mvpa2.generators.base.Node

class mvpa2.generators.base.Node(space=None, pass_attr=None, postproc=None, **kwargs)

Common processing object.

A Node is an object the processes datasets. It can be called with a Dataset and returns another dataset with the results. In addition, a node can also be used as a generator. Upon calling generate() with a datasets it yields (potentially) multiple result datasets.

Node have a notion of space. The meaning of this space may vary heavily across sub-classes. 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.

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.

(Conditional attributes enabled by default suffixed with +)

Attributes

descr	Description of the object if any
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().
generate(ds)	Yield processing results.
get_postproc()	Returns the post-processing node or None.
get_space()	Query the processing space name of this node.
reset()
set_postproc(node)	Assigns a post-processing node
set_space(name)	Set the processing space name of this node.

Parameters:

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.

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

descr : str

Description of the instance

Attributes

descr	Description of the object if any
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().
generate(ds)	Yield processing results.
get_postproc()	Returns the post-processing node or None.
get_space()	Query the processing space name of this node.
reset()
set_postproc(node)	Assigns a post-processing node
set_space(name)	Set the processing space name of this node.

generate(ds)

Yield processing results.

This methods causes the node to behave like a generator. By default it simply yields a single result of its processing – identical to the output of calling the node with a dataset. Subclasses might implement generators that yield multiple results.

Parameters:

ds: Dataset

Input dataset

Returns:

generator

the generator yields the result of the processing.

get_postproc()

Returns the post-processing node or None.

get_space()

Query the processing space name of this node.

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

set_postproc(node)

Assigns a post-processing node

Set to None to disable postprocessing.

set_space(name)

Set the processing space name of this node.

space

Processing space name of this node