[pyngl-talk] release of Pyngl version compatible with Ncl 6.1 or Ncl 6.2.1

Charlie Koven ckoven at gmail.com
Thu Jun 25 16:09:51 MDT 2015 

Mary,

Excellent, thanks!  I had just put in a symbolic link before; deleting that and setting the environment variable as you suggest allows both pyngl and pynio to load and work now.

Charlie




On Jun 25, 2015, at 2:14 PM, Mary Haley <haley at ucar.edu> wrote:

> Charlie,
> 
> I don't know yet about getting PyNGL to work, but PyNIO was built with GNU V4.9.2, and not V4.8.  This *might* be the issue, but I would be surprised if it is.
> 
> How did you link the libgomp.1.dylib file? 
> 
> Maybe the better way to have done this is via the DYLD_LIBRARY_PATH environment variable. 
> 
> For example:
> 
> export DYLD_LIBRARY_PATH=/opt/local/lib/gcc48
> 
> or, if you already have that variable set to something:
> 
> export DYLD_LIBRARY_PATH=/opt/local/lib/gcc48:$DYLD_LIBRARY_PATH
> 
> --Mary
> 
> 
> On Thu, Jun 25, 2015 at 10:25 AM, Charlie Koven <ckoven at gmail.com> wrote:
> Mary,
> 
> Thanks!  I tried to use both of these (the 10.10 PyNio and the 10.9 PyNGL) but still no luck.  Initially when I tried to load the Nio and Ngl modules, I was getting libgomp errors like this:
> 
> ImportError: dlopen(/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyNIO/nio.so, 2): Library not loaded: /usr/local/lib/libgomp.1.dylib
>   Referenced from: /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyNIO/nio.so
>   Reason: image not found
> 
> So I made sure I had gcc48 installed via macports (as suggested here: http://www.ncl.ucar.edu/Download/macosx.shtml ) and put a link in /usr/local/lib to /opt/local/lib/gcc48/libgomp.1.dylib, but after that, I still got the following errors, and I’m not sure if these require Nio and Ngl to be compiled differently.
> 
> Thanks,
> Charlie
> 
> 
> 
> In [1]: import Ngl
> ---------------------------------------------------------------------------
> ImportError                               Traceback (most recent call last)
> <ipython-input-1-ec4bb7966c2f> in <module>()
> ----> 1 import Ngl
> 
> /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyNGL/Ngl.py in <module>()
>      42 
>      43 # PyNGL analysis functions
> ---> 44 import fplib
>      45 
>      46 import sys
> 
> ImportError: dlopen(/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyNGL/fplib.so, 2): Symbol not found: ___addtf3
>   Referenced from: /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyNGL/fplib.so
>   Expected in: /usr/lib/libSystem.B.dylib
>  in /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyNGL/fplib.so
> 
> In [2]: import Nio
> ---------------------------------------------------------------------------
> ImportError                               Traceback (most recent call last)
> <ipython-input-2-d77b80fd2dfc> in <module>()
> ----> 1 import Nio
> 
> /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyNIO/Nio.py in <module>()
>      81 '''
>      82 
> ---> 83 from nio import *
>      84 from nio import _C_API
>      85 
> 
> ImportError: dlopen(/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyNIO/nio.so, 2): Symbol not found: __ZNSt8__detail15_List_node_base7_M_hookEPS0_
>   Referenced from: /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyNIO/nio.so
>   Expected in: /usr/lib/libstdc++.6.dylib
>  in /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyNIO/nio.so
> 
> 
> 
> 
> 
> 
>> On Jun 25, 2015, at 4:49 PM, Mary Haley <haley at ucar.edu> wrote:
>> 
>> Hi Charlie,
>> 
>> I built a PyNIO binary for Yosemite, but I didn't have time to do the PyNGL binary.  I recently upgraded to Yosemite, and I'm still getting all my builds sorted out.
>> 
>> Please try the "PyNIO-1.5.0-beta.macos-10.10-x86_64-py279-numpy192-gnu492.tar.gz" binary that I've put at:
>> 
>> http://www.pyngl.ucar.edu/Training/SEA2015/binaries.shtml#Python279NumPy192
>> 
>> --Mary
>> 
>> On Wed, Jun 24, 2015 at 1:27 PM, Mary Haley <haley at ucar.edu> wrote:
>> Charlie,
>> 
>> We have some additional beta binaries at:
>> 
>> http://www.pyngl.ucar.edu/Training/SEA2015/binaries.shtml
>> 
>> but these are only for MacOS 10.8 and 10.9.
>> 
>> I might be able to provide a yosemite version, as I think my home machine is running this. I'll leave a note for myself to check.
>> 
>> --Mary
>> 
>> 
>> On Sat, Jun 20, 2015 at 10:13 AM, Charlie Koven <ckoven at gmail.com> wrote:
>> Hi All,
>> 
>> Just tried to install binaries onto a new computer (macos yosemite) and getting errors.  Any chance of making a binary for this OS version?
>> 
>> Thanks,
>> Charlie
>> 
>> 
>> 
>> the binaries I tried to install but didn’t work were:
>> PyNGL-1.5.0-beta.macos-10.9-x86_64-py278-numpy191.tar.gz
>> PyNIO-1.4.1.macos-10.8-x86_64-py275-numpy162.tar.gz
>> 
>> The versions on my computer are:
>> Python 2.7.10
>> numpy 1.9.2
>> 
>> uname -a
>> Darwin admins-MBP 14.3.0 Darwin Kernel Version 14.3.0: Mon Mar 23 11:59:05 PDT 2015; root:xnu-2782.20.48~5/RELEASE_X86_64 x86_6
>> 
>> gcc --version
>> Configured with: --prefix=/Applications/Xcode.app/Contents/Developer/usr --with-gxx-include-dir=/usr/include/c++/4.2.1
>> Apple LLVM version 6.1.0 (clang-602.0.53) (based on LLVM 3.6.0svn)
