creation of netcdf files from EGIM

rbardaji · Aug 9, 2018 · d895019 · d895019
1 parent c191dd7
commit d895019
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Showing 12 changed files with 593 additions and 15 deletions.
diff --git a/.gitignore b/.gitignore
@@ -11,4 +11,7 @@ __pycache__
 /*.egg-info
 
 # Visual Studio Code settings
-/.vscode/
+/.vscode/
+
+# Test code
+download_all_emso.py
diff --git a/README.md b/README.md
@@ -26,8 +26,8 @@ Another problem with the marine data is the Quality Control (QC). Some platforms
 
 For the moment, the compatible source data can be from the following observatories:
 
-* [EMSO](http://www.emso-eu.org/) Generic Instrument Module ([EGIM](http://www.emsodev.eu)).
-* [JERICO](http://www.jerico-ri.eu/data-access/) in NetCDF.
+* [EMSO](http://www.emso-eu.org/) Generic Instrument Module ([EGIM](http://www.emsodev.eu));
+* [JERICO](http://www.jerico-ri.eu/data-access/) in NetCDF;
 * Mooring time series from [EMODNET-physics](http://www.emodnet-physics.eu/Map/) in NetCDF.
 
 ## No knowledge of Python is needed

diff --git a/docs/api.md b/docs/api.md
@@ -244,7 +244,7 @@ Returns | Description | Type
 --- | --- | ---
 True/False | It indicates if the process was successfully. | bool
 
-### WaterFrame.slice_temp(*start*, *end*)
+### WaterFrame.slice_time(*start*, *end*)
 
 Delete data outside the time interval.
 

diff --git a/docs/index.md b/docs/index.md
@@ -24,8 +24,8 @@ Another problem with the marine data is the Quality Control (QC). Some platforms
 
 For the moment, the compatible source data can be from the following observatories:
 
-* [EMSO](http://www.emso-eu.org/) Generic Instrument Module ([EGIM](http://www.emsodev.eu)).
-* [JERICO](http://www.jerico-ri.eu/data-access/) in NetCDF.
+* [EMSO](http://www.emso-eu.org/) Generic Instrument Module ([EGIM](http://www.emsodev.eu));
+* [JERICO](http://www.jerico-ri.eu/data-access/) in NetCDF;
 * Mooring time series from [EMODNET-physics](http://www.emodnet-physics.eu/Map/) in NetCDF.
 
 ## No knowledge of Python is needed

diff --git a/mooda/__init__.py b/mooda/__init__.py
@@ -1,2 +1,4 @@
 from mooda.waterframe import WaterFrame
 from mooda.plotmap import PlotMap
+
+name = "mooda"
diff --git a/mooda/access/egim.py b/mooda/access/egim.py
diff --git a/mooda/waterframe.py b/mooda/waterframe.py
@@ -17,6 +17,7 @@ class WaterFrame:
 
     metadata: A dictionary that contains the metadata information of the
     timeserie."""
+
     def __init__(self):
         """It creates the instance following variables:
         data -- A pandas DataFrame that contains the measurement values of the

diff --git a/other_codes/read_netcdf.py b/other_codes/read_netcdf.py
@@ -0,0 +1,8 @@
+import mooda
+
+wf = mooda.WaterFrame()
+
+wf.from_netcdf("OS_OBSEA_2017010120170115_R_SBE54-0049.nc")
+
+print(wf.data.head())
+print(wf.metadata['license'])
diff --git a/requirements-access-egim.txt b/requirements-access-egim.txt
@@ -1,2 +1,3 @@
 requests
 pandas
+xarray
diff --git a/requirements-app-mooda_gui.txt b/requirements-app-mooda_gui.txt
diff --git a/requirements-waterframe.txt b/requirements-waterframe.txt
@@ -4,3 +4,4 @@ matplotlib
 pandas
 numpy>=1.9.0
 xarray
+seaborn
diff --git a/setup.py b/setup.py
@@ -7,7 +7,22 @@
 VERSION = '0.0.1'
 DESCRIPTION = 'Module for Ocean Observatory Data Analysis'
 README_FILE = os.path.join(os.path.dirname(__file__), 'README.md')
-LONG_DESCRIPTION = open(README_FILE).read()
+LONG_DESCRIPTION = """
+MOODA - Module for Ocean Observatory Data Analysis
+
+Mooda is a python package designed mainly for oceanographers and marine science students. It is based on a power scripting system for:
+
+direct data access;
+data filtering methods;
+complex visualization tools;
+quality control generation;
+specific data analysis tools for different scientific disciplines.
+The package is designed to be open, adaptable and scalable allowing future contributions from researchers and developers from all the marine science disciplines.
+
+This work is performed in the framework of the European Multidisciplinary Seafloor and Water-Column Observatory development ([EMSOdev](http://www.emsodev.eu/)).
+
+Check the documentation on [mooda.readthedocs.io](http://mooda.readthedocs.io/).
+"""
 CLASSIFIERS = ['Development Status :: 4 - Beta',
                'Environment :: X11 Applications :: Qt',
                'Environment :: Console',
@@ -40,6 +55,8 @@
         for file in (os.path.join(os.path.dirname(__file__), file)
                      for file in requirements)
         for line in open(file)) - {''})
+EXTRAS_REQUIRE = {'gui': ['pyqt5']}
+
 ENTRY_POINTS = {
     'gui_scripts': ['mooda = mooda.app.mooda_gui.__main__:main']}
 
@@ -55,6 +72,7 @@
       license=LICENSE,
       packages=PACKAGES,
       install_requires=INSTALL_REQUIRES,
+      extras_require=EXTRAS_REQUIRE,
       entry_points=ENTRY_POINTS,
       include_package_data=True,
       zip_safe=False)