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Paegan - The Python CDM for Met/Ocean data

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Paegan - The Python CDM for Met/Ocean data
===========

[![Build Status](https://travis-ci.org/asascience-open/paegan.png?branch=master)](https://travis-ci.org/asascience-open/paegan)

Paegan attempts to fill the need for a high level common data model (CDM) library for array based met/ocean data stored in netCDF files or distributed over OPeNDAP.

Common Dataset Functions
------------------
### Grids / UGrids

```python
from paegan.cdm.dataset import CommonDataset
url = "http://thredds.axiomalaska.com/thredds/dodsC/PWS_DAS.nc"
pd = CommonDataset.open(url)
```

#### Subsets
#####Bbox
```python
pd.restrict_bbox((-74, 40, -70, 42))
```
#####Time
```python
from datetime import datetime,timedelta
ending = datetime.utcnow()
starting = ending - timedelta(hours=12)
pd.restrict_time((starting, ending))
```
#####Depth
```python
pd.restrict_depth((3,50))
```
#####Variables
```python
pd.restrict_vars(("u","v"))
```

#### Nearest subsetting

#####Time
```python
from datetime import datetime
import pytz
now = datetime.utcnow().replace(tzinfo=pytz.utc)
pd.nearest_time(now)
```

#####Depth
```python
pd.nearest_depth(5)
```

#### Regridding

##### Coming Soon

### Discrete Sampling Geometries

#### Coming Soon

Setup
------------------
You are using `virtualenv`, right?

1. Install [virtualenv-burrito](https://github.com/brainsik/virtualenv-burrito)
2. Create virtualenv named "paegan-dev": `mkvirtualenv -p your_python_binary paegan-dev`
3. Start using your new virtualenv: `workon paegan-dev`

Installation
-------------
Paegan requires python 2.7.x and is available on PyPI.

The best way to install Paegan is through pip:

```bash
pip install paegan
```

Paegan requires the following python libraries which will be downloaded and installed through `pip`:

* numpy>=1.7.0
* scipy
* netCDF4>=1.0.2 (requires netcdf and hdf5 C libraries)
* Shapely>=1.2.15 (requires geos C library)
* pytz
* python-dateutil>=1.5

If your NetCDF4 and HDF5 libraries are in non-typical locations, you will need to pass the locations to the `pip` command:
```bash
NETCDF4_DIR=path HDF5_DIR=path pip install paegan
```

There seems to be a problem installing numpy through `pip` so you may need to install numpy before doing any of the above:

```bash
pip install numpy==1.7.0
```

Roadmap
--------
* Better grid support
* Regridding tools

Modules
--------
Other modules making use of Paegan

* [paegan-transport](https://github.com/asascience-open/paegan-transport) - Parallelized Lagrangian transport model for NetCDF/OPeNDAP data
* [paegan-viz](https://github.com/asascience-open/paegan-viz) - Visualization tools for NetCDF/OPeNDAP data

Troubleshooting
---------------
If you are having trouble getting any of the paegan functionality to work, try running the tests:

```bash
git clone git@github.com:asascience-open/paegan.git`
cd paegan
python setup.py test
```
If you want to run the dataset, timevar, depthvar, or roms tests, you will need to edit the test files with paths appropriate for your system.

Some tests requires large files that are not in source control.  You can get them here:
* ETOPO1 Global Bathymetry ([ETOPO1_Bed_g_gmt4.grd](http://s3.amazonaws.com/paegan/resources/ETOPO1_Bed_g_gmt4.grd))
* HFRadar Gridded Sample ([marcooshfradar20120331.nc](https://s3.amazonaws.com/paegan/resources/marcooshfradar20120331.nc))
* NCOM Gridded Surface Sample ([ncom_glb_sfc8_hind_2012033100.nc](http://s3.amazonaws.com/paegan/resources/ncom_glb_sfc8_hind_2012033100.nc))
* POM Gridded 3D Sample ([m201310100.out3.nc](http://s3.amazonaws.com/paegan/resources/m201310100.out3.nc))
* ROMS C-GRID 3D Sample ([ocean_avg_synoptic_seg22.nc](http://s3.amazonaws.com/paegan/resources/ocean_avg_synoptic_seg22.nc))
* Regular Grid Sample ([pws_L2_2012040100.nc](http://s3.amazonaws.com/paegan/resources/pws_L2_2012040100.nc))

They are expected to be located in `/data/lm/tests`, if they are not you can symlink to them in that directory.

Contributors
----------------
* Kyle Wilcox <kwilcox@asascience.com>
* Alex Crosby <acrosby@asascience.com>
* Brian McKenna <bmckenna@asascience.com>

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