mvpa2.algorithms.hyperalignment.ChainMapper

class mvpa2.algorithms.hyperalignment.ChainMapper(nodes, **kwargs)

Class that amends ChainNode with a mapper-like interface.

ChainMapper supports sequential training of a mapper chain, as well as reverse-mapping and mapping of single samples.

Notes

Available conditional attributes:

• calling_time+: Time (in seconds) it took to call the node
• raw_results: Computed results before invoking postproc. Stored only if postproc is not None.
• trained_dataset: The dataset it has been trained on
• trained_nsamples+: Number of samples it has been trained on
• trained_targets+: Set of unique targets (or any other space) it has been trained on (if present in the dataset trained on)
• training_time+: Time (in seconds) it took to train the learner

(Conditional attributes enabled by default suffixed with +)

Attributes

descr	Description of the object if any
nodes
pass_attr	Which attributes of the dataset or self.ca to pass into result dataset upon call
postproc	Node to perform post-processing of results
space	Processing space name of this node

Methods

__call__(ds[, _call_kwargs])	The default implementation calls _precall(), _call(), and finally returns the output of _postcall().
append(node)	Append a node to the chain.
forward(ds)
forward1(data)	Forward data or datasets through the chain.
generate(ds[, startnode])	Parameters:
get_postproc()	Returns the post-processing node or None.
get_space()	Query the processing space name of this node.
reset()
reverse(data)	Reverse-maps data or datasets through the chain (backwards).
reverse1(data)	Reverse-maps data or datasets through the chain (backwards).
set_postproc(node)	Assigns a post-processing node
set_space(name)	Set the processing space name of this node.
train(dataset)	Train the mapper chain sequentially.
untrain()	Untrain all embedded mappers.

Parameters:

nodes: list

Node instances.

enable_ca : None or list of str

Names of the conditional attributes which should be enabled in addition to the default ones

disable_ca : None or list of str

Names of the conditional attributes which should be disabled

space : str, optional

Name of the ‘processing space’. The actual meaning of this argument heavily depends on the sub-class implementation. In general, this is a trigger that tells the node to compute and store information about the input data that is “interesting” in the context of the corresponding processing in the output dataset.

pass_attr : str, list of str|tuple, optional

Additional attributes to pass on to an output dataset. Attributes can be taken from all three attribute collections of an input dataset (sa, fa, a – see Dataset.get_attr()), or from the collection of conditional attributes (ca) of a node instance. Corresponding collection name prefixes should be used to identify attributes, e.g. ‘ca.null_prob’ for the conditional attribute ‘null_prob’, or ‘fa.stats’ for the feature attribute stats. In addition to a plain attribute identifier it is possible to use a tuple to trigger more complex operations. The first tuple element is the attribute identifier, as described before. The second element is the name of the target attribute collection (sa, fa, or a). The third element is the axis number of a multidimensional array that shall be swapped with the current first axis. The fourth element is a new name that shall be used for an attribute in the output dataset. Example: (‘ca.null_prob’, ‘fa’, 1, ‘pvalues’) will take the conditional attribute ‘null_prob’ and store it as a feature attribute ‘pvalues’, while swapping the first and second axes. Simplified instructions can be given by leaving out consecutive tuple elements starting from the end.

postproc : Node instance, optional

Node to perform post-processing of results. This node is applied in __call__() to perform a final processing step on the to be result dataset. If None, nothing is done.

descr : str

Description of the instance

Attributes

descr	Description of the object if any
nodes
pass_attr	Which attributes of the dataset or self.ca to pass into result dataset upon call
postproc	Node to perform post-processing of results
space	Processing space name of this node

Methods

__call__(ds[, _call_kwargs])	The default implementation calls _precall(), _call(), and finally returns the output of _postcall().
append(node)	Append a node to the chain.
forward(ds)
forward1(data)	Forward data or datasets through the chain.
generate(ds[, startnode])	Parameters:
get_postproc()	Returns the post-processing node or None.
get_space()	Query the processing space name of this node.
reset()
reverse(data)	Reverse-maps data or datasets through the chain (backwards).
reverse1(data)	Reverse-maps data or datasets through the chain (backwards).
set_postproc(node)	Assigns a post-processing node
set_space(name)	Set the processing space name of this node.
train(dataset)	Train the mapper chain sequentially.
untrain()	Untrain all embedded mappers.

forward(ds)

forward1(data)

Forward data or datasets through the chain.

See Mapper for more information.

reverse(data)

Reverse-maps data or datasets through the chain (backwards).

See Mapper for more information.

reverse1(data)

Reverse-maps data or datasets through the chain (backwards).

See Mapper for more information.

train(dataset)

Train the mapper chain sequentially.

The training dataset is used to train the first mapper. Afterwards it is forward-mapped by this (now trained) mapper and the transformed dataset and then used to train the next mapper. This procedure is done till all mappers are trained.

Parameters:dataset: `Dataset`

untrain()

Untrain all embedded mappers.