Bring Your Own Interaction

This is a tutorial about how to implement your own interaction modules (also known as scoring functions) as subclasses of pykeen.nn.modules.Interaction for use in PyKEEN.

Implementing your first Interaction Module

Imagine you’ve taken a time machine back to 2013 and you have just invented TransE, defined as:

\[f(h, r, t) = -\| \mathbf{e}_h + \mathbf{r}_r - \mathbf{e}_t \|_2\]

where \(\mathbf{e}_i\) is the \(d\)-dimensional representation for entity \(i\), \(\mathbf{r}_j\) is the \(d\)-dimensional representation for relation \(j\), and \(\|...\|_2\) is the \(L_2\) norm.

To implement TransE in PyKEEN, you need to subclass the pykeen.nn.modules.Interaction. This class it itself a subclass of torch.nn.Module, which means that you need to provide an implementation of torch.nn.Module.forward(). However, the arguments are predefined as h, r, and t, which correspond to the representations of the head, relation, and tail, respectively.

from pykeen.nn.modules import Interaction


class TransEInteraction(Interaction):
    def forward(self, h, r, t):
        return -(h + r - t).norm(p=2, dim=-1)

Note the dim=-1 because this operation is actually defined over an entire batch of head, relation, and tail representations.

See also

A reference implementation is provided in pykeen.nn.modules.TransEInteraction

As a researcher who just invented TransE, you might wonder what would happen if you replaced the addition + with multiplication *. You might then end up with a new interaction like this (which just happens to be DistMult, which was published just a year after TransE):

\[f(h, r, t) = \mathbf{e}_h^T diag(\mathbf{r}_r) \mathbf{e}_t\]

where \(\mathbf{e}_i\) is the \(d\)-dimensional representation for entity \(i\), \(\mathbf{r}_j\) is the \(d\)-dimensional representation for relation \(j\).

from pykeen.nn.modules import Interaction


class DistMultInteraction(Interaction):
    def forward(self, h, r, t):
        return (h * r * t).sum(dim=-1)

See also

A reference implementation is provided in pykeen.nn.modules.DistMultInteraction

Interactions with Hyper-Parameters

While we previously defined TransE with the \(L_2\) norm, it could be calculated with a different value for \(p\):

\[f(h, r, t) = -\| \mathbf{e}_h + \mathbf{r}_r - \mathbf{e}_t \|_p\]

This could be incorporated into the interaction definition by using the __init__(), storing the value for \(p\) in the instance, then accessing it in forward().

from pykeen.nn.modules import Interaction


class TransEInteraction(Interaction):
    def __init__(self, p: int):
        super().__init__()
        self.p = p

    def forward(self, h, r, t):
        return -(h + r - t).norm(p=self.p, dim=-1)

In general, you can put whatever you want in __init__() to support the calculation of scores.

Interactions with Trainable Parameters

In ER-MLP, the multi-layer perceptron consists of an input layer with \(3 \times d\) neurons, a hidden layer with \(d\) neurons and output layer with one neuron. The input is represented by the concatenation embeddings of the heads, relations and tail embeddings. It is defined as:

\[f(h, r, t) = W_2 ReLU(W_1 cat(h, r, t) + b_1) + b_2\]

with hidden dimension \(y\), \(W_1 \in \mathcal{R}^{3d \times y}\), \(W_2\in \mathcal{R}^y\), and biases \(b_1 \in \mathcal{R}^y\) and \(b_2 \in \mathcal{R}\).

\(W_1\), \(W_1\), \(b_1\), and \(b_2\) are global parameters, meaning that they are trainable, but are neither attached to the entities nor relations. Unlike the \(p\) in TransE, these global trainable parameters are not considered hyper-parameters. However, like hyper-parameters, they can also be defined in the __init__ function of your pykeen.nn.modules.Interaction class. They are trained jointly with the entity and relation embeddings during training.

import torch.nn
from pykeen.nn.modules import Interaction
from pykeen.utils import broadcast_cat


class ERMLPInteraction(Interaction):
    def __init__(self, embedding_dim: int, hidden_dim: int):
        super().__init__()
        # The weights of this MLP will be learned.
        self.mlp = torch.nn.Sequential(
            torch.nn.Linear(in_features=3 * embedding_dim, out_features=hidden_dim, bias=True),
            torch.nn.ReLU(),
            torch.nn.Linear(in_features=hidden_dim, out_features=1, bias=True),
        )

    def forward(self, h, r, t):
        x = broadcast_cat([h, r, t], dim=-1)
        return self.mlp(x)

Note that pykeen.utils.broadcast_cat() was used instead of the standard torch.cat() because of the standardization of shapes of head, relation, and tail vectors.

