from __future__ import absolute_import
import warnings
from ..core.properties import abstract
from ..core.properties import (Any, Int, String, Instance, List, Dict, Bool, Enum,
JSON, Seq, ColumnData)
from ..model import Model
from ..util.dependencies import import_optional
from ..util.deprecation import deprecated
from ..util.warnings import BokehUserWarning
from .callbacks import Callback
pd = import_optional('pandas')
@abstract
[docs]class DataSource(Model):
""" A base class for data source types. ``DataSource`` is
not generally useful to instantiate on its own.
"""
selected = Dict(String, Dict(String, Any), default={
'0d': {'glyph': None, 'indices': []},
'1d': {'indices': []},
'2d': {}
}, help="""
A dict to indicate selected indices on different dimensions on this DataSource. Keys are:
- 0d: indicates whether a Line or Patch glyphs have been hit. Value is a
dict with the following keys:
- flag (boolean): true if glyph was with false otherwise
- indices (list): indices hit (if applicable)
- 1d: indicates whether any of all other glyph (except [multi]line or
patches) was hit:
- indices (list): indices that were hit/selected
- 2d: indicates whether a [multi]line or patches) were hit:
- indices (list(list)): indices of the lines/patches that were
hit/selected
""")
callback = Instance(Callback, help="""
A callback to run in the browser whenever the selection is changed.
""")
@abstract
[docs]class ColumnarDataSource(DataSource):
""" A baseclass for data source types, which can be mapped onto
a columnar format. Not useful to instantiate on its own.
"""
column_names = List(String, help="""
An list of names for all the columns in this DataSource.
""")
[docs]class ColumnDataSource(ColumnarDataSource):
""" Maps names of columns to sequences or arrays.
If the ColumnDataSource initializer is called with a single argument that
is a dict or pandas.DataFrame, that argument is used as the value for the
"data" attribute. For example::
ColumnDataSource(mydict) # same as ColumnDataSource(data=mydict)
ColumnDataSource(df) # same as ColumnDataSource(data=df)
.. note::
There is an implicit assumption that all the columns in a
a given ColumnDataSource have the same length.
"""
data = ColumnData(String, Seq(Any), help="""
Mapping of column names to sequences of data. The data can be, e.g,
Python lists or tuples, NumPy arrays, etc.
""").asserts(lambda _, data: len(set(len(x) for x in data.values())) <= 1,
lambda: warnings.warn("ColumnDataSource's columns must be of the same length", BokehUserWarning))
def __init__(self, *args, **kw):
""" If called with a single argument that is a dict or
pandas.DataFrame, treat that implicitly as the "data" attribute.
"""
if len(args) == 1 and "data" not in kw:
kw["data"] = args[0]
# TODO (bev) invalid to pass args and "data", check and raise exception
raw_data = kw.pop("data", {})
if not isinstance(raw_data, dict):
if pd and isinstance(raw_data, pd.DataFrame):
raw_data = self._data_from_df(raw_data)
else:
raise ValueError("expected a dict or pandas.DataFrame, got %s" % raw_data)
super(ColumnDataSource, self).__init__(**kw)
for name, data in raw_data.items():
self.add(data, name)
@staticmethod
def _data_from_df(df):
""" Create a ``dict`` of columns from a Pandas DataFrame,
suitable for creating a ColumnDataSource.
Args:
df (DataFrame) : data to convert
Returns:
dict(str, list)
"""
index = df.index
new_data = {}
for colname in df:
new_data[colname] = df[colname].tolist()
if index.name:
new_data[index.name] = index.tolist()
elif index.names and not all([x is None for x in index.names]):
new_data["_".join(index.names)] = index.tolist()
else:
new_data["index"] = index.tolist()
return new_data
@classmethod
[docs] def from_df(cls, data):
""" Create a ``dict`` of columns from a Pandas DataFrame,
suitable for creating a ColumnDataSource.
Args:
data (DataFrame) : data to convert
Returns:
dict(str, list)
"""
return cls._data_from_df(data)
[docs] def to_df(self):
""" Convert this data source to pandas dataframe.
If ``column_names`` is set, use those. Otherwise let Pandas
infer the column names. The ``column_names`` property can be
used both to order and filter the columns.
Returns:
DataFrame
"""
if not pd:
raise RuntimeError('Pandas must be installed to convert to a Pandas Dataframe')
if self.column_names:
return pd.DataFrame(self.data, columns=self.column_names)
else:
return pd.DataFrame(self.data)
[docs] def add(self, data, name=None):
""" Appends a new column of data to the data source.
Args:
data (seq) : new data to add
name (str, optional) : column name to use.
If not supplied, generate a name of the form "Series ####"
Returns:
str: the column name used
"""
if name is None:
n = len(self.data)
while "Series %d"%n in self.data:
n += 1
name = "Series %d"%n
self.column_names.append(name)
self.data[name] = data
return name
[docs] def remove(self, name):
""" Remove a column of data.
Args:
name (str) : name of the column to remove
Returns:
None
.. note::
If the column name does not exist, a warning is issued.
