanding") else False
+    )
+
 else:
     annotation_type = None
     fixed_positions = None
@@ -18,7 +22,9 @@ else:
 
 def load(annotation_type, fixed_positions=None):
     transformer = embedding_transformer_160x160(
-        InceptionResnetv1_Casia_CenterLoss_2018(), annotation_type, fixed_positions
+        InceptionResnetv1_Casia_CenterLoss_2018(memory_demanding=memory_demanding),
+        annotation_type,
+        fixed_positions,
     )
 
     algorithm = Distance()

bob/bio/face/config/baseline/inception_resnetv1_msceleb.py

@@ -7,10 +7,14 @@ from bob.bio.base.pipelines.vanilla_biometrics import (
     VanillaBiometricsPipeline,
 )
 
-
+memory_demanding = False
 if "database" in locals():
     annotation_type = database.annotation_type
     fixed_positions = database.fixed_positions
+    memory_demanding = (
+        database.memory_demanding if hasattr(database, "memory_demanding") else False
+    )
+
 else:
     annotation_type = None
     fixed_positions = None
@@ -18,7 +22,9 @@ else:
 
 def load(annotation_type, fixed_positions=None):
     transformer = embedding_transformer_160x160(
-        InceptionResnetv1_MsCeleb_CenterLoss_2018(), annotation_type, fixed_positions
+        InceptionResnetv1_MsCeleb_CenterLoss_2018(memory_demanding=memory_demanding),
+        annotation_type,
+        fixed_positions,
     )
 
     algorithm = Distance()

bob/bio/face/config/baseline/inception_resnetv2_casiawebface.py

@@ -7,10 +7,14 @@ from bob.bio.base.pipelines.vanilla_biometrics import (
     VanillaBiometricsPipeline,
 )
 
-
+memory_demanding = False
 if "database" in locals():
     annotation_type = database.annotation_type
     fixed_positions = database.fixed_positions
+    memory_demanding = (
+        database.memory_demanding if hasattr(database, "memory_demanding") else False
+    )
+
 else:
     annotation_type = None
     fixed_positions = None
@@ -18,7 +22,9 @@ else:
 
 def load(annotation_type, fixed_positions=None):
     transformer = embedding_transformer_160x160(
-        InceptionResnetv2_Casia_CenterLoss_2018(), annotation_type, fixed_positions
+        InceptionResnetv2_Casia_CenterLoss_2018(memory_demanding=memory_demanding),
+        annotation_type,
+        fixed_positions,
     )
 
     algorithm = Distance()

bob/bio/face/config/baseline/inception_resnetv2_msceleb.py

@@ -7,10 +7,14 @@ from bob.bio.base.pipelines.vanilla_biometrics import (
     VanillaBiometricsPipeline,
 )
 
-
+memory_demanding = False
 if "database" in locals():
     annotation_type = database.annotation_type
     fixed_positions = database.fixed_positions
+
+    memory_demanding = (
+        database.memory_demanding if hasattr(database, "memory_demanding") else False
+    )
 else:
     annotation_type = None
     fixed_positions = None
@@ -18,7 +22,9 @@ else:
 
 def load(annotation_type, fixed_positions=None):
     transformer = embedding_transformer_160x160(
-        InceptionResnetv2_MsCeleb_CenterLoss_2018(), annotation_type, fixed_positions
+        InceptionResnetv2_MsCeleb_CenterLoss_2018(memory_demanding=memory_demanding),
+        annotation_type,
+        fixed_positions,
     )
 
     algorithm = Distance()

bob/bio/face/config/baseline/tf2_inception_resnet.py

@@ -3,7 +3,7 @@ from bob.bio.face.embeddings.tf2_inception_resnet import InceptionResnetv2
 from bob.bio.face.preprocessor import FaceCrop
 from bob.bio.face.config.baseline.helpers import (
     embedding_transformer_default_cropping,
-    embedding_transformer
+    embedding_transformer,
 )
 
 from sklearn.pipeline import make_pipeline
@@ -13,32 +13,43 @@ from bob.bio.base.pipelines.vanilla_biometrics import (
     VanillaBiometricsPipeline,
 )
 
-
+memory_demanding = False
 if "database" in locals():
     annotation_type = database.annotation_type
     fixed_positions = database.fixed_positions
+    memory_demanding = (
+        database.memory_demanding if hasattr(database, "memory_demanding") else False
+    )
+
 else:
     annotation_type = None
     fixed_positions = None
 
