[pyngl-talk] Help with PyNIO installation

Wed Dec 7 13:21:26 MST 2016

Great! With your kind support, we will go with that.

Happy Holidays!

Xingang

From: Kevin Hallock <hallock at ucar.edu<mailto:hallock at ucar.edu>>
Date: Wednesday, December 7, 2016 2:19 PM
To: Xingang Fan <xingang.fan at wku.edu<mailto:xingang.fan at wku.edu>>
Cc: "pyngl-talk at ucar.edu<mailto:pyngl-talk at ucar.edu>" <pyngl-talk at ucar.edu<mailto:pyngl-talk at ucar.edu>>
Subject: Re: [pyngl-talk] Help with PyNIO installation

Hi Xingang,

You’re welcome!

While Anaconda can be installed on Windows, we only have Mac OS X and Linux 64-bit versions of PyNGL or PyNIO available on Anaconda. In your case, I think Linux virtual machines would probably be the best/simplest option.

Kevin

On Dec 7, 2016, at 12:41 PM, Fan, Xingang <xingang.fan at wku.edu<mailto:xingang.fan at wku.edu>> wrote:

Hi, Kevin:

Thank you so much for getting back with me!

I am trying anaconda on my MacBook Pro.

One question: Can anaconda be installed on Windows system with the PyNGL and PyNIO, pygrib to work? Or it has to be on a virtual machine. Our lab have all windows machines. Thanks!

Xingang

From: Kevin Hallock <hallock at ucar.edu<mailto:hallock at ucar.edu>>
Date: Wednesday, December 7, 2016 1:37 PM
To: Xingang Fan <xingang.fan at wku.edu<mailto:xingang.fan at wku.edu>>
Cc: "pyngl-talk at ucar.edu<mailto:pyngl-talk at ucar.edu>" <pyngl-talk at ucar.edu<mailto:pyngl-talk at ucar.edu>>
Subject: Re: [pyngl-talk] Help with PyNIO installation

Hi,

Is there any chance you could possibly use Anaconda/Miniconda on these virtual machines instead of Enthought Canopy? As far as I am aware, there is no easy way for us to create and distribute a version of our software that is built against Enthought Canopy’s libraries.

However, we do have up-to-date versions PyNGL and PyNIO (and NCL) available on the "conda-forge” Anaconda channel, which also hosts many other commonly used scientific packages (including pygrib!). Unfortunately, Anaconda and Enthought Canopy may not be compatible; in order for Anaconda to work properly, its provided python needs to be the “default” python.

We have information regarding the installation of Anaconda/Miniconda on the PyNGL/PyNIO download page: https://www.pyngl.ucar.edu/Download/

In order to use the recommended "conda-forge" versions (different from the example on the linked page), create a conda environment using a command such as:
conda create --name <env_name> --channel conda-forge pynio pyngl

and then activate the environment:
source activate <env_name>

Note that “<env_name>” can be whatever you would like your conda environment to be named; for example, the linked documentation above uses “pyn_test”.

If using Anaconda/Miniconda is not possible, then we will have to further troubleshoot building PyNIO from source code.

Please let us know if this information helps!

Thanks,
Kevin

On Dec 6, 2016, at 12:38 PM, Fan, Xingang <xingang.fan at wku.edu<mailto:xingang.fan at wku.edu>> wrote:

Hi,

I am using Enthought Canopy as my default python. I would like to get PyNIO and PyNGL installed.

I have tried to download the prebuilt binaries, none of them work for my Ubuntu environment (I have to use the VirtualBox and have a Virtual Machine of Ubuntu system on my windows machines for our classroom use, because I wanted to have pygrib, PyNIO, and PyNGL). Although the prebuilt packages worked for my MacBook Pro, where the Canopy was also installed.

Then I had to try to install from the source code of PyNIO. I have followed the instructions online at https://www.pyngl.ucar.edu/Download/build_pynio_from_src.shtml<https://www.pyngl.ucar.edu/Download/build_pynio_from_src.shtml#HDF4>.
And all non-optional packages have been installed without problem. However, when I get down to install PyNIO, it seemed installed, but the import Nio showed the following error messages:

import Nio
---------------------------------------------------------------------------
ImportError                               Traceback (most recent call last)
<ipython-input-1-d77b80fd2dfc> in <module>()
----> 1 import Nio

/home/xfan/Enthought/Canopy_64bit/User/lib/python2.7/site-packages/PyNIO/Nio.py in <module>()
     61 '''
     62
---> 63 from nio import *
     64 from nio import _C_API
     65

ImportError: /home/xfan/Canopy/appdata/canopy-1.7.4.3348.rh5-x86_64/lib/libgfortran.so.3: version `GFORTRAN_1.4' not found (required by /home/xfan/Enthought/Canopy_64bit/User/lib/python2.7/site-packages/PyNIO/nio.so)

PLEASE help see what's the problem. While installing, I have the following environment variables set:
export HAS_NETCDF4=1
export HAS_HDF5=1
export NETCDF_PREFIX=/usr/local
export F2CLIBS=gfortran
export F2CLIBS_PREFIX=/usr/lib/x86_64-linux-gnu

Thanks,
--
Xingang Fan, Ph. D.,        |      Department of Geography and Geology
Associate Professor         |      Western Kentucky University
of Meteorology                |      1906 College Heights Blvd., #31066
270-745-5980                 |      Bowling Green, KY 42101-1066
xingang.fan at wku.edu<mailto:xingang.fan at wku.edu>
http://people.wku.edu/xingang.fan
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