"""
try:
self.column_names.remove(name)
del self.data[name]
except (ValueError, KeyError):
import warnings
warnings.warn("Unable to find column '%s' in data source" % name)
[docs] def push_notebook(self):
""" Update a data source for a plot in a Jupyter notebook.
This function can be be used to update data in plot data sources
in the Jupyter notebook, without having to use the Bokeh server.
.. warning::
This function has been deprecated. Please use
``bokeh.io.push_notebook()`` which will push all changes
(not just data sources) to the last shown plot in a Jupyter
notebook.
Returns:
None
"""
deprecated((0, 11, 0), 'ColumnDataSource.push_notebook()', 'bokeh.io.push_notebook()')
from bokeh.io import push_notebook
push_notebook()
[docs] def stream(self, new_data, rollover=None, setter=None):
''' Efficiently update data source columns with new append-only data.
In cases where it is necessary to update data columns in, this method
can efficiently send only the new data, instead of requiring the
entire data set to be re-sent.
Args:
new_data (dict[str, seq]) : a mapping of column names to sequences of
new data to append to each column.
All columns of the data source must be present in ``new_data``,
with identical-length append data.
rollover (int, optional) : A maximum column size, above which data
from the start of the column begins to be discarded. If None,
then columns will continue to grow unbounded (default: None)
Returns:
None
Raises:
ValueError
Example:
.. code-block:: python
source = ColumnDataSource(data=dict(foo=[], bar=[]))
# has new, identical-length updates for all columns in source
new_data = {
'foo' : [10, 20],
'bar' : [100, 200],
}
source.stream(new_data)
'''
import numpy as np
newkeys = set(new_data.keys())
oldkeys = set(self.data.keys())
if newkeys != oldkeys:
missing = oldkeys - newkeys
extra = newkeys - oldkeys
if missing and extra:
raise ValueError(
"Must stream updates to all existing columns (missing: %s, extra: %s)" % (", ".join(sorted(missing)), ", ".join(sorted(extra)))
)
elif missing:
raise ValueError("Must stream updates to all existing columns (missing: %s)" % ", ".join(sorted(missing)))
else:
raise ValueError("Must stream updates to all existing columns (extra: %s)" % ", ".join(sorted(extra)))
lengths = set()
for x in new_data.values():
if isinstance(x, np.ndarray):
if len(x.shape) != 1:
raise ValueError("stream(...) only supports 1d sequences, got ndarray with size %r" % (x.shape,))
lengths.add(x.shape[0])
else:
lengths.add(len(x))
if len(lengths) > 1:
raise ValueError("All streaming column updates must be the same length")
self.data._stream(self.document, self, new_data, rollover, setter)
[docs] def patch(self, patches, setter=None):
''' Efficiently update data source columns at specific locations
If it is only necessary to update a small subset of data in a
ColumnDataSource, this method can be used to efficiently update only
the subset, instead of requiring the entire data set to be sent.
This method should be passed a dictionary that maps column names to
lists of tuples, each of the form ``(index, new_value)``. The value
at the given index for that column will be updated with the new value.
Args:
patches (dict[str, list[tuple]]) : lists of patches for each column.
Returns:
None
Raises:
ValueError
Example:
.. code-block:: python
source = ColumnDataSource(data=dict(foo=[10, 20], bar=[100, 200]))
patches = {
'foo' : [ (0, 1) ],
'bar' : [ (0, 101), (1, 201) ],
}
source.patch(patches)
'''
extra = set(patches.keys()) - set(self.data.keys())
if extra:
raise ValueError("Can only patch existing columns (extra: %s)" % ", ".join(sorted(extra)))
for name, patch in patches.items():
max_ind = max(x[0] for x in patch)
if max_ind >= len(self.data[name]):
raise ValueError("Out-of bounds index (%d) in patch for column: %s" % (max_ind, name))
self.data._patch(self.document, self, patches, setter)
[docs]class GeoJSONDataSource(ColumnarDataSource):
geojson = JSON(help="""
GeoJSON that contains features for plotting. Currently GeoJSONDataSource can
only process a FeatureCollection or GeometryCollection.
""")
@abstract
[docs]class RemoteSource(ColumnDataSource):
data_url = String(help="""
The URL to the endpoint for the data.
""")
polling_interval = Int(help="""
polling interval for updating data source in milliseconds
""")
[docs]class AjaxDataSource(RemoteSource):
method = Enum('POST', 'GET', help="http method - GET or POST")
mode = Enum("replace", "append", help="""
Whether to append new data to existing data (up to ``max_size``),
or to replace existing data entirely.
""")
max_size = Int(help="""
Maximum size of the data array being kept after each pull requests.
Larger than that size, the data will be right shifted.
""")
if_modified = Bool(False, help="""
Whether to include an ``If-Modified-Since`` header in AJAX requests
to the server. If this header is supported by the server, then only
new data since the last request will be returned.
""")
content_type = String(default='application/json', help="""
Set the "contentType" parameter for the Ajax request.
""")
http_headers = Dict(String, String, help="""
HTTP headers to set for the Ajax request.
""")
