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<div>Hi, Kevin:</div>
<div><br>
</div>
<div>I am installing the packages in virtual machine that runs Ubuntu. I got it worked one time, but when I later found that I needed basemap. So, I reinstalled everything and nw got a question I don't understand. The following was what I did:</div>
<div><br>
</div>
<div>Install anaconda</div>
<div>Conda update --all</div>
<div>Created a new environment where:</div>
<div> netcdf4 and basemap were installed</div>
<div>Cloned the above environment for adding NGL packages, where:</div>
<div> pygrib was installed (conda install –c conda-forge pygrib</div>
<div> Then, when I try to install: conda install –c ncar –c khallock pyngl pynio</div>
<div> The following messages were given:</div>
<div><br>
</div>
<div>
<div>UnsatisfiableError: The following specifications were found to be in conflict:</div>
<div> - h5py -> hdf5 1.8.13|1.8.14|1.8.15.1|1.8.16|1.8.9</div>
<div> - h5py -> numpy 1.11*|1.5*|1.6*|1.7*|1.8*</div>
<div> - h5py -> python 2.6*|3.3*|3.4*|3.5*</div>
<div> - pynio</div>
<div>Use "conda info <package>" to see the dependencies for each package.</div>
</div>
<div><br>
</div>
<div>First, I don't understand who and who are in conflict. Second, how to get around?</div>
<div><br>
</div>
<div>I remember the time I got pygrib, Nio, Ngl imported without problem was when I didn't have basemap in the same new environment (just create a new environment for my use, not cloned one). But I hope I can have them all in the same place.</div>
<div><br>
</div>
<div>Your help is much appreciated!</div>
<div><br>
</div>
<div>Xingang</div>
<div><br>
</div>
<div>P.s. A full list of packages in my new environment is attached below:</div>
<div><br>
</div>
<div>
<div>(metlab) xfan@xfan-VirtualBox:~$ conda list</div>
<div># packages in environment at /home/xfan/anaconda2/envs/metlab:</div>
<div>#</div>
<div>_license 1.1 py27_1 </div>
<div>_nb_ext_conf 0.3.0 py27_0 </div>
<div>alabaster 0.7.9 py27_0 </div>
<div>anaconda custom py27_0 </div>
<div>anaconda-clean 1.0.2 py27_0 </div>
<div>anaconda-client 1.6.0 py27_0 </div>
<div>anaconda-navigator 1.3.2 py27_0 </div>
<div>argcomplete 1.0.0 py27_1 </div>
<div>astroid 1.4.7 py27_0 </div>
<div>astropy 1.2.1 np111py27_0 </div>
<div>babel 2.3.4 py27_0 </div>
<div>backports 1.0 py27_0 </div>
<div>backports_abc 0.5 py27_0 </div>
<div>basemap 1.0.7 np111py27_0 </div>
<div>beautifulsoup4 4.5.1 py27_0 </div>
<div>bitarray 0.8.1 py27_0 </div>
<div>blaze 0.10.1 py27_0 </div>
<div>bokeh 0.12.3 py27_0 </div>
<div>boto 2.43.0 py27_0 </div>
<div>bottleneck 1.1.0 np111py27_0 </div>
<div>cairo 1.12.18 6 </div>
<div>cdecimal 2.3 py27_2 </div>
<div>cffi 1.9.1 py27_0 </div>
<div>chest 0.2.3 py27_0 </div>
<div>click 6.6 py27_0 </div>
<div>cloudpickle 0.2.1 py27_0 </div>
<div>clyent 1.2.2 py27_0 </div>
<div>colorama 0.3.7 py27_0 </div>
<div>configobj 5.0.6 py27_0 </div>
