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-rw-r--r--resources/tools/presentation/new/jumpavg/AbstractGroupClassifier.py7
-rw-r--r--resources/tools/presentation/new/jumpavg/AbstractGroupMetadata.py5
-rw-r--r--resources/tools/presentation/new/jumpavg/AvgStdevMetadata.py6
-rw-r--r--resources/tools/presentation/new/jumpavg/AvgStdevMetadataFactory.py2
-rw-r--r--resources/tools/presentation/new/jumpavg/BitCountingClassifier.py19
-rw-r--r--resources/tools/presentation/new/jumpavg/BitCountingGroup.py7
-rw-r--r--resources/tools/presentation/new/jumpavg/BitCountingGroupList.py35
-rw-r--r--resources/tools/presentation/new/jumpavg/BitCountingMetadata.py9
-rw-r--r--resources/tools/presentation/new/jumpavg/BitCountingMetadataFactory.py7
-rw-r--r--resources/tools/presentation/new/jumpavg/ClassifiedBitCountingMetadata.py7
-rw-r--r--resources/tools/presentation/new/jumpavg/ClassifiedMetadataFactory.py2
-rw-r--r--resources/tools/presentation/new/jumpavg/RunGroup.py8
-rw-r--r--resources/tools/presentation/new/utils.py4
13 files changed, 90 insertions, 28 deletions
diff --git a/resources/tools/presentation/new/jumpavg/AbstractGroupClassifier.py b/resources/tools/presentation/new/jumpavg/AbstractGroupClassifier.py
index 26db758ea8..2612b009da 100644
--- a/resources/tools/presentation/new/jumpavg/AbstractGroupClassifier.py
+++ b/resources/tools/presentation/new/jumpavg/AbstractGroupClassifier.py
@@ -11,10 +11,17 @@
# See the License for the specific language governing permissions and
# limitations under the License.
+"""Module holding AbstractGroupClassifier class."""
+
from abc import ABCMeta, abstractmethod
class AbstractGroupClassifier(object):
+ """Abstract class defining API for classifier.
+
+ The classifier is an object with classify() method
+ which divides data into groups containing metadata.
+ """
__metaclass__ = ABCMeta
diff --git a/resources/tools/presentation/new/jumpavg/AbstractGroupMetadata.py b/resources/tools/presentation/new/jumpavg/AbstractGroupMetadata.py
index 6084db5a1a..3235dbd485 100644
--- a/resources/tools/presentation/new/jumpavg/AbstractGroupMetadata.py
+++ b/resources/tools/presentation/new/jumpavg/AbstractGroupMetadata.py
@@ -11,10 +11,15 @@
# See the License for the specific language governing permissions and
# limitations under the License.
+"""Module holding AbstractGroupMetadata class."""
+
from abc import ABCMeta, abstractmethod
class AbstractGroupMetadata(object):
+ """Abstract classdefining API for metadata.
+
+ At this level, only __str__() and __repr() methods are required."""
__metaclass__ = ABCMeta
diff --git a/resources/tools/presentation/new/jumpavg/AvgStdevMetadata.py b/resources/tools/presentation/new/jumpavg/AvgStdevMetadata.py
index bd7eca1824..efc1a90cd4 100644
--- a/resources/tools/presentation/new/jumpavg/AvgStdevMetadata.py
+++ b/resources/tools/presentation/new/jumpavg/AvgStdevMetadata.py
@@ -11,8 +11,12 @@
# See the License for the specific language governing permissions and
# limitations under the License.
+"""Module for holding AvgStdevMetadata class."""
