..
   Artemis document is copyright 2016 Bruce Ravel and released under
   The Creative Commons Attribution-ShareAlike License
   http://creativecommons.org/licenses/by-sa/3.0/

The plot window
===============

..
   .. _fig-plotwindow:

   .. figure:: ../../_images/plot.png
      :target: ../_images/plot.png
      :align: center

.. plotwindow::

The second window that appears when :demeter:`artemis`
starts is the Plot window. An overview of the functionality of this
window will be presented here, but the full picture of how plots are
made in :demeter:`artemis` will have to wait until the Data and Path
windows are explained.

At the top of the Plot window is a row of three buttons used to make
plots in k, R, or q space. These plots will be made using the contents
of the :guilabel:`Plotting list` near the bottom of the Plot
window. The plotting list gets populated with data, paths, and other
plottable items. The details of how the plotting list gets populated
will be discussed later in the document.

Beneath that is a set of radio buttons for setting the k-weighting to
be used in many of the kinds of plots that :demeter:`artemis` makes,
including those made when pressing the buttons above. Note that these
k-weight values are *only* used for making plots. The k-weight values
used to evaluate fits are set in the Data window. The :guilabel:`kw`
option uses the arbitrary (possibly non-integer) k-weighting value
specified in the Data window.

Beneath the k-weight buttons is a set of tabs used to control
different aspects of plots. The :guilabel:`limits` tab provides
controls for the most commonly used plotting options.

- Because we use a complex Fourier transform, |chi| (R) and |chi| (q)
  are complex functions. The two sets of radio buttons at the top of
  the limits tab are used to specify how |chi| (R) and |chi| (q) are
  displayed. Because a typical plot in :demeter:`artemis` involves
  many traces, :demeter:`artemis` does not allow over-plotting of the
  various parts of the complex functions in the manner of
  :demeter:`athena`.

- Beneath the |chi| (R) and |chi| (q) radio buttons are a set of check
  buttons used to display additional functions related to the
  data. These are:

    **Fit**
       When checked, whenever the data is plotted, the most recent fit
       will be plotted.
    **Background**
       When checked, the background function will be plotted, but only
       if it was refined in the most recent fit.
    **Window**
       When checked the window function will be plotted over the data.
       The window will be scaled appropriately for the current k-weight
       value. When plotting in q, the k-space window will be used.
    **Residual**
       When checked, the difference between the data and the fit will be
       plotted.
    **Running R-factor**
       When checked, a running sum of the residual will be plotted,
       providing another way of visualizing the misfit.

- The last thing on the limits tab is a series of text entry boxes for
  setting the plotting range in each of the three spaces.

The other tabs will explained in `the plotting chapter
<../plot/index.html>`__.

The last item on the Plot window is a button labeled :button:`Save
next plot to a file,light`. When depressed, the next plot made will
write a column data file with columns representing the traces as they
would have been plotted. The plot will not be shown on the screen. The
purpose of this file is to reproduce a plot from :demeter:`artemis` as
closely as possible using some other plotting program.