<div>configparser 3.5.0 py27_0 </div>
<div>contextlib2 0.5.4 py27_0 </div>
<div>cryptography 1.6 py27_0 </div>
<div>curl 7.49.0 1 </div>
<div>cycler 0.10.0 py27_0 </div>
<div>cython 0.25.2 py27_0 </div>
<div>cytoolz 0.8.1 py27_0 </div>
<div>dask 0.12.0 py27_0 </div>
<div>datashape 0.5.2 py27_0 </div>
<div>dbus 1.10.10 0 </div>
<div>decorator 4.0.10 py27_1 </div>
<div>dill 0.2.5 py27_0 </div>
<div>docutils 0.12 py27_2 </div>
<div>dynd-python 0.7.2 py27_0 </div>
<div>ecmwf_grib 1.16.0 1 conda-forge</div>
<div>entrypoints 0.2.2 py27_0 </div>
<div>enum34 1.1.6 py27_0 </div>
<div>et_xmlfile 1.0.1 py27_0 </div>
<div>expat 2.1.0 0 </div>
<div>fastcache 1.0.2 py27_1 </div>
<div>filelock 2.0.7 py27_0 </div>
<div>flask 0.11.1 py27_0 </div>
<div>flask-cors 2.1.2 py27_0 </div>
<div>fontconfig 2.11.1 6 </div>
<div>freetype 2.5.5 1 </div>
<div>funcsigs 1.0.2 py27_0 </div>
<div>functools32 3.2.3.2 py27_0 </div>
<div>futures 3.0.5 py27_0 </div>
<div>geos 3.4.2 0 </div>
<div>get_terminal_size 1.0.0 py27_0 </div>
<div>gevent 1.1.2 py27_0 </div>
<div>glib 2.43.0 1 </div>
<div>greenlet 0.4.10 py27_0 </div>
<div>grin 1.2.1 py27_3 </div>
<div>gst-plugins-base 1.8.0 0 </div>
<div>gstreamer 1.8.0 0 </div>
<div>h5py 2.6.0 np111py27_2 </div>
<div>harfbuzz 0.9.39 1 </div>
<div>hdf4 4.2.12 0 </div>
<div>hdf5 1.8.17 1 </div>
<div>heapdict 1.0.0 py27_1 </div>
<div>icu 54.1 0 </div>
<div>idna 2.1 py27_0 </div>
<div>imagesize 0.7.1 py27_0 </div>
<div>ipaddress 1.0.17 py27_0 </div>
<div>ipykernel 4.5.2 py27_0 </div>
<div>ipython 5.1.0 py27_0 </div>
<div>ipython_genutils 0.1.0 py27_0 </div>
<div>ipywidgets 5.2.2 py27_0 </div>
<div>itsdangerous 0.24 py27_0 </div>
<div>jasper 1.900.1 1 conda-forge</div>
<div>jbig 2.1 0 </div>
<div>jdcal 1.3 py27_0 </div>
<div>jedi 0.9.0 py27_1 </div>
<div>jinja2 2.8 py27_1 </div>
<div>jpeg 8d 2 </div>
<div>jsonschema 2.5.1 py27_0 </div>
<div>jupyter 1.0.0 py27_3 </div>
<div>jupyter_client 4.4.0 py27_0 </div>
<div>jupyter_console 5.0.0 py27_0 </div>
<div>jupyter_core 4.2.1 py27_0 </div>
<div>lazy-object-proxy 1.2.1 py27_0 </div>
<div>libdynd 0.7.2 0 </div>
<div>libffi 3.2.1 0 </div>
<div>libgcc 5.2.0 0 </div>
<div>libgfortran 3.0.0 1 </div>
<div>libiconv 1.14 0 </div>
<div>libnetcdf 4.4.1 0 </div>
<div>libpng 1.6.26 0 conda-forge</div>
<div>libsodium 1.0.10 0 </div>
<div>libtiff 4.0.6 2 </div>
<div>libxcb 1.12 1 </div>
<div>libxml2 2.9.4 0 </div>
<div>libxslt 1.1.28 0 </div>
<div>llvmlite 0.14.0 py27_0 </div>
<div>locket 0.2.0 py27_1 </div>
<div>lxml 3.6.4 py27_0 </div>
<div>markupsafe 0.23 py27_2 </div>
<div>matplotlib 1.5.3 np111py27_1 </div>
<div>mistune 0.7.3 py27_0 </div>
<div>mkl 11.3.3 0 </div>
<div>mkl-service 1.1.2 py27_2 </div>
<div>mpmath 0.19 py27_1 </div>
<div>multipledispatch 0.4.9 py27_0 </div>
<div>nb_anacondacloud 1.2.0 py27_0 </div>
<div>nb_conda 2.0.0 py27_0 </div>
<div>nb_conda_kernels 2.0.0 py27_0 </div>
<div>nbconvert 4.2.0 py27_0 </div>
<div>nbformat 4.2.0 py27_0 </div>
