def _repr(obj, *args, **kwargs):
"""Helper to get a structured __repr__ for all objects.
Parameters
----------
obj : object
This will typically be `self` of the to be documented object.
*args, **kwargs : str
An arbitrary number of additional items. All of them must be of type
`str`. All items will be appended comma separated to the class name.
Keyword arguments will be appended as `key`=`value.
Returns
-------
str
"""
cls_name = obj.__class__.__name__
truncate = cfg.get_as_dtype('verbose', 'truncate repr', int, default=200)
# -5 to take (...) into account
max_length = truncate - 5 - len(cls_name)
if max_length < 0:
max_length = 0
auto_repr = ', '.join(list(args)
+ ["%s=%s" % (k, v) for k, v in kwargs.iteritems()])
print max_length
if not truncate is None and len(auto_repr) > max_length:
auto_repr = auto_repr[:max_length] + '...'
# finally wrap in <> and return
# + instead of '%s' for bits of speedup
return "%s(%s)" % (cls_name, auto_repr)
def __check_rpy2():
"""Check either rpy2 is available and also set it for the sane execution
"""
import rpy2
versions['rpy2'] = SmartVersion(rpy2.__version__)
import rpy2.robjects
r = rpy2.robjects.r
r.options(warn=cfg.get_as_dtype('rpy', 'warn', dtype=int, default=-1))
# To shut R up while it is importing libraries to do not ruin out
# doctests
r.library = lambda libname: \
r("suppressPackageStartupMessages(library(%r))" % libname)
def __check_rpy2():
"""Check either rpy2 is available and also set it for the sane execution
"""
import rpy2
versions['rpy2'] = rpy2.__version__
import rpy2.robjects
r = rpy2.robjects.r
r.options(warn=cfg.get_as_dtype('rpy', 'warn', dtype=int, default=-1))
# To shut R up while it is importing libraries to do not ruin out
# doctests
r.library = lambda libname: \
r("suppressPackageStartupMessages(library(%r))" % libname)
def _str(obj, *args, **kwargs):
"""Helper to get a structured __str__ for all objects.
If an object has a `descr` attribute, its content will be used instead of
an auto-generated description.
Optional additional information might be added under certain debugging
conditions (e.g. `id(obj)`).
Parameters
----------
obj : object
This will typically be `self` of the to be documented object.
*args, **kwargs : str
An arbitrary number of additional items. All of them must be of type
`str`. All items will be appended comma separated to the class name.
Keyword arguments will be appended as `key`=`value.
Returns
-------
str
"""
truncate = cfg.get_as_dtype('verbose', 'truncate str', int, default=200)
s = None
if hasattr(obj, 'descr'):
s = obj.descr
if s is None:
s = obj.__class__.__name__
auto_descr = ', '.join(list(args)
+ ["%s=%s" % (k, v) for k, v in kwargs.iteritems()])
if len(auto_descr):
s = s + ': ' + auto_descr
if not truncate is None and len(s) > truncate - 5:
# -5 to take <...> into account
s = s[:truncate-5] + '...'
if __debug__ and 'DS_ID' in debug.active:
# in case there was nothing but the class name
if len(s):
if s[-1]:
s += ','
s += ' '
s += 'id=%i' % id(obj)
# finally wrap in <> and return
# + instead of '%s' for bits of speedup
return '<' + s + '>'
def _str(obj, *args, **kwargs):
"""Helper to get a structured __str__ for all objects.
If an object has a `descr` attribute, its content will be used instead of
an auto-generated description.
Optional additional information might be added under certain debugging
conditions (e.g. `id(obj)`).
Parameters
----------
obj : object
This will typically be `self` of the to be documented object.
*args, **kwargs : str
An arbitrary number of additional items. All of them must be of type
`str`. All items will be appended comma separated to the class name.
Keyword arguments will be appended as `key`=`value.
Returns
-------
str
"""
truncate = cfg.get_as_dtype('verbose', 'truncate str', int, default=200)
s = None
if hasattr(obj, 'descr'):
s = obj.descr
if s is None:
s = obj.__class__.__name__
auto_descr = ', '.join(
list(args) + ["%s=%s" % (k, v) for k, v in kwargs.iteritems()])
if len(auto_descr):
s = s + ': ' + auto_descr
if not truncate is None and len(s) > truncate - 5:
# -5 to take <...> into account
s = s[:truncate - 5] + '...'
if __debug__ and 'DS_ID' in debug.active:
# in case there was nothing but the class name
if len(s):
if s[-1]:
s += ','
s += ' '
s += 'id=%i' % id(obj)
# finally wrap in <> and return
# + instead of '%s' for bits of speedup
return '<' + s + '>'
import sys
import numpy as np
from mvpa import cfg, externals
from mvpa.datasets.base import Dataset, HollowSamples
from mvpa.generators.partition import OddEvenPartitioner
from mvpa.misc.data_generators import *
from mvpa.testing.tools import reseed_rng
__all__ = [ 'datasets', 'get_random_rotation', 'saveload_warehouse',
'pure_multivariate_signal']
# Define datasets to be used all over. Split-half later on is used to
# split into training/testing
#
snr_scale = cfg.get_as_dtype('tests', 'snr scale', float, default=1.0)
specs = {'large' : { 'perlabel': 99, 'nchunks': 11,
'nfeatures': 20, 'snr': 8 * snr_scale},
'medium' :{ 'perlabel': 24, 'nchunks': 6,
'nfeatures': 14, 'snr': 8 * snr_scale},
'small' : { 'perlabel': 12, 'nchunks': 4,
'nfeatures': 6, 'snr' : 14 * snr_scale} }
# to assure reproducibility -- lets reseed the RNG at this point
@reseed_rng()
def generate_testing_datasets(specs):
# Lets permute upon each invocation of test, so we could possibly
# trigger some funny cases
nonbogus_pool = np.random.permutation([0, 1, 3, 5])
import numpy as np
from mvpa import cfg, externals
from mvpa.datasets import Dataset
from mvpa.datasets.splitters import OddEvenSplitter
from mvpa.misc.data_generators import *
__all__ = [
'datasets', 'get_random_rotation', 'saveload_warehouse',
'pure_multivariate_signal'
]
# Define datasets to be used all over. Split-half later on is used to
# split into training/testing
#
snr_scale = cfg.get_as_dtype('tests', 'snr scale', float, default=1.0)
specs = {
'large': {
'perlabel': 99,
'nchunks': 11,
'nfeatures': 20,
'snr': 8 * snr_scale
},
'medium': {
'perlabel': 24,
'nchunks': 6,
'nfeatures': 14,
'snr': 8 * snr_scale
},
'small': {
