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-Introduction
-============
 
-The Wind Energy Toolbox (or ``wetb``, pronounce as wee-tee-bee) is a
-collection of Python scripts that facilitate working with (potentially a
-lot) of HAWC2, HAWCStab2, FAST or other text input based simulation
-tools.
+[![build status](https://gitlab.windenergy.dtu.dk/toolbox/WindEnergyToolbox/badges/master/build.svg)](https://gitlab.windenergy.dtu.dk/toolbox/WindEnergyToolbox/commits/master)
+[![coverage report](https://gitlab.windenergy.dtu.dk/toolbox/WindEnergyToolbox/badges/master/coverage.svg)](https://gitlab.windenergy.dtu.dk/toolbox/WindEnergyToolbox/commits/master)
 
-Note that this toolbox is very much a WIP (work in progress). For
-example, some of the functions in the `prepost <#prepost>`__ module have
-a similar functions in `Hawc2io <wetb/hawc2/Hawc2io.py>`__. These
-different implementations will be merged in due time.
+# Introduction
 
-How to create HAWC2 DLB's and run them on a cluster
-===================================================
+The Wind Energy Toolbox (or ```wetb```, pronounce as wee-tee-bee) is a collection
+of Python scripts that facilitate working with (potentially a lot) of HAWC2,
+HAWCStab2, FAST or other text input based simulation tools.
 
-The process of how to generated, run and post-process a design load
-basis (DLB) of HAWC2 simulations on a DTU Wind Energy cluster is
-outlined in more detail in the documentation:
+Note that this toolbox is very much a WIP (work in progress). For example,
+some of the functions in the [prepost](#prepost) module have a similar functions
+in [Hawc2io](wetb/hawc2/Hawc2io.py). These different implementations will be
+merged in due time.
 
--  `Auto-generation of Design Load Cases <docs/howto-make-dlcs.md>`__
--  `House rules mimer/hawc2sim and HAWC2 folder
-   structure <docs/houserules-mimerhawc2sim.md>`__
--  `Generate DLB spreadsheets <docs/generate-spreadsheet.md>`__
--  `How to use the Statistics DataFrame <docs/using-statistics-df.md>`__
+Both Python2 and Python3 are supported.
 
-You can also use the Pdap for post-processing, which includes a MS Word
-report generator based on a full DLB, a GUI for easy plotting of HAWC2
-result files, and a Python scripting interface:
+# Installation
 
--  `Pdap <http://www.hawc2.dk/Download/Post-processing-tools/Pdap>`__
--  `Pdap
-   report/docs <http://orbit.dtu.dk/en/publications/post-processing-of-design-load-cases-using-pdap%28827c432b-cf7d-44eb-899b-93e9c0648ca5%29.html>`__
+For a more detailed overview, see: [docs/install](docs/install.md)
 
-Works with Python 2 and Python 3
-================================
 
-This module is tested for Python 2 and 3 compatibility, and works on
-both Windows and Linux. Testing for Mac is on the way, but in theory it
-should work. Python 2 and 3 compatibility is achieved with a single code
-base with the help of the Python module
-`future <http://python-future.org/index.html>`__.
+# Contents of WindEnergyToolbox, [wetb](wetb)
 
-Switching to Python 3 is in general a very good idea especially since
-Python 3.5 was released. Some even dare to say it `is like eating your
-vegetables <http://nothingbutsnark.svbtle.com/porting-to-python-3-is-like-eating-your-vegetables>`__.
-So if you are still on Python 2, we would recommend you to give Python 3
-a try!
+### Overview
 
-You can automatically convert your code from Python 2 to 3 using the
-`2to3 <https://docs.python.org/2/library/2to3.html>`__ utility which is
-included in Python 2.7 by default. You can also write code that is
-compatible with both 2 and 3 at the same time (you can find additional
-resources in `issue
-1 <https://gitlab.windenergy.dtu.dk/toolbox/WindEnergyToolbox/issues/1>`__).
+- [hawc2](#hawc2)
+- [gtsdf](#gtsdf)
+- [fatigue_tools](#fatigue_tools)
+- [wind](#wind)
+- [dlc](#dlc)
+- [prepost](#prepost)
+- [fast](#fast)
+- [utils](#utils)
 