<div>nbpresent 3.0.2 py27_0 </div>
<div>netcdf4 1.2.4 np111py27_0 </div>
<div>networkx 1.11 py27_0 </div>
<div>nltk 3.2.1 py27_0 </div>
<div>nose 1.3.7 py27_1 </div>
<div>notebook 4.2.3 py27_0 </div>
<div>numba 0.29.0 np111py27_0 </div>
<div>numexpr 2.6.1 np111py27_1 </div>
<div>numpy 1.11.2 py27_0 </div>
<div>odo 0.5.0 py27_1 </div>
<div>openpyxl 2.4.0 py27_0 </div>
<div>openssl 1.0.2j 0 </div>
<div>pandas 0.19.1 np111py27_0 </div>
<div>partd 0.3.6 py27_0 </div>
<div>patchelf 0.9 0 </div>
<div>path.py 8.2.1 py27_0 </div>
<div>pathlib2 2.1.0 py27_0 </div>
<div>patsy 0.4.1 py27_0 </div>
<div>pep8 1.7.0 py27_0 </div>
<div>pexpect 4.0.1 py27_0 </div>
<div>pickleshare 0.7.4 py27_0 </div>
<div>pillow 3.4.2 py27_0 </div>
<div>pip 9.0.1 py27_1 </div>
<div>pixman 0.32.6 0 </div>
<div>pkginfo 1.4.1 py27_0 </div>
<div>ply 3.9 py27_0 </div>
<div>prompt_toolkit 1.0.9 py27_0 </div>
<div>psutil 5.0.0 py27_0 </div>
<div>ptyprocess 0.5.1 py27_0 </div>
<div>py 1.4.31 py27_0 </div>
<div>pyasn1 0.1.9 py27_0 </div>
<div>pycairo 1.10.0 py27_0 </div>
<div>pycosat 0.6.1 py27_1 </div>
<div>pycparser 2.17 py27_0 </div>
<div>pycrypto 2.6.1 py27_4 </div>
<div>pycurl 7.43.0 py27_0 </div>
<div>pyflakes 1.3.0 py27_0 </div>
<div>pygments 2.1.3 py27_0 </div>
<div>pygrib 2.0.2 py27_0 conda-forge</div>
<div>pylint 1.5.4 py27_1 </div>
<div>pyopenssl 16.2.0 py27_0 </div>
<div>pyparsing 2.1.4 py27_0 </div>
<div>pyproj 1.9.5.1 py27_0 conda-forge</div>
<div>pyqt 5.6.0 py27_0 </div>
<div>pytables 3.3.0 np111py27_0 </div>
<div>pytest 3.0.5 py27_0 </div>
<div>python 2.7.12 1 </div>
<div>python-dateutil 2.6.0 py27_0 </div>
<div>pytz 2016.10 py27_0 </div>
<div>pyyaml 3.12 py27_0 </div>
<div>pyzmq 16.0.2 py27_0 </div>
<div>qt 5.6.0 1 </div>
<div>qtawesome 0.3.3 py27_0 </div>
<div>qtconsole 4.2.1 py27_1 </div>
<div>qtpy 1.1.2 py27_0 </div>
<div>readline 6.2 2 </div>
<div>redis 3.2.0 0 </div>
<div>redis-py 2.10.5 py27_0 </div>
<div>requests 2.12.3 py27_0 </div>
<div>rope 0.9.4 py27_1 </div>
<div>scikit-image 0.12.3 np111py27_1 </div>
<div>scikit-learn 0.18.1 np111py27_0 </div>
<div>scipy 0.18.1 np111py27_0 </div>
<div>setuptools 27.2.0 py27_0 </div>
<div>simplegeneric 0.8.1 py27_1 </div>
<div>singledispatch 3.4.0.3 py27_0 </div>
<div>sip 4.18 py27_0 </div>
<div>six 1.10.0 py27_0 </div>
<div>snowballstemmer 1.2.1 py27_0 </div>
<div>sockjs-tornado 1.0.3 py27_0 </div>
<div>sphinx 1.5 py27_0 </div>
<div>spyder 3.0.2 py27_0 </div>
<div>sqlalchemy 1.1.4 py27_0 </div>
<div>sqlite 3.13.0 0 </div>
<div>ssl_match_hostname 3.4.0.2 py27_1 </div>
<div>statsmodels 0.6.1 np111py27_1 </div>
<div>sympy 1.0 py27_0 </div>
<div>terminado 0.6 py27_0 </div>
<div>tk 8.5.18 0 </div>
<div>toolz 0.8.1 py27_0 </div>
<div>tornado 4.4.2 py27_0 </div>
<div>traitlets 4.3.1 py27_0 </div>
<div>unicodecsv 0.14.1 py27_0 </div>
<div>wcwidth 0.1.7 py27_0 </div>
<div>werkzeug 0.11.11 py27_1 </div>
<div>wheel 0.29.0 py27_0 </div>
