Export Data From Jdaviz to Notebook

Specific instructions on exporting data from Jdaviz to your notebook vary slightly for each instance of Jdaviz, including for Specviz, Cubeviz, Mosviz, and Imviz. In all instances, however, you can export data products from the Jdaviz into your notebook and, ultimately, save those variables locally.

Export Position Regions (Imviz)

In Imviz, you can extract positional regions:

regions = myviz.get_interactive_regions()
regions

Export Spectra

To export spectra currently loaded into the instance of your app back into your notebook do:

spectra = myviz.get_spectra()

which yields a specutils.Spectrum1D object that you can manipulate however you wish. You can then load the modified spectrum back into the notebook via the API described in Loading data via the API.

Alternatively, if you want more control over Specviz, you can access it the via the lower-level application interface that connects to the glue-jupyter application level. This is accessed via the .app attribute of the Specviz helper class. For more on what you can do with this lower-level object, see the API sections and the glue-jupyter documentation

For a list of available subsets to extract, you can type:

spectra = myviz.app.get_data_from_viewer('spectrum-viewer')
spectra

To extract data from you spectrum-viewer:

spectrum = myviz.app.get_data_from_viewer('spectrum-viewer','Subset 1')

Export Spectral Regions

If you have spectral region subsets, you can extract the parameters of these subsets as an Astropy spectral region. For a list of available spectral regions to extract, you can type:

regions = myviz.specviz.get_spectral_regions()
regions

To extract the spectral region you want:

myregion = regions["Subset 2"]

Export Data from Image Viewer

In Cubeviz, three image viewers display your data:

Top Left: flux-viewer

Center: uncert-viewer

Top Right: mask-viewer

If you have modified your data cube and have new data in one of your image viewers, you can extract it. To list the data available in a particular viewer:

data = myviz.app.get_data_from_viewer("uncert-viewer")
data

To extract the data you want:

mydata = myviz.app.get_data_from_viewer("uncert-viewer", "contents")

The data is returned as a glue-jupyter object. To convert to a numpy array:

mydata_flux = mydata["flux"]

Alternatively, you can wrap this all into a single command:

mydata = myviz.app.get_data_from_viewer("uncert-viewer", "contents[FLUX]")

Export Model and Model Parameters

After fitting a Data Analysis Plugins, you can extract the Astropy model and/or model parameters. For a list of models:

models = myviz.get_models()
models

To extract a specific model:

mymodel = myviz.get_model_parameters(model_label="ModelLabel", x=x, y=y)

where the model_label parameter identifies which model should be returned and the x and y parameters identify specifically which spaxel fits are to be returned, for models applied to every spaxel using the Apply to Cube button. Leaving x or y as None will mean that the models fit to every spaxel across that axis will be returned.

To extract the model parameters:

myparams = myviz.get_model_parameters(model_label="ModelLabel", x=x, y=y)

You can then access the model parameter values:

myparams['ModelLabel']['parameter']