Setting up pygridgen and/or Octant

gistfile1.md

Setting up a fresh linux box for grid generation

Basics linux stuff

$ sudo apt-get update && sudo apt-get upgrade
$ sudo apt-get autoremove libreoffice-common
$ sudo apt-get install git vim build-essential gfortran

Getting miniconda and creating an environment

$ wget http://repo.continuum.io/miniconda/Miniconda-latest-Linux-x86_64.sh -O miniconda.sh
$ chmod +x miniconda.sh
$ ./miniconda.sh -b
$ export PATH=/home/grid/miniconda/bin:$PATH
$ conda update conda
$ conda create --name=gridgen seaborn statsmodels ipython-notebook pip nose fiona shapely netcdf4 binstar --yes
$ source activate gridgen

Dealing with projected data:

If you're on 64-bit linux:

$ conda install -c https://conda.binstar.org/rsignell pyproj --yes

Or if you're on 32-bit linux:

$ conda install basemap --yes

Cloning repos from github

$ mkdir sources && cd sources
$ git clone https://github.com/geosyntec/pygridgen.git

Building C/C++ dependencies

$ cd pygridgen/external

nearest neighbors

$ cd nn
$ ./configure

The edit the makefile and change this (line ~23):

CFLAGS_VULNERABLE = -fno-force-mem -ffloat-store

To say instead:

CFLAGS_VULNERABLE = -ffloat-store

After doing this, do not run ./configure again.

$ sudo make install
$ cd ..

CSA

$ cd csa
$ ./configure && sudo make install
$ cd ..

gridutils

$ cd gridutils
$ ./configure

Edit the makefile and change this (line ~31):

CFLAGS = -g -O2 -Wall -pedantic

To this:

CFLAGS = -g -O2 -Wall -pedantic -fPIC

After doing this, do not run ./configure again

$ sudo make install
$ cd ..

gridgen-C

$ cd gridgen
$ ./configure
$ sudo make
$ sudo make lib
$ sudo make shlib
$ sudo make install
$ cd ..

Install pygridgen

$ cd ~/sources/pygridgen
$ source activate gridgen
$ python setup.py install