mikeio 0.6.0

A package that uses the DHI dfs libraries to create, write and read dfs, res1d and mesh files.

MIKE IO: input/output of MIKE files in python

https://dhi.github.io/mikeio/

Read, write and manipulate dfs0, dfs1, dfs2, dfs3, dfsu and mesh files. Read res1d and xns11 files.

Facilitates common data processing workflows for MIKE files.

Requirements

• Windows operating system
• Python x64 3.6, 3.7 or 3.8
• VC++ redistributables (already installed if you have MIKE)

More info about dependencies

Where can I get help?

• Bugs & feature request - GitHub Issues
• General help, FAQ Stackoverflow with the tag mikeio

Installation

From PyPI:

pip install mikeio

Or development version:

pip install https://github.com/DHI/mikeio/archive/master.zip

Examples

Reading data from dfs0, dfs1, dfs2, dfsu

Generic read method to read values, if you need additional features such as coordinates, use specialised classes instead e.g. Dfsu

>>> import mikeio
>>> ds = mikeio.read("random.dfs0")
>>> ds
<mikeio.DataSet>
Dimensions: (1000,)
Time: 2017-01-01 00:00:00 - 2017-07-28 03:00:00
Items:
  0:  VarFun01 <Water Level> (meter)
  1:  NotFun <Water Level> (meter)
>>> ds = mikeio.read("random.dfs1")
>>> ds
<mikeio.DataSet>
Dimensions: (100, 3)
Time: 2012-01-01 00:00:00 - 2012-01-01 00:19:48
Items:
  0:  testing water level <Water Level> (meter)

Reading dfs0 file into Pandas DataFrame

>>>  from mikeio import Dfs0
>>>  dfs = Dfs0('simple.dfs0')
>>>  ts = dfs.to_dataframe()

Write simple timeseries

>>>  from datetime import datetime
>>>  import numpy as np
>>>  from mikeio import Dfs0
>>>  data = [np.random.random([100])]
>>>  dfs = Dfs0()
>>>  dfs.write('simple.dfs0', data, start_time=datetime(2017, 1, 1), dt=60)

Write timeseries from dataframe

import pandas as pd
import mikeio
>>> df = pd.read_csv(
...         "tests/testdata/co2-mm-mlo.csv",
...         parse_dates=True,
...         index_col="Date",
...         na_values=-99.99,
...     )
>>> df.to_dfs0("mauna_loa.dfs0")

For more examples on timeseries data see this notebook

Read dfs2 data

>>>  from mikeio import Dfs2
>>> dfs = Dfs2("random.dfs2")
>>> ds = dfs.read()
>>> ds
<mikeio.DataSet>
Dimensions: (3, 100, 2)
Time: 2012-01-01 00:00:00 - 2012-01-01 00:00:24
Items:
  0:  testing water level <Water Level> (meter)

Create dfs2

For a complete example of conversion from netcdf to dfs2 see this notebook.

Another example of downloading meteorological forecast from the Global Forecasting System and converting it to a dfs2 ready to be used by a MIKE 21 model.

Read Res1D file Return Pandas DataFrame

>>>  from mikeio.res1d import Res1D, QueryDataReach
>>>  df = Res1D(filename).read()

>>>  query = QueryDataReach("WaterLevel", "104l1", 34.4131)
>>>  df = res1d.read(query)

For more Res1D examples see this notebook

Read Xns11 file Return Pandas DataFrame

>>>  import matplotlib.pyplot as plt
>>>  from mikeio import xns11
>>>  # Query the geometry of chainage 58.68 of topoid1 at reach1
>>>  q1 = xns11.QueryData('topoid1', 'reach1', 58.68)
>>>  # Query the geometry of all chainages of topoid1 at reach2
>>>  q2 = xns11.QueryData('topoid1', 'reach2')
>>>  # Query the geometry of all chainages of topoid2
>>>  q3 = xns11.QueryData('topoid2')
>>>  # Combine the queries in a list
>>>  queries = [q1, q2, q3]
>>>  # The returned geometry object is a pandas DataFrame
>>>  geometry = xns11.read('xsections.xns11', queries)
>>>  # Plot geometry of chainage 58.68 of topoid1 at reach1
>>>  plt.plot(geometry['x topoid1 reach1 58.68'],geometry['z topoid1 reach1 58.68'])
>>>  plt.xlabel('Horizontal [meter]')
>>>  plt.ylabel('Elevation [meter]')

Read dfsu files

>>>  import matplotlib.pyplot as plt
>>>  from mikeio import Dfsu
>>>  dfs = Dfsu("HD.dfsu")
>>>  ds = dfs.read()
>>>  idx = dfs.find_nearest_element(x=608000, y=6907000)
>>>  plt.plot(ds.time, ds.data[0][:,idx])

>>>  from mikeio import Mesh
>>>  msh = Mesh("FakeLake.dfsu")
>>>  msh.plot()

For more examples on working with dfsu and mesh see these notebooks:

• Basic dfsu
• 3d dfsu
• Mesh
• Speed & direction
• Dfsu and mesh plotting
• Export to netcdf
• Export to shapefile

Pfs

Pfs is the format used for MIKE setup files (.m21fm, .m3fm, .sw etc.).

There is experimental support for reading pfs files, but the API is likely to change.

Items, units

Useful when creating a new dfs file

>>> from mikeio.eum import EUMType, EUMUnit
>>> EUMType.Temperature
<EUMType.Temperature: 100006>
>>> EUMType.Temperature.units
[degree Celsius, degree Fahrenheit, degree Kelvin]
>>> EUMUnit.degree_Kelvin
degree Kelvin

Tested

MIKE IO is tested extensively. 93% total test coverage.

See detailed test coverage report below:

File                           Covered  Missed  %
-------------------------------------------------
mikeio\__init__.py               39      1    97%
mikeio\aggregator.py            103      9    91%
mikeio\custom_exceptions.py      10      0   100%
mikeio\dataset.py               159     15    91%
mikeio\dfs.py                   237     16    93%
mikeio\dfs0.py                  240     27    89%
mikeio\dfs1.py                   48      2    96%
mikeio\dfs2.py                   78      2    97%
mikeio\dfs3.py                  161     78    52%
mikeio\dfsu.py                 1044     74    93%
mikeio\dotnet.py                 63      4    94%
mikeio\dutil.py                  50      2    96%
mikeio\eum.py                  1228      3    99%
mikeio\generic.py               129      1    99%
mikeio\helpers.py                 6      0   100%
mikeio\pfs.py                   195      9    95%
mikeio\res1d.py                 143     16    89%
mikeio\spatial.py                31     11    65%
mikeio\xns11.py                 210      6    97%
mikeio\xyz.py                    12      0   100%
-------------------------------------------------
TOTAL                          4186    276    93%

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