-class AvgStdevMetadata(object):
+from AbstractGroupMetadata import AbstractGroupMetadata
+
+
+class AvgStdevMetadata(AbstractGroupMetadata):
"""Class for metadata specifying the average and standard deviation."""
def __init__(self, size=0, avg=0.0, stdev=0.0):
diff --git a/resources/tools/presentation/new/jumpavg/AvgStdevMetadataFactory.py b/resources/tools/presentation/new/jumpavg/AvgStdevMetadataFactory.py
index d7d0517a57..6d2e967a88 100644
--- a/resources/tools/presentation/new/jumpavg/AvgStdevMetadataFactory.py
+++ b/resources/tools/presentation/new/jumpavg/AvgStdevMetadataFactory.py
@@ -11,6 +11,8 @@
# See the License for the specific language governing permissions and
# limitations under the License.
+"""Module holding AvgStdevMetadataFactory class."""
+
import math
from AvgStdevMetadata import AvgStdevMetadata
diff --git a/resources/tools/presentation/new/jumpavg/BitCountingClassifier.py b/resources/tools/presentation/new/jumpavg/BitCountingClassifier.py
index 69b1d65bb2..9a723199d2 100644
--- a/resources/tools/presentation/new/jumpavg/BitCountingClassifier.py
+++ b/resources/tools/presentation/new/jumpavg/BitCountingClassifier.py
@@ -11,24 +11,31 @@
# See the License for the specific language governing permissions and
# limitations under the License.
+"""Module holding BitCountingClassifier class.
+
+This is the main class to be used by callers."""
+
+from AbstractGroupClassifier import AbstractGroupClassifier
from BitCountingGroup import BitCountingGroup
from BitCountingGroupList import BitCountingGroupList
from BitCountingMetadataFactory import BitCountingMetadataFactory
from ClassifiedMetadataFactory import ClassifiedMetadataFactory
-class BitCountingClassifier(object):
+class BitCountingClassifier(AbstractGroupClassifier):
+ """Classifier using Minimal Description Length principle."""
- @staticmethod
- def classify(values):
+ def classify(self, values):
"""Return the values in groups of optimal bit count.
- TODO: Could we return BitCountingGroupList and let caller process it?
+ The current implementation could be a static method,
+ but we might support options in later versions,
+ for example for chosing encodings.
:param values: Sequence of runs to classify.
:type values: Iterable of float or of AvgStdevMetadata
:returns: Classified group list.
- :rtype: list of BitCountingGroup
+ :rtype: BitCountingGroupList
"""
max_value = BitCountingMetadataFactory.find_max_value(values)
factory = BitCountingMetadataFactory(max_value)
@@ -60,4 +67,4 @@ class BitCountingClassifier(object):
group.metadata = ClassifiedMetadataFactory.with_classification(
group.metadata, "progression")
previous_average = group.metadata.avg
- return partition.group_list
+ return partition
diff --git a/resources/tools/presentation/new/jumpavg/BitCountingGroup.py b/resources/tools/presentation/new/jumpavg/BitCountingGroup.py
index 144f5a8780..2071c061ea 100644
--- a/resources/tools/presentation/new/jumpavg/BitCountingGroup.py
+++ b/resources/tools/presentation/new/jumpavg/BitCountingGroup.py
@@ -11,10 +11,17 @@
# See the License for the specific language governing permissions and
# limitations under the License.
+"""Module holding BitCountingGroup class."""
+
from RunGroup import RunGroup
class BitCountingGroup(RunGroup):
+ """RunGroup with BitCountingMetadata.
+
+ Support with_run_added() method to simplify extending the group.
+ As bit content has to be re-counted, metadata factory is stored.
+ """
def __init__(self, metadata_factory, values=[]):
"""Create the group from metadata factory and values.
diff --git a/resources/tools/presentation/new/jumpavg/BitCountingGroupList.py b/resources/tools/presentation/new/jumpavg/BitCountingGroupList.py
index 7da0656782..1f69c0635d 100644
--- a/resources/tools/presentation/new/jumpavg/BitCountingGroupList.py
+++ b/resources/tools/presentation/new/jumpavg/BitCountingGroupList.py
@@ -11,11 +11,26 @@
# See the License for the specific language governing permissions and
# limitations under the License.
+"""Module holding BitCountingGroupList class."""
