[pyngl-talk] pyngl-talk Digest, Vol 145, Issue 6

[Victor Gensini]

Hi Kevin,


I just grabbed a fresh pynio conda install from the conda-forge channel and am getting a library error upon import:


Python 2.7.14 |Anaconda, Inc.| (default, Dec  7 2017, 17:05:42)
[GCC 7.2.0] on linux2
Type "help", "copyright", "credits" or "license" for more information.
>>> import Nio
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/home/vgensini/Programs/anaconda2/envs/spc_out/lib/python2.7/site-packages/PyNIO/Nio.py", line 83, in <module>
    from nio import *
ImportError: /home/vgensini/Programs/anaconda2/envs/spc_out/lib/python2.7/site-packages/PyNIO/../../../libgdal.so.20: undefined symbol: _ZN11xercesc_3_211InputSource11setEncodingEPKDs



Best,


---------------------------------------

Dr. Vittorio (Victor) A. Gensini

Assistant Professor

Department of Geographic and Atmospheric Sciences

Northern Illinois University

Davis Hall (DH), Room 118

DeKalb, IL 60115

http://wcs.niu.edu

________________________________
From: Kevin Hallock <hallock at ucar.edu>
Sent: Monday, December 18, 2017 3:33:14 PM
To: Paul Madden; Victor Gensini
Cc: pyngl-talk at ucar.edu talk
Subject: Re: [pyngl-talk] pyngl-talk Digest, Vol 145, Issue 6

Hi Paul and Victor,

This is an issue that we are aware of. As Paul mentioned below, a solution to the existing issue with NCL should solve the problem for PyNGL as well.

The conda-forge project recently upgraded certain dependency packages; in particular, we’ve experienced problems getting the newest version of the HDF5 library to play nicely with a current-but-several-years-old HDFEOS5 library.

We will try to get a fix for this onto conda-forge as soon as possible, but unfortunately some conda-forge compatibility/dependency issues are out of our (NCAR’s) control.

I’m sorry for the inconvenience,
Kevin

On Dec 17, 2017, at 12:13 PM, Paul Madden <maddenp at colorado.edu<mailto:maddenp at colorado.edu>> wrote:

Hi Victor,

I reported the same issue on this mailing list two days ago. I believe the problem is that the PyNGL conda package depends on the NCL package, which is currently broken. I opened an issue with the NCL package maintainers here: https://github.com/conda-forge/ncl-feedstock/issues/26. You might like to follow that issue because, I think, the PyNGL install will work again when the NCL package is fixed.

paul

On Sun, Dec 17, 2017 at 12:00 PM, <pyngl-talk-request at ucar.edu<mailto:pyngl-talk-request at ucar.edu>> wrote:
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Today's Topics:

   1. PyNGL install failure with Anaconda (Victor Gensini)


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Message: 1
Date: Sun, 17 Dec 2017 02:46:20 +0000
From: Victor Gensini <vgensini at niu.edu<mailto:vgensini at niu.edu>>
To: "pyngl-talk at ucar.edu<mailto:pyngl-talk at ucar.edu>" <pyngl-talk at ucar.edu<mailto:pyngl-talk at ucar.edu>>
Subject: [pyngl-talk] PyNGL install failure with Anaconda
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PyNGL users,


I've had good luck in the past using conda to install pynio and pyngl to isolated environments.


However, with the latest version of anaconda (5.0.1):


[vgensini at atlas ~]$ conda create -n ngl -c conda-forge pyngl
Fetching package metadata .............
Solving package specifications: .

UnsatisfiableError: The following specifications were found to be in conflict:
  - pyngl


Running CentOS 7 3.10.0-693.5.2.el7.x86_64 GNU/Linux


Running the same create env command for pynio results in a successful installation.


Best,

---------------------------------------

Dr. Vittorio (Victor) A. Gensini

Assistant Professor

Department of Geographic and Atmospheric Sciences

Northern Illinois University

Davis Hall (DH), Room 118

DeKalb, IL 60115
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