See also

A reference implementation is provided in pykeen.nn.modules.ERMLPInteraction

Interactions with Different Shaped Vectors

The Structured Embedding uses a 2-tensor for representing each relation, with an interaction defined as:

\[f(h, r, t) = - \|\textbf{M}_{r}^{head} \textbf{e}_h - \textbf{M}_{r}^{tail} \textbf{e}_t\|_p\]

where \(\mathbf{e}_i\) is the \(d\)-dimensional representation for entity \(i\), \(\mathbf{M}^{head}_j\) is the \(d \times d\)-dimensional representation for relation \(j\) for head entities, \(\mathbf{M}^{tail}_j\) is the \(d \times d\)-dimensional representation for relation \(j\) for tail entities, and \(\|...\|_2\) is the \(L_p\) norm.

For the purposes of this tutorial, we will propose a simplification to Strucuterd Embedding (also similar to TransR) where the same relation 2-tensor is used to project both the head and tail entities as in:

\[f(h, r, t) = - \|\textbf{M}_{r} \textbf{e}_h - \textbf{M}_{r} \textbf{e}_t\|_2\]

where \(\mathbf{e}_i\) is the \(d\)-dimensional representation for entity \(i\), \(\mathbf{M}_j\) is the \(d \times d\)-dimensional representation for relation \(j\), and \(\|...\|_2\) is the \(L_2\) norm.

from pykeen.nn.modules import Interaction


class SimplifiedStructuredEmbeddingInteraction(Interaction):
    relation_shape = ("dd",)

    def forward(self, h, r, t):
        h_proj = r @ h.unsqueeze(dim=-1)
        t_proj = r @ t.unsqueeze(dim=-1)
        return -(h_proj - t_proj).squeeze(dim=-1).norm(p=2, dim=-1)

Note the definition of the relation_shape. By default, the entity_shape and relation_shape are both equal to ('d', ), which uses eigen-notation to show that they both are 1-tensors with the same shape. In this simplified version of Structured Embedding, we need to denote that the shape of the relation is \(d \times d\), so it’s written as dd.

See also

Reference implementations are provided in pykeen.nn.modules.StructuredEmbeddingInteraction and in pykeen.nn.modules.TransRInteraction.

Interactions with Multiple Representations

Sometimes, like in the canonical version of Structured Embedding, you need more than one representation for entities and/or relations. To specify this, you just need to extend the tuple for relation_shape with more entries, each corresponding to the sequence of representations.

from pykeen.nn.modules import Interaction


class StructuredEmbeddingInteraction(Interaction):
    relation_shape = (
        "dd",  # Corresponds to $\mathbf{M}^{head}_j$
        "dd",  # Corresponds to $\mathbf{M}^{tail}_j$
    )

    def forward(self, h, r, t):
        # Since the relation_shape is more than length 1, the r value is given as a sequence
        # of the representations defined there. You can use tuple unpacking to get them out
        r_h, r_t = r
        h_proj = r_h @ h.unsqueeze(dim=-1)
        t_proj = r_t @ t.unsqueeze(dim=-1)
        return -(h_proj - t_proj).squeeze(dim=-1).norm(p=2, dim=-1)

Interactions with Different Dimension Vectors

TransD is an example of an interaction module that not only uses two different representations for each entity and two representations for each relation, but they are of different dimensions.

It can be implemented by choosing a different letter for use in the entity_shape and/or relation_shape dictionary. Ultimately, the letters used are arbitrary, but you need to remember what they are when using the pykeen.models.make_model(), pykeen.models.make_model_cls(), or pykeen.pipeline.interaction_pipeline() functions to instantiate a model, make a model class, or run the pipeline using your custom interaction module (respectively).

from pykeen.nn.modules import Interaction
from pykeen.utils import project_entity


class TransDInteraction(Interaction):
    entity_shape = ("d", "d")
    relation_shape = ("e", "e")

    def forward(self, h, r, t):
        h, h_proj = h
        r, r_proj = r
        t, t_proj = t
        h_bot = project_entity(
            e=h,
            e_p=h_p,
            r_p=r_p,
        )
        t_bot = project_entity(
            e=t,
            e_p=t_p,
            r_p=r_p,
        )
        return -(h_bot + r - t_bot).norm(p=2, dim=-1)

Note

The pykeen.utils.project_entity() function was used in this implementation to reduce the complexity. So far, it’s the case that all of the models using multiple different representation dimensions are quite complicated and don’t fall into the paradigm of presenting simple examples.