+
from BitCountingGroup import BitCountingGroup
from BitCountingMetadataFactory import BitCountingMetadataFactory
-class BitCountingGroupList(object):
+class BitCountingGroupList(list):
+ """List of BitCountingGroup which tracks overall bit count.
+
+ This is useful, as bit count of a subsequent group
+ depends on average of the previous group.
+ Having the logic encapsulated here spares the caller
+ the effort to pass averages around.
+
+ Method with_value_added_to_last_group() delegates to BitCountingGroup,
+ with_group_appended() adds new group with recalculated bits.
+
+ TODO: last_group.metadata_factory.max_value in with_group_appended()
+ is ugly, find a more natural class design.
+ """
def __init__(self, group_list=[], bits=None):
"""Create a group list from given list of groups.
@@ -25,7 +40,7 @@ class BitCountingGroupList(object):
:type group_list: list of BitCountingGroup
:type bits: float or None
"""
- self.group_list = group_list
+ super(BitCountingGroupList, self).__init__(group_list)
if bits is not None:
self.bits = bits
return
@@ -34,16 +49,6 @@ class BitCountingGroupList(object):
bits += group.metadata.bits
self.bits = bits
- def __getitem__(self, index):
- """Return group at the index. This makes self iterable.
-
- :param index: The position in the array of groups.
- :type index: int
- :returns: Group at the position.
- :rtype: BitCountingGroup
- """
- return self.group_list[index]
-
def with_group_appended(self, group):
"""Create and return new group list with given group more than self.
@@ -54,7 +59,7 @@ class BitCountingGroupList(object):
:returns: New group list with added group.
:rtype: BitCountingGroupList
"""
- group_list = list(self.group_list)
+ group_list = list(self)
if group_list:
last_group = group_list[-1]
factory = BitCountingMetadataFactory(
@@ -73,10 +78,10 @@ class BitCountingGroupList(object):
:returns: New group list with the last group updated.
:rtype: BitCountingGroupList
"""
- last_group = self.group_list[-1]
+ group_list = list(self)
+ last_group = group_list[-1]
bits_before = last_group.metadata.bits
last_group = last_group.with_run_added(value)
- group_list = list(self.group_list)
group_list[-1] = last_group
bits = self.bits - bits_before + last_group.metadata.bits
return BitCountingGroupList(group_list, bits)
diff --git a/resources/tools/presentation/new/jumpavg/BitCountingMetadata.py b/resources/tools/presentation/new/jumpavg/BitCountingMetadata.py
index 67d111985f..d25d355cab 100644
--- a/resources/tools/presentation/new/jumpavg/BitCountingMetadata.py
+++ b/resources/tools/presentation/new/jumpavg/BitCountingMetadata.py
@@ -11,13 +11,20 @@
# See the License for the specific language governing permissions and
# limitations under the License.
+"""Module holding BitCountingMetadata class."""
+
import math
from AvgStdevMetadata import AvgStdevMetadata
class BitCountingMetadata(AvgStdevMetadata):
- """Class for metadata which includes information content."""
+ """Class for metadata which includes information content of a group.
+
+ The information content is based on an assumption
+ that the data consists of independent random values
+ from a normal distribution.
+ """
def __init__(self, max_value, size=0, avg=0.0, stdev=0.0, prev_avg=None):
"""Construct the metadata by computing from the values needed.
diff --git a/resources/tools/presentation/new/jumpavg/BitCountingMetadataFactory.py b/resources/tools/presentation/new/jumpavg/BitCountingMetadataFactory.py
index 5a7b393b55..567c3d4fe6 100644
--- a/resources/tools/presentation/new/jumpavg/BitCountingMetadataFactory.py
+++ b/resources/tools/presentation/new/jumpavg/BitCountingMetadataFactory.py
@@ -11,6 +11,8 @@
# See the License for the specific language governing permissions and
# limitations under the License.
+"""Module holding BitCountingMetadataFactory class."""
