update clone urls etc.

pyana/__init__.py

@@ -1,6 +1,6 @@
 """
 
-This package provides a sample setup to get started with ccsgp_. `ccsgp` is
+This package_ provides a sample setup to get started with ccsgp_. `ccsgp` is
 initialized as a module and its usage demonstrated with dedicated functions in
 the examples module. Helpful utility functions are also included to complement
 the features of `ccsgp`. The following use cases are currently implemented or
@@ -24,19 +24,19 @@
 
 2. clone the `ccsgp_get_started` git repository.
 
-   * Include the submodule with the test data by cloning the git repository
-     recursively::
+   Include the submodule with the test data by cloning the git repository
+   recursively::
 
-       $ git clone https://github.com/tschaume/ccsgp_get_started.git --recursive
-       $ cd ccsgp_get_started/
+     $ git clone https://github.com/tschaume/ccsgp_get_started.git --recursive
+     $ cd ccsgp_get_started/
 
-   * or alternatively, for source code only, clone and init the `ccsgp`
-     submodule separately::
+   or alternatively, for source code only, clone and init the `ccsgp`
+   submodule separately::
 
-       $ git clone https://github.com/tschaume/ccsgp_get_started.git
-       $ cd ccsgp_get_started/
-       $ git submodule init pyana/ccsgp
-       $ git submodule update
+     $ git clone https://github.com/tschaume/ccsgp_get_started.git
+     $ cd ccsgp_get_started/
+     $ git submodule init pyana/ccsgp
+     $ git submodule update
 
 3. init the virtualenv_, activate it and install all requirements::
 
@@ -45,13 +45,13 @@
      $ pip install -U numpy
      $ pip install -U -r requirements.txt
 
-   * Every time you start in a new terminal you have to activate the correct
+   - Every time you start in a new terminal you have to activate the correct
      python environment by sourcing `env/bin/activate` again or instead use
      `env/bin/python` directly!
 
-   * The h5py package requirement is currently omitted from the requirements. If
-     you want to use it, uncomment the h5py requirement in ``requirements.txt``
-     and rerun ``$ pip install -r requirements.txt``.
+   - The h5py package is currently omitted from the requirements. If you want to
+     use it, uncomment the h5py requirement in ``requirements.txt`` and rerun ``$
+     pip install -r requirements.txt``.
 
 4. If you intend to run the examples (and you cloned recursively above), symlink
    *pyanaDir* to *ccsgp_get_started_data*::
@@ -63,6 +63,7 @@
    *pyanaDir* either to *ccsgp_get_started_data* or your own input/output
    directory (preferably separated from the code repository).
 
+.. _package: https://github.com/tschaume/ccsgp_get_started
 .. _ccsgp: https://github.com/tschaume/ccsgp
 .. _ccsgp_get_started: https://github.com/tschaume/ccsgp_get_started
 .. _virtualenv: http://www.virtualenv.org/en/latest/virtualenv.html#usage

pyana/examples/__init__.py

@@ -7,8 +7,10 @@
 
   $ python -m pyana
   
-(this runs `pyana/__main__.py`). Alternatively, you can run a
-specific module, for instance::
+.. [#] ccsgp_get_started_data/input/examples/gp_datdir/WorldBankIndicators.csv
+.. [#] ccsgp_get_started_data/input/examples/gp_datdir/genExDat.sh
+
+Alternatively, you can run a specific module, for instance::
 
   $ python -m pyana.examples.gp_datdir [--log] <country-initial> <#-most-populated>
 
@@ -18,6 +20,4 @@
 the source code and use one of the examples as a template.
 
 .. _Indicators: http://www.tableausoftware.com/public/community/sample-data-sets#worldbank
-.. [#] ccsgp_get_started_data/input/examples/gp_datdir/WorldBankIndicators.csv
-.. [#] ccsgp_get_started_data/input/examples/gp_datdir/genExDat.sh
 """