+
 def load(annotation_type, fixed_positions=None):
     CROPPED_IMAGE_SIZE = (160, 160)
-    CROPPED_POSITIONS = embedding_transformer_default_cropping(CROPPED_IMAGE_SIZE,
-                                                               annotation_type=annotation_type)
+    CROPPED_POSITIONS = embedding_transformer_default_cropping(
+        CROPPED_IMAGE_SIZE, annotation_type=annotation_type
+    )
 
-    extractor_path = rc['bob.bio.face.tf2.casia-webface-inception-v2']
+    extractor_path = rc["bob.bio.face.tf2.casia-webface-inception-v2"]
 
-    embedding = InceptionResnetv2(checkpoint_path=extractor_path)
+    embedding = InceptionResnetv2(
+        checkpoint_path=extractor_path, memory_demanding=memory_demanding
+    )
 
-    transformer = embedding_transformer(CROPPED_IMAGE_SIZE,
-                                        embedding,
-                                        annotation_type,
-                                        CROPPED_POSITIONS,
-                                        fixed_positions)
+    transformer = embedding_transformer(
+        CROPPED_IMAGE_SIZE,
+        embedding,
+        annotation_type,
+        CROPPED_POSITIONS,
+        fixed_positions,
+    )
 
     algorithm = Distance()
 
     return VanillaBiometricsPipeline(transformer, algorithm)
 
+
 pipeline = load(annotation_type, fixed_positions)
 transformer = pipeline.transformer

bob/bio/face/embeddings/tf2_inception_resnet.py

@@ -10,6 +10,7 @@ from functools import partial
 import pkg_resources
 import os
 from bob.bio.face.embeddings import download_model
+import numpy as np
 
 
 def sanderberg_rescaling():
@@ -34,13 +35,19 @@ class InceptionResnet(TransformerMixin, BaseEstimator):
     preprocessor:
         Preprocessor function
 
+    memory_demanding bool
+        If `True`, the `transform` method will run one sample at the time.
+        This is useful when there is not enough memory available to forward big chucks of data.
     """
 
-    def __init__(self, checkpoint_path, preprocessor=None, **kwargs):
+    def __init__(
+        self, checkpoint_path, preprocessor=None, memory_demanding=False, **kwargs
+    ):
         super().__init__(**kwargs)
         self.checkpoint_path = checkpoint_path
         self.model = None
         self.preprocessor = preprocessor
+        self.memory_demanding = memory_demanding
 
     def load_model(self):
         self.model = tf.keras.models.load_model(self.checkpoint_path)
@@ -54,19 +61,26 @@ class InceptionResnet(TransformerMixin, BaseEstimator):
         return embeddings
 
     def transform(self, X):
+        def _transform(X):
+            X = tf.convert_to_tensor(X)
+            X = to_channels_last(X)
+
+            if X.shape[-3:] != self.model.input_shape[-3:]:
+                raise ValueError(
+                    f"Image shape {X.shape} not supported. Expected {self.model.input_shape}"
+                )
+
+            return self.inference(X).numpy()
+
         if self.model is None:
             self.load_model()
 
         X = check_array(X, allow_nd=True)
-        X = tf.convert_to_tensor(X)
-        X = to_channels_last(X)
 
-        if X.shape[-3:] != self.model.input_shape[-3:]:
-            raise ValueError(
-                f"Image shape {X.shape} not supported. Expected {self.model.input_shape}"
-            )
-
-        return self.inference(X).numpy()
+        if self.memory_demanding:
+            return np.array([_transform(x[None, ...]) for x in X])
+        else:
+            return _transform(X)
 
     def __getstate__(self):
         # Handling unpicklable objects
@@ -89,7 +103,7 @@ class InceptionResnetv2_MsCeleb_CenterLoss_2018(InceptionResnet):
 
     """
 
-    def __init__(self):
+    def __init__(self, memory_demanding=False):
         internal_path = pkg_resources.resource_filename(
             __name__, os.path.join("data", "inceptionresnetv2_msceleb_centerloss_2018"),
         )
@@ -111,7 +125,9 @@ class InceptionResnetv2_MsCeleb_CenterLoss_2018(InceptionResnet):
         )
 
         super(InceptionResnetv2_MsCeleb_CenterLoss_2018, self).__init__(
-            checkpoint_path, preprocessor=tf.image.per_image_standardization,
+            checkpoint_path,
+            preprocessor=tf.image.per_image_standardization,
+            memory_demanding=memory_demanding,
         )
 
 
@@ -123,7 +139,7 @@ class InceptionResnetv2_Casia_CenterLoss_2018(InceptionResnet):
 
