pyicon_plotting.py and pyicon_quickplots.py: Allowing contour lines being overlaid of plots by using argument conts in plotting functions.

Notebooks: Renaming notebooks/test_arrange_axes.ipynb -> notebooks/examp_arrange_axes.ipynb. Listing all three %matplotlib XXX options in first cell.

quickplots/qp_driver.py: Added matplotlib.use('Agg') to make batch jobs possible. Added new figures: fig_names += ['atm_temp_zave', 'atm_u_zave', 'atm_v_zave', 'atm_rel_hum_zave'] and fig_names += ['atm_cloud_cover_zave', 'atm_cloud_water_zave', 'atm_cloud_ice_zave', 'atm_cloud_water_ice_zave']

pyicon_plotting.py: new vertaxtype variable to decide whether to use ocean or atmosphere vertical axes. New implementation of minor xticks.

  * New plots: ssh_variance, ke_100m, ke_2000m, atm_meridional_wind_stress
  * commented out plt.close('all') commands to avoid flickering of
    closed figures
  * added function to find indices
  * allow to use masks e.g. in mld plots
  * update of color limits

pyicon/pyicon_IconData.py: Added variable model_type to distinguish between ocean and atmosphere model.

pyicon/pyicon_plotting.py: Fixed bug in shade that over and under data values get different color compared to last and first inverval if clim and cincr are used to calculate climits.

  * Allowing for new ncl colormaps.
  * Added more ice plots.
  * Added atmospheric diagnostic plots.
  * Added time loop to do more than just one series of plots.
  * many other changes...

  * Added: Options: it_ave, var_fac, var_add, units, do_plot_settings,
    and land_facecolor to qp_hplot/vplot.
  * Fixed bug that title was not passed to hplot_base / vplot_base.
  * qp_timesries: Added ave_freq to allow for averaging over a specific
    month only.
  * QuickPlotWebsite: Addopted to new directory structure including
    extra directory level for time steps.
  * Adding extra option for adding links to improve navigation through
    website.

Renaming: config_ckdtree/config_ckdtree_r2b9_atmo.py -> config_ckdtree/config_ckdtree_atmo.py and adding the option for atmo r2b4 grid.

quickplots/qp_link_all.py: Added option to also use this script for linking time averages as sub page of simulation page.

doc/devtool_doc2modvis.py: Update also doc in all_qps to avoid that doc is deleted everytime all_qps is put to server.

pyicon/pyicon_IconData.py: Avoid having fpath_fx. Avoid specifying section. Add it_ave to IconData.time_average to make it compatible with pyic.time_average.

  * colormap can be passed as cmap to hplot_base / vplot_base
  * indentify global plot template if axlim are appropriate
  * make plot_settings optional
  * plot_settings: optional cartopy.feature.LAND by setting land_facecolor='none'

  * time_average: Added option to give list of indices over which should
    be averaged.
  * identify_grid: Added atmosphere r2b4 grid.

  * Adapted to Ruby.
  * Adapted to time averageing.
  * Added heat and freshwater flux.
  * Added time series of amoc26n etc.
  * Plotting ice on original grid.