-Dependencies
-============
+### [hawc2](wetb/hawc2)
+- [Hawc2io](wetb/hawc2/Hawc2io.py): Read binary, ascii and flex result files
+- [sel_file](wetb/hawc2/sel_file.py): Read/write *.sel (sensor list) files
+- [htc_file](wetb/hawc2/htc_file.py): Read/write/manipulate htc files
+- [ae_file](wetb/hawc2/ae_file.py): Read AE (aerodynamic blade layout) files
+- [pc_file](wetb/hawc2/pc_file.py): Read PC (profile coefficient) files
+- [shear_file](wetb/hawc2/shear_file.py): Create user defined shear file
+- [at_time_file](wetb/hawc2/at_time_file.py): Read at output_at_time files
+- [log_file](wetb/hawc2/log_file.py): Read and interpret log files
+- [ascii2bin](wetb/hawc2/ascii2bin): Compress HAWC2 ascii result files to binary
 
--  `numpy <http://www.numpy.org/>`__
+### [gtsdf](wetb/gtsdf)
+General Time Series Data Format, a binary hdf5 data format for storing time series data.
+- [gtsdf](wetb/gtsdf/gtsdf.py): read/write/append gtsdf files
+- [unix_time](wetb/gtsdf/unix_time.py): convert between datetime and unix time (seconds since 1/1/1970)
 
--  `cython <http://cython.org/>`__
+### [fatigue_tools](wetb/fatigue_tools)
+- [fatigue](wetb/fatigue_tools/fatigue.py): Rainflow counting, cycle matrix and equivalent loads
+- [bearing_damage](wetb/fatigue_tools/bearing_damage.py): Calculate a comparable measure of bearing damage
 
--  `scipy <http://scipy.org/scipylib/>`__
+### [wind](wetb/wind)
+- [shear](wetb/wind/shear.py): Calculate and fit wind shear
 
--  `pandas <http://pandas.pydata.org/>`__
+### [dlc](wetb/dlc)
+Module for working with "Design load cases" (Code independent)
+- [high_level](wetb/dlc/high_level.py) Class for working with the highlevel dlc excell sheet
 
--  xlrd and xlwt from `python-excel <http://www.python-excel.org/>`__
-
--  `openpyxl <http://openpyxl.readthedocs.org/en/default/>`__
-
--  h5py
-
--  `matplotlib <http://matplotlib.org/>`__
-
--  `pytables <http://www.pytables.org/>`__
-
--  `pyscaffold <http://pyscaffold.readthedocs.org/en/>`__
-
--  pytest, pytest-cov
-
--  six, `future <http://python-future.org/index.html>`__
-
-Installation
-============
-
-Detailed installation instructions, including how to install Python from
-scratch, are described in the `detailed installation
-manual <docs/install-manual-detailed.md>`__.
-
-If you know what you are doing, you can install as a package as follows:
-
-::
-
-    python setup.py install
-
-Or in development mode, install from your working directory
-
-::
-
-    pip install -e ./
-
-Or create a binary wheel distribution package with:
-
-::
-
-    python setup.py bdist_wheel -d dist
-
-Tests
-=====
-
-Only a small part of the code is covered by unittests currently. More
-tests are forthcoming.
-
-Contents of WindEnergyToolbox, `wetb <wetb>`__
-==============================================
-
-Overview
-~~~~~~~~
-
--  `hawc2 <#hawc2>`__
--  `gtsdf <#gtsdf>`__
--  `fatigue\_tools <#fatigue_tools>`__
--  `wind <#wind>`__
--  `dlc <#dlc>`__
--  `prepost <#prepost>`__
--  `fast <#fast>`__
--  `utils <#utils>`__
-
-`hawc2 <wetb/hawc2>`__
-~~~~~~~~~~~~~~~~~~~~~~
-
--  `Hawc2io <wetb/hawc2/Hawc2io.py>`__: Read binary, ascii and flex
-   result files
--  `sel\_file <wetb/hawc2/sel_file.py>`__: Read/write \*.sel (sensor
-   list) files
--  `htc\_file <wetb/hawc2/htc_file.py>`__: Read/write/manipulate htc
-   files
--  `ae\_file <wetb/hawc2/ae_file.py>`__: Read AE (aerodynamic blade
-   layout) files
--  `pc\_file <wetb/hawc2/pc_file.py>`__: Read PC (profile coefficient)
-   files
--  `shear\_file <wetb/hawc2/shear_file.py>`__: Create user defined shear
-   file
--  `at\_time\_file <wetb/hawc2/at_time_file.py>`__: Read at
-   output\_at\_time files
--  `log\_file <wetb/hawc2/log_file.py>`__: Read and interpret log files
--  `ascii2bin <wetb/hawc2/ascii2bin>`__: Compress HAWC2 ascii result
-   files to binary
-
-`gtsdf <wetb/gtsdf>`__
-~~~~~~~~~~~~~~~~~~~~~~
-
-General Time Series Data Format, a binary hdf5 data format for storing
-time series data. - `gtsdf <wetb/gtsdf/gtsdf.py>`__: read/write/append
-gtsdf files - `unix\_time <wetb/gtsdf/unix_time.py>`__: convert between
-datetime and unix time (seconds since 1/1/1970)
-
-`fatigue\_tools <wetb/fatigue_tools>`__
-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-
--  `fatigue <wetb/fatigue_tools/fatigue.py>`__: Rainflow counting, cycle
-   matrix and equivalent loads
--  `bearing\_damage <wetb/fatigue_tools/bearing_damage.py>`__: Calculate
-   a comparable measure of bearing damage
-
-`wind <wetb/wind>`__
-~~~~~~~~~~~~~~~~~~~~
-
--  `shear <wetb/wind/shear.py>`__: Calculate and fit wind shear
-
-`dlc <wetb/dlc>`__
-~~~~~~~~~~~~~~~~~~
-
-Module for working with "Design load cases" (Code independent) -
-`high\_level <wetb/dlc/high_level.py>`__ Class for working with the
-highlevel dlc excell sheet
-
-`prepost <wetb/prepost>`__
-~~~~~~~~~~~~~~~~~~~~~~~~~~
-
-Module for creating an arbitrary number of HAWC2 simulations, and
-optionally corresponding execution scripts for a PBS Torque cluster
-(Linux), simple bash (Linux), or Windows batch scripts. A
-post-processing module is also included that calculates statistical
-parameters, performs rainflow counting for fatigue load calculations,
-and create load envelopes.
+### [prepost](wetb/prepost)
+Module for creating an arbitrary number of HAWC2 simulations, and optionally
+corresponding execution scripts for a PBS Torque cluster (Linux), simple bash
+(Linux), or Windows batch scripts. A post-processing module is also included
+that calculates statistical parameters, performs rainflow counting for fatigue
+load calculations, and create load envelopes.
 