>> Target: x86_64-apple-darwin14.3.0
>> Thread model: posix
>> 
>> 
>> 
>> 
>> 
>> In [2]: import Nio
>> ---------------------------------------------------------------------------
>> ImportError                               Traceback (most recent call last)
>> <ipython-input-2-d77b80fd2dfc> in <module>()
>> ----> 1 import Nio
>> 
>> /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyNIO/Nio.py in <module>()
>>      61 '''
>>      62 
>> ---> 63 from nio import *
>>      64 from nio import _C_API
>>      65 
>> 
>> ImportError: dlopen(/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyNIO/nio.so, 2): Symbol not found: ___addtf3
>>   Referenced from: /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyNIO/nio.so
>>   Expected in: /usr/lib/libSystem.B.dylib
>>  in /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyNIO/nio.so
>> 
>> In [3]: import Ngl
>> ---------------------------------------------------------------------------
>> ImportError                               Traceback (most recent call last)
>> <ipython-input-3-ec4bb7966c2f> in <module>()
>> ----> 1 import Ngl
>> 
>> /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyNGL/Ngl.py in <module>()
>>      39 
>>      40 # PyNGL analysis functions
>> ---> 41 import fplib
>>      42 
>>      43 import sys
>> 
>> ImportError: dlopen(/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyNGL/fplib.so, 2): Symbol not found: ___addtf3
>>   Referenced from: /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyNGL/fplib.so
>>   Expected in: /usr/lib/libSystem.B.dylib
>>  in /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyNGL/fplib.so
>> 
>> In [4]: 
>> 
>> 
>> 
>> 
>> 
>> 
>> 
>>> On Dec 10, 2014, at 11:22 PM, Mary Haley <haley at ucar.edu> wrote:
>>> 
>>> I have some binaries ready for you guys to try, and will keep uploading a few more (I'm doing some Python 2.7.6/numpy 1.9.1 combinations too).
>>> 
>>> https://www.pyngl.ucar.edu/Download/files/
>>> 
>>> The install and test instructions are the same as they were for 1.4.1:
>>> 
>>> http://www.pyngl.ucar.edu/Download/install_from_binary.shtml
>>> 
>>> The file names should be pretty self-explanatory:
>>> PyNGL-1.5.0-beta.Linux-Debian-6.0-i686-py278-numpy191-gcc445.tar.gz
>>> 
>>> The above is a 32-bit binary compiled on a Debian Linux system with Python 2.7.8, NumPy 1.9.1, and gcc 4.1.2.
>>> 
>>> I only have Debian and RedHat binaries (one of the binaries has an SL name which is Scientific Linux and RedHat based).
>>> 
>>> If you have Ubuntu, then I recommend going with a Debian binary.
>>> 
>>> If you have CentOS, then try a RedHat binary.
>>> 
>>> Once you have the software installed, you can try the attached pyngltest.py script, or run one of the examples available with "pynglex":
>>> 
>>>     pynglex -l    --> to get list of examples
>>>     pynlgex xy1   ---> to run example "xy1.py"
>>> 
>>> 
>>> Many of these call Nio.open_file, so you will need to have PyNIO installed.
>>> 
>>> If you have problems with a particular PyNGL-1.5-0-beta binary, then email me with
>>> 	• The name of the PyNGL binary you downloaded
>>> 	• A description of your system:
>>> uname -a
>>> gcc --version
>>> 	• The output from running the attached pyngltest.py script
>>> 	• The "map1.ps" file, if it exists.
>>> 	• Any other information, like error messages, flavor of linux, etc.
>>> 
>>> I haven't looked into incorporating these into anaconda or some other packaged set of Python software yet. I first just want to get them into the hands of some testers.
>>> 
>>> Thanks again for your patience. I will appreciate hearing from folks whether this new version is or isn't working for them.
>>> 
>>> --Mary
>>> 
>>> 
>>> 
>>> 
>>> 
>>> 
>>> 
>>> 
>>> 
>>> On Wed, Dec 10, 2014 at 8:38 AM, Mary Haley <haley at ucar.edu> wrote:
>>> Hi All,
>>> 
>>> I'm sorry I haven't been responsive on this. I've been trying to find a block of time to dedicate to doing some minor updates of PyNGL and create some binaries.
>>> 
>>> I got most of the updates done, so I'll create some binaries for you to try this week.
>>> 
>>> I will use Python 2.7.8 and numpy 1.9.1 since these are the latest versions. Once I have the binaries ready and if these two versions don't work for you, let me know.
>>> 
>>> --Mary
>>> 
>>> 
>>> On Fri, Oct 24, 2014 at 10:59 AM, Mary Haley <haley at ucar.edu> wrote:
>>> Hi Thomas,
>>> 
>>> I can provide you with a beta version of PyNGl that works with NCL V 6.1 (and V6.2). Just let me know what version of numpy and python you have, and what type of system (Linux, 32 or 64-bit system, version of gcc).
>>> 
>>> Our release schedule has slipped because we are still tying up lose ends with NCL.
>>> 
>>> --Mary
>>> 
>>> 
>>> On Fri, Oct 24, 2014 at 2:15 AM, Thomas Arsouze <thomas.arsouze at ensta-paristech.fr> wrote:
>>> Dear all,
>>> 
>>> do you have any estimation when a new version of Pyngl will be available ?
>>> I would like to use Pyngl but only got Ncl 6.1 and later installed on the computers at my lab.
>>> 
>>> Thanks in advance.
>>> 
>>> Sincerly,
>>> Thomas.
>>> 
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