+
import math
from AvgStdevMetadata import AvgStdevMetadata
@@ -19,7 +21,10 @@ from BitCountingMetadata import BitCountingMetadata
class BitCountingMetadataFactory(object):
- """Class for factory which creates bit counting metadata from data."""
+ """Class for factory which creates bit counting metadata from data.
+
+ TODO: Summarize the methods?
+ """
@staticmethod
def find_max_value(values):
diff --git a/resources/tools/presentation/new/jumpavg/ClassifiedBitCountingMetadata.py b/resources/tools/presentation/new/jumpavg/ClassifiedBitCountingMetadata.py
index 9a7277bc3e..29359f0908 100644
--- a/resources/tools/presentation/new/jumpavg/ClassifiedBitCountingMetadata.py
+++ b/resources/tools/presentation/new/jumpavg/ClassifiedBitCountingMetadata.py
@@ -11,11 +11,16 @@
# See the License for the specific language governing permissions and
# limitations under the License.
+"""Module holding ClassifiedBitCountingMetadata class."""
+
from BitCountingMetadata import BitCountingMetadata
class ClassifiedBitCountingMetadata(BitCountingMetadata):
- """Class for metadata which includes classification."""
+ """Class for metadata which includes classification.
+
+ TODO: Can we create ClassifiedMetadata and inherit (also) from that?
+ """
def __init__(
self, max_value, size=0, avg=0.0, stdev=0.0, prev_avg=None,
diff --git a/resources/tools/presentation/new/jumpavg/ClassifiedMetadataFactory.py b/resources/tools/presentation/new/jumpavg/ClassifiedMetadataFactory.py
index 39b157f26b..7fdea7c162 100644
--- a/resources/tools/presentation/new/jumpavg/ClassifiedMetadataFactory.py
+++ b/resources/tools/presentation/new/jumpavg/ClassifiedMetadataFactory.py
@@ -11,7 +11,7 @@
# See the License for the specific language governing permissions and
# limitations under the License.
-import math
+"""Module holding ClassifiedBitCountingMetadata class."""
from ClassifiedBitCountingMetadata import ClassifiedBitCountingMetadata
diff --git a/resources/tools/presentation/new/jumpavg/RunGroup.py b/resources/tools/presentation/new/jumpavg/RunGroup.py
index 808e02b792..9de8ae8919 100644
--- a/resources/tools/presentation/new/jumpavg/RunGroup.py
+++ b/resources/tools/presentation/new/jumpavg/RunGroup.py
@@ -11,8 +11,16 @@
# See the License for the specific language governing permissions and
# limitations under the License.
+"""Module holding RunGroup class."""
+
class RunGroup(object):
+ """Effectively a named touple of data and metadata.
+
+ TODO: This feels like an abstract class.
+ Most uses assume restrictions on metadata type.
+ Can this be defined similarly to C++ templates?
+ """
def __init__(self, metadata, values):
"""Create the group from metadata and values.
diff --git a/resources/tools/presentation/new/utils.py b/resources/tools/presentation/new/utils.py
index a688928cda..a4e24663b5 100644
--- a/resources/tools/presentation/new/utils.py
+++ b/resources/tools/presentation/new/utils.py
@@ -225,7 +225,7 @@ def classify_anomalies(data):
bare_data = [0.0 if np.isnan(sample) else sample
for _, sample in data.iteritems()]
# TODO: Put analogous iterator into jumpavg library.
- groups = BitCountingClassifier.classify(bare_data)
+ groups = BitCountingClassifier().classify(bare_data)
groups.reverse() # Just to use .pop() for FIFO.
classification = []
avgs = []
@@ -239,7 +239,7 @@ def classify_anomalies(data):
continue
if values_left < 1 or active_group is None:
values_left = 0
- while values_left < 1: # To ignore empty groups.
+ while values_left < 1: # Ignore empty groups (should not happen).
active_group = groups.pop()
values_left = len(active_group.values)
avg = active_group.metadata.avg