import numpy as np
from jdaviz.core.helpers import ConfigHelper
from jdaviz.configs.default.plugins.line_lists.line_list_mixin import LineListMixin
from jdaviz.configs.specviz import Specviz
from jdaviz.core.events import (AddDataMessage,
SliceSelectWavelengthMessage,
SliceSelectSliceMessage)
__all__ = ['Cubeviz', 'CubeViz']
[docs]class Cubeviz(ConfigHelper, LineListMixin):
"""Cubeviz Helper class"""
_default_configuration = 'cubeviz'
def __init__(self, *args, **kwargs):
super().__init__(*args, **kwargs)
self.app.hub.subscribe(self, SliceSelectWavelengthMessage,
handler=self.select_wavelength)
self.app.hub.subscribe(self, AddDataMessage,
handler=self._set_spectrum_x_axis)
def _set_spectrum_x_axis(self, msg):
if msg.viewer_id != "cubeviz-3":
return
viewer = self.app.get_viewer("spectrum-viewer")
ref_data = viewer.state.reference_data
if ref_data and ref_data.ndim == 3:
for att_name in ["Wave", "Wavelength", "Freq", "Frequency",
"Wavenumber", "Velocity", "Energy"]:
if att_name in ref_data.component_ids():
if viewer.state.x_att != ref_data.id[att_name]:
viewer.state.x_att = ref_data.id[att_name]
viewer.state.reset_limits()
break
else:
viewer.state.x_att_pixel = ref_data.id["Pixel Axis 2 [x]"]
[docs] def select_slice(self, slice):
"""
Select a slice by index.
Parameters
----------
slice : int
Slice integer to select
"""
if not isinstance(slice, int):
raise TypeError("slice must be an integer")
if slice < 0:
raise ValueError("slice must be positive")
msg = SliceSelectSliceMessage(slice=slice, sender=self)
self.app.hub.broadcast(msg)
[docs] def select_wavelength(self, wavelength):
"""
Select the slice closest to the provided wavelength.
Parameters
----------
wavelength : float
Wavelength to select in units of the x-axis of the spectrum. The nearest slice will
be selected.
"""
if isinstance(wavelength, SliceSelectWavelengthMessage):
# SliceSelectWavelengthMessage is broadcasted by the spectrum-viewer slice tool
wavelength = float(wavelength.wavelength)
if not isinstance(wavelength, (int, float)):
raise TypeError("wavelength must be a float or int")
x_all = self.app.get_viewer('spectrum-viewer').data()[0].spectral_axis.value
index = np.argmin(abs(x_all - wavelength))
return self.select_slice(int(index))
@property
def specviz(self):
"""
A specviz helper (`~jdaviz.configs.specviz.helper.Specviz`) for the Jdaviz
application that is wrapped by cubeviz
"""
if not hasattr(self, '_specviz'):
self._specviz = Specviz(app=self.app)
return self._specviz
# TODO: Officially deprecate this with coordination with JDAT notebooks team.
# For backward compatibility only.
[docs]class CubeViz(Cubeviz):
"""This class is pending deprecation. Please use `Cubeviz` instead."""
pass