See also

A reference implementation is provided in pykeen.nn.modules.TransDInteraction

Differences between pykeen.nn.modules.Interaction and pykeen.models.Model

The high-level pipeline() function allows you to pass pre-defined subclasses of pykeen.models.Model such as pykeen.models.TransE or pykeen.models.DistMult. These classes are high-level wrappers around the interaction functions pykeen.nn.modules.TransEInteraction and nn.modules.DistMultInteraction that are more suited for running benchmarking experiments or practical applications of knowledge graph embeddings that include lots of information about default hyper-parameters, recommended hyper-parameter optimization strategies, and more complex applications of regularization schemas.

As a researcher, the pykeen.nn.modules.Interaction is a way to quickly translate ideas into new models that can be used without all of the overhead of defining a pykeen.models.Model. These components are also completely reusable throughout PyKEEN (e.g., in self-rolled training loops) and can be used as standalone components outside of PyKEEN.

If you are happy with your interaction module and would like to go the next step to making it generally reusable, check the “Extending the Models” tutorial.

Ad hoc Models from Interactions

A pykeen.models.ERModel can be constructed from pykeen.nn.modules.Interaction.

The new style-class, pykeen.models.ERModel abstracts the interaction away from the representations such that different interactions can be used interchangably. A new model can be constructed directly from the interaction module, given a dimensions mapping. In each pykeen.nn.modules.Interaction, there is a field called entity_shape and relation_shape that allows for using eigen-notation for defining the different dimensions of the model. Most models share the d dimensionality for both the entity and relation vectors. Some (but not all) exceptions are:

With this in mind, you’ll have to investigate the dimensions of the vectors through the PyKEEN documentation. If you’re implementing your own, you have control over this and will know which dimensions to specify (though the d for both entities and relations is standard). As a shorthand for {'d': value}, you can directly pass value for the dimension and it will be automatically interpreted as the {'d': value}.

Make a model class from lookup of an interaction module class:

>>> from pykeen.nn.modules import TransEInteraction
>>> from pykeen.models import make_model_cls
>>> embedding_dim = 3
>>> model_cls = make_model_cls(
...     dimensions={"d": embedding_dim},
...     interaction='TransE',
...     interaction_kwargs={'p': 2},
... )

If there’s only one dimension in the entity_shapes and relation_shapes, it can be directly given as an integer as a shortcut.

>>> # Implicitly can also be written as:
>>> model_cls_alt = make_model_cls(
...     dimensions=embedding_dim,
...     interaciton='TransE',
...     interaction_kwargs={'p': 2},
... )

Make a model class from an interaction module class:

>>> from pykeen.nn.modules import TransEInteraction
>>> from pykeen.models import make_model_cls
>>> embedding_dim = 3
>>> model_cls = make_model_cls({"d": embedding_dim}, TransEInteraction, {'p': 2})

Make a model class from an instantiated interaction module:

>>> from pykeen.nn.modules import TransEInteraction
>>> from pykeen.models import make_model_cls
>>> embedding_dim = 3
>>> model_cls = make_model_cls({"d": embedding_dim}, TransEInteraction(p=2))

All of these model classes can be passed directly into the model argument of pykeen.pipeline.pipeline().

Interaction Pipeline

The pykeen.pipeline.pipeline() also allows passing of an interaction such that the following code block can be compressed:

from pykeen.pipeline import pipeline
from pykeen.nn.modules import TransEInteraction

model = make_model_cls(
    interaction=TransEInteraction,
    interaction_kwargs={"p": 2},
    dimensions={"d": 100},
)
results = pipeline(dataset="Nations", model=model, ...)

into:

from pykeen.pipeline import pipeline
from pykeen.nn.modules import TransEInteraction

results = pipeline(
    dataset="Nations", interaction=TransEInteraction, interaction_kwargs={"p": 2}, dimensions={"d": 100}, ...
)

This can be used with any subclass of the pykeen.nn.modules.Interaction, not only ones that are implemented in the PyKEEN package.