[readme] update project dependencies and readme instruction for GDAL

Author: delhomer

README.md

@@ -28,21 +28,49 @@ data repository.
 
 ## Requirements
 
-The code has been run with Python 3. All dependencies are specified in
+The code has been run with Python 3. The dependencies are specified in
 `setup.py` file, and additional dependencies for developing purpose are listed
 in `requirements-dev.txt`.
 
-## From source
+### From source
 
 ```
 $ git clone https://github.com/Oslandia/deeposlandia
 $ cd deeposlandia
 $ virtualenv -p /usr/bin/python3 venv
 $ source venv/bin/activate
-(venv)$ python setup.py install
 (venv)$ pip install -r requirements-dev.txt
 ```
 
+### GDAL
+
+As a particular case, GDAL is not included into the `setup.py` file.
+
+For ̀Ubuntu` distributions, the following operations are needed to install this
+program:
+
+```
+sudo apt-get install libgdal-dev
+sudo apt-get install python3-gdal
+```
+
+The `GDAL` version can be verified by:
+
+```
+gdal-config --version
+```
+
+After that, a simple `pip install GDAL` may be sufficient, however considering
+our own experience it is not the case on Ubuntu. One has to retrieve a `GDAL`
+for Python that corresponds to the `GDAL` of system:
+
+```
+pip install --global-option=build_ext --global-option="-I/usr/include/gdal" GDAL==`gdal-config --version`
+python3 -c "import osgeo;print(osgeo.__version__)"
+```
+
+For other OS, please visit the `GDAL` installation documentation.
+
 ## Running the code
 
 - [Data preprocessing](deeposlandia/preprocessing.md)

requirements-dev.txt

@@ -1,5 +1,6 @@
 -e .
 pytest
 ipdb
+flake8
 ipython
 jupyter

setup.py

@@ -18,16 +18,13 @@ def find_version(*file_paths):
 
 install_requires = [
     'opencv-python<=3.4.0.12',
-    'numpy<=1.14.2',
-    'pandas<=0.22.0',
     'pillow<=5.0.0',
-    'tensorflow<=1.6',
-    'keras<=2.1.5',
-    'matplotlib<=2.2.0',
-    'h5py<=2.7.1',
-    'daiquiri<=1.3.0',
+    'tensorflow<=1.10',
+    'keras<=2.2.4',
+    'daiquiri<=1.5.0',
     'Flask<=1.0.2',
-    'seaborn<=0.8.1']
+    'seaborn<=0.8.1',
+    'geopandas<=0.4.0']
 
 setup(
     name='deeposlandia',