 Additional documentation can be found here:
 
--  `Auto-generation of Design Load Cases <docs/howto-make-dlcs.md>`__
-
--  `How to use the Statistics DataFrame <docs/using-statistics-df.md>`__
-
-`fast <wetb/fast>`__
-~~~~~~~~~~~~~~~~~~~~
-
-Tools for working with NREL's FAST code (An aeroelastic computer-aided
-engineering (CAE) tool for horizontal axis wind turbines) -
-`fast\_io <wetb/fast/fast_io.py>`__: Read binary and ascii result files
+- [Auto-generation of Design Load Cases](docs/howto-make-dlcs.md)
+- [How to use the Statistics DataFrame](docs/using-statistics-df.md)
+- [Generate DLB spreadsheets](docs/generate-spreadsheet.md)
 
-`utils <wetb/utils>`__
-~~~~~~~~~~~~~~~~~~~~~~
 
-Other functions - `geometry <wetb/utils/geometry.py>`__: Different kind
-of geometry conversion functions -
-`process\_exec <wetb/utils/process_exec.py>`__: Run system command in
-subprocess - `timing <wetb/utils/timing.py>`__: Decorators for
-evaluating execution time of functions -
-`caching <wetb/utils/caching.py>`__: Decorators to create cached
-(calculate once) functions and properties
+### [fast](wetb/fast)
+Tools for working with NREL's FAST code (An aeroelastic computer-aided engineering (CAE) tool for horizontal axis wind turbines)
+- [fast_io](wetb/fast/fast_io.py): Read binary and ascii result files
 
-Note
-====
+### [utils](wetb/utils)
+Other functions
+- [geometry](wetb/utils/geometry.py): Different kind of geometry conversion functions
+- [process_exec](wetb/utils/process_exec.py): Run system command in subprocess
+- [timing](wetb/utils/timing.py): Decorators for evaluating execution time of functions
+- [caching](wetb/utils/caching.py): Decorators to create cached (calculate once) functions and properties
 
-This project has been set up using PyScaffold 2.5. For details and usage
-information on PyScaffold see http://pyscaffold.readthedocs.org/.