<div>widgetsnbextension 1.2.6 py27_0 </div>
<div>wrapt 1.10.8 py27_0 </div>
<div>xlrd 1.0.0 py27_0 </div>
<div>xlsxwriter 0.9.4 py27_0 </div>
<div>xlwt 1.1.2 py27_0 </div>
<div>xz 5.2.2 0 </div>
<div>yaml 0.1.6 0 </div>
<div>zeromq 4.1.5 0 </div>
<div>zlib 1.2.8 3</div>
</div>
<div><br>
</div>
<div><br>
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<span style="font-weight:bold">From: </span>Kevin Hallock <<a href="mailto:hallock@ucar.edu">hallock@ucar.edu</a>><br>
<span style="font-weight:bold">Date: </span>Wednesday, December 7, 2016 2:19 PM<br>
<span style="font-weight:bold">To: </span>Xingang Fan <<a href="mailto:xingang.fan@wku.edu">xingang.fan@wku.edu</a>><br>
<span style="font-weight:bold">Cc: </span>"<a href="mailto:pyngl-talk@ucar.edu">pyngl-talk@ucar.edu</a>" <<a href="mailto:pyngl-talk@ucar.edu">pyngl-talk@ucar.edu</a>><br>
<span style="font-weight:bold">Subject: </span>Re: [pyngl-talk] Help with PyNIO installation<br>
</div>
<div><br>
</div>
<div>
<div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">
Hi Xingang,
<div class=""><br class="">
</div>
<div class="">You’re welcome!</div>
<div class=""><br class="">
</div>
<div class="">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.</div>
<div class=""><br class="">
</div>
<div class="">Kevin</div>
<div class=""><br class="">
</div>
<div class="">
<div>
<blockquote type="cite" class="">
<div class="">On Dec 7, 2016, at 12:41 PM, Fan, Xingang <<a href="mailto:xingang.fan@wku.edu" class="">xingang.fan@wku.edu</a>> wrote:</div>
<br class="Apple-interchange-newline">
<div class="">
<div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; font-size: 14px; font-family: Calibri, sans-serif;" class="">
<div class="">Hi, Kevin:</div>
<div class=""><br class="">
</div>
<div class="">Thank you so much for getting back with me!</div>
<div class=""><br class="">
</div>
<div class="">I am trying anaconda on my MacBook Pro.</div>
<div class=""><br class="">
</div>
<div class="">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!</div>
<div class=""><br class="">
</div>
<div class="">Xingang</div>
<div class=""><br class="">
</div>
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<span style="font-weight:bold" class="">From: </span>Kevin Hallock <<a href="mailto:hallock@ucar.edu" class="">hallock@ucar.edu</a>><br class="">
<span style="font-weight:bold" class="">Date: </span>Wednesday, December 7, 2016 1:37 PM<br class="">
<span style="font-weight:bold" class="">To: </span>Xingang Fan <<a href="mailto:xingang.fan@wku.edu" class="">xingang.fan@wku.edu</a>><br class="">
<span style="font-weight:bold" class="">Cc: </span>"<a href="mailto:pyngl-talk@ucar.edu" class="">pyngl-talk@ucar.edu</a>" <<a href="mailto:pyngl-talk@ucar.edu" class="">pyngl-talk@ucar.edu</a>><br class="">
<span style="font-weight:bold" class="">Subject: </span>Re: [pyngl-talk] Help with PyNIO installation<br class="">
</div>
<div class=""><br class="">