     """
 
-    def __init__(self):
+    def __init__(self, memory_demanding=False):
         internal_path = pkg_resources.resource_filename(
             __name__, os.path.join("data", "inceptionresnetv2_casia_centerloss_2018"),
         )
@@ -144,7 +160,9 @@ class InceptionResnetv2_Casia_CenterLoss_2018(InceptionResnet):
         )
 
         super(InceptionResnetv2_Casia_CenterLoss_2018, self).__init__(
-            checkpoint_path, preprocessor=tf.image.per_image_standardization,
+            checkpoint_path,
+            preprocessor=tf.image.per_image_standardization,
+            memory_demanding=memory_demanding,
         )
 
 
@@ -156,7 +174,7 @@ class InceptionResnetv1_Casia_CenterLoss_2018(InceptionResnet):
 
     """
 
-    def __init__(self):
+    def __init__(self, memory_demanding=False):
         internal_path = pkg_resources.resource_filename(
             __name__, os.path.join("data", "inceptionresnetv1_casia_centerloss_2018"),
         )
@@ -177,7 +195,9 @@ class InceptionResnetv1_Casia_CenterLoss_2018(InceptionResnet):
         )
 
         super(InceptionResnetv1_Casia_CenterLoss_2018, self).__init__(
-            checkpoint_path, preprocessor=tf.image.per_image_standardization,
+            checkpoint_path,
+            preprocessor=tf.image.per_image_standardization,
+            memory_demanding=memory_demanding,
         )
 
 
@@ -189,7 +209,7 @@ class InceptionResnetv1_MsCeleb_CenterLoss_2018(InceptionResnet):
 
     """
 
-    def __init__(self):
+    def __init__(self, memory_demanding=False):
         internal_path = pkg_resources.resource_filename(
             __name__, os.path.join("data", "inceptionresnetv1_msceleb_centerloss_2018"),
         )
@@ -211,7 +231,9 @@ class InceptionResnetv1_MsCeleb_CenterLoss_2018(InceptionResnet):
         )
 
         super(InceptionResnetv1_MsCeleb_CenterLoss_2018, self).__init__(
-            checkpoint_path, preprocessor=tf.image.per_image_standardization,
+            checkpoint_path,
+            preprocessor=tf.image.per_image_standardization,
+            memory_demanding=memory_demanding,
         )
 
 
@@ -237,7 +259,7 @@ class FaceNetSanderberg_20170512_110547(InceptionResnet):
         )
     """
 
-    def __init__(self):
+    def __init__(self, memory_demanding=False):
         internal_path = pkg_resources.resource_filename(
             __name__, os.path.join("data", "facenet_sanderberg_20170512_110547"),
         )
@@ -257,5 +279,8 @@ class FaceNetSanderberg_20170512_110547(InceptionResnet):
         )
 
         super(FaceNetSanderberg_20170512_110547, self).__init__(
-            checkpoint_path, tf.image.per_image_standardization,
+            checkpoint_path,
+            tf.image.per_image_standardization,
+            memory_demanding=memory_demanding,
         )
+

bob/bio/face/test/test_embeddings.py

@@ -32,6 +32,33 @@ def test_idiap_inceptionv2_msceleb():
     assert output.size == 128, output.shape
 
 
+@is_library_available("tensorflow")
+def test_idiap_inceptionv2_msceleb_memory_demanding():
+    from bob.bio.face.embeddings.tf2_inception_resnet import (
+        InceptionResnetv2_MsCeleb_CenterLoss_2018,
+    )
+
+    reference = bob.io.base.load(
+        pkg_resources.resource_filename(
+            "bob.bio.face.test", "data/inception_resnet_v2_rgb.hdf5"
+        )
+    )
+    np.random.seed(10)
+
+    transformer = InceptionResnetv2_MsCeleb_CenterLoss_2018(memory_demanding=True)
+    data = (np.random.rand(3, 160, 160) * 255).astype("uint8")
+    output = transformer.transform([data])[0]
+    assert output.size == 128, output.shape
+
+    # Sample Batch
+    sample = Sample(data)
+    transformer_sample = wrap(["sample"], transformer)
+    output = [s.data for s in transformer_sample.transform([sample])][0]
+
+    np.testing.assert_allclose(output[0], reference.flatten(), rtol=1e-5, atol=1e-4)
+    assert output.size == 128, output.shape
+
+
 @is_library_available("tensorflow")
 def test_idiap_inceptionv2_casia():
     from bob.bio.face.embeddings import InceptionResnetv2_Casia_CenterLoss_2018