Delft3D io functions (MHKiT-Software#132)

* delft 3d ploting function

* d3d flume data

* Reorganized headers

* Change Headers (#1)

* changing path to data following organizational update

* Reorganized headers

Co-authored-by: rpauly18 <[email protected]>
Co-authored-by: rpauly18 <[email protected]>

* center line section

* center line  update

* Add manual interpolation of variable

* automated interpolation

* adding xarray

* Used dataframe for slicing

* 3d interpolation in progress

* added y interpolation

* interpolation looping fixed

* added z interpolation to centerline plots

* added z interpolation

* d3d with interpolation for irregular grid

* psuedo code for new function get_variable_points

* psuedo code for new function get_variable_points (#4)

* plots center line plot for input points

* added DataFrames

* updated doc string

* added creat_points code for a contour plot

* updated creat_points centerlinea nd point logic

* adding plot def, still has errors

* Add files via upload

* finged plotting isses

* fixed plotting

* changed d3d.irregualar_grids to d3d.py

* added turbulence layers in get_all_data_points def

* added turbulent intensity def

* unneeded file

* updated turbulent intensity

* added unorm function and Turbulent intensity defal

* updated labeling

* Add Undefined points code (#5)

* delft 3d ploting function

* d3d flume data

* Reorganized headers

* Change Headers (#1)

* changing path to data following organizational update

* Reorganized headers

Co-authored-by: rpauly18 <[email protected]>
Co-authored-by: rpauly18 <[email protected]>

* center line section

* center line  update

* Add manual interpolation of variable

* automated interpolation

* adding xarray

* Used dataframe for slicing

* 3d interpolation in progress

* starting with minimal try/except statement

* added y interpolation

* interpolation looping fixed

* added z interpolation to centerline plots

* added z interpolation

* d3d with interpolation for irregular grid

* psuedo code for new function get_variable_points

* psuedo code for new function get_variable_points (#4)

* unknown changes

* adding warning

* retrying build

* removing warning

* trying new key

* editing .hscfg file

* trying a different os

* trying mac and windows

* adding nose install to windows

* modifting nostest call for windows

* undoing last commit

* trying pytest

* try again

* plots center line plot for input points

* added DataFrames

* reverting travis yml and upgrading h5pyd

* fixing typo

* re-adding warning message

* updated doc string

* added creat_points code for a contour plot

* updated creat_points centerlinea nd point logic

* updating virtual buoy results based on updated data (MHKiT-Software#107)

* adding plot def, still has errors

* Add files via upload

* finged plotting isses

* fixed plotting

* changed d3d.irregualar_grids to d3d.py

* added turbulence layers in get_all_data_points def

* added turbulent intensity def

* unneeded file

* updated turbulent intensity

* added unorm function and Turbulent intensity defal

* updated labeling

* Psuedo code for undefined points

Co-authored-by: browniea <[email protected]>
Co-authored-by: rpauly18 <[email protected]>
Co-authored-by: rpauly18 <[email protected]>
Co-authored-by: Emily Browning <[email protected]>
Co-authored-by: Browning <[email protected]>

* added assert statments

* added ploting script to run d3d.py

* updated bottom depth to be interpolated for wdir grid

* added d3d function

* updated file structure and bottom depth interpolation

* changed name from io.py

* updated file stucture

* moved file to io folder under usgs.py

* updated import statments

* added assert statments

* starting test

* added test for d3d code

* added new grid function

* updated plots

* added test for d3d.py

* minor changes to fix test

* removed plots_d3d

* fixed file path to be compatable with lynix and apple os

* made sugested revisions

* removed old d3d file

* undated testdir in line 14

* Add files via upload

Adding the Flume data

* chnaged file diretery to pull mane with __file__

* updated labels

* added flume data

* updated variable names

* adding the example case for d3d.py code

* fixed variable name in grid_data function

* add d3d io funtions to tidal module

* updated discriptions of d3d_example

* made eddits to markdown discriptions

* changed function outputs from arrays to DataFrames

* updated test to take dataframe inputs

* updated for dataframe outputs

* updated for dataframe output updated

* added boolian input to turbulnet_intesity fuction

* fixed assert statment in turbulen_intesity function

* fixed boolian input to turbulent intensity

* fixed Turbulent intesity function

* updated test_turbulent_intesity

* fixed turbulent_intesity function for points= 'cells' input

* updated grid_data for cells input

* updated tunbulent_intesity function to nan negative values

* updated turbulent_intesity examples

* updated contour plots

* changed grid_data to variable_interpolation

* updated Turbulent_intesity negative filter to replace with 0

* added to the variable_interpolation block

* updated assert statment and negative number filter on turbulent function

* deleted old flume data

* added to the variable_interpolation discription

* added time steps (5)

* fixed revewer comments

* changed example data to turbineTest_map.nc

* updated graph font size

* Rename Delft3d_example.ipynb to Delft3D_example.ipynb

* updated code for plot labels

* updated spacing

* updated code for plot formating

* updated plot labels and limmits

* updated formating

* Delete turbineTest_map.nc

will re-upload

* will add back

* add d3d example data folder

* updated doc strings

* deleting backup

* deleting backup

* updated spacing on doc strings

* addressed some of @rpauly18 comments

* made @rpauly18 sujested edits

* added more inline comments

* added more inline comments

* fixed bug in create_points

* added more inline code discriptions

* updated discription of creat_points

* fixed spelling on inline code comments

* typo correction and cleanup

* added examples

* added unom function

* add unorm function

* removed unorm and improted from utils

* added a few discrip discriptave details

* added spaces on line 940 to reupload file

* removed previous changes

Co-authored-by: ssolson <[email protected]>
Co-authored-by: ssolson <[email protected]>
Co-authored-by: rpauly18 <[email protected]>
Co-authored-by: rpauly18 <[email protected]>
Co-authored-by: Browning <[email protected]>

Author: 4 people

examples/Delft3D_example.ipynb

@@ -2,7 +2,9 @@
  "cells": [
   {
    "cell_type": "markdown",
-   "metadata": {},
+   "metadata": {
+    "tags": []
+   },
    "source": [
     "# MHKiT River Module\n",
     "\n",
@@ -21,6 +23,14 @@
     "from mhkit import river"
    ]
   },
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "\n",
+    "## Test\n"
+   ]
+  },
   {
    "cell_type": "markdown",
    "metadata": {},
@@ -369,7 +379,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.8.5"
+   "version": "3.8.8"
   }
  },
  "nbformat": 4,

examples/data/river/d3d/tanana50_map.nc

@@ -1,4 +1,5 @@
 from mhkit.river import performance 
 from mhkit.river import graphics
-from mhkit.river import io
 from mhkit.river import resource 
+from mhkit.river import io 
+

examples/data/river/d3d/turbineTest_map.nc

@@ -1 +1,2 @@
 from mhkit.river.io import usgs
+from mhkit.river.io import d3d