</div>
<div class="">
<div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">
Hi,
<div class=""><br class="">
</div>
<div class="">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.</div>
<div class=""><br class="">
</div>
<div class="">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.</div>
<div class=""><br class="">
</div>
<div class="">We have information regarding the installation of Anaconda/Miniconda on the PyNGL/PyNIO download page:
<a href="https://www.pyngl.ucar.edu/Download/" class="">https://www.pyngl.ucar.edu/Download/</a></div>
<div class=""><br class="">
</div>
<div class="">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:</div>
<div class=""><font face="Courier New" class="">conda create --name <env_name> --channel conda-forge pynio pyngl</font></div>
<div class=""><br class="">
</div>
<div class="">and then activate the environment:</div>
<div class=""><font face="Courier New" class="">source activate <env_name></font></div>
<div class=""><br class="">
</div>
<div class="">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”.</div>
<div class=""><br class="">
</div>
<div class="">If using Anaconda/Miniconda is not possible, then we will have to further troubleshoot building PyNIO from source code.</div>
<div class=""><br class="">
</div>
<div class="">Please let us know if this information helps!</div>
<div class=""><br class="">
</div>
<div class="">Thanks,</div>
<div class="">Kevin</div>
<div class=""><br class="">
<div class="">
<blockquote type="cite" class="">
<div class="">On Dec 6, 2016, at 12:38 PM, Fan, Xingang <<a href="mailto:xingang.fan@wku.edu" class="">xingang.fan@wku.edu</a>> wrote:</div>
<br class="Apple-interchange-newline">
<div class="">
<div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; font-size: 14px; font-family: Calibri, sans-serif;" class="">
<div style="font-family: Calibri, sans-serif; font-size: 14px;" class="">Hi,</div>
<div style="font-family: Calibri, sans-serif; font-size: 14px;" class=""><br class="">
</div>
<div style="font-family: Calibri, sans-serif; font-size: 14px;" class="">I am using Enthought Canopy as my default python. I would like to get PyNIO and PyNGL installed. </div>
<div style="font-family: Calibri, sans-serif; font-size: 14px;" class=""><br class="">
</div>
<div style="font-family: Calibri, sans-serif; font-size: 14px;" class="">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. </div>
<div style="font-family: Calibri, sans-serif; font-size: 14px;" class=""><br class="">
</div>
<div style="font-family: Calibri, sans-serif; font-size: 14px;" class="">Then I had to try to install from the source code of PyNIO. I have followed the instructions online at <a href="https://www.pyngl.ucar.edu/Download/build_pynio_from_src.shtml#HDF4" class="">https://www.pyngl.ucar.edu/Download/build_pynio_from_src.shtml</a>.</div>
<div style="font-family: Calibri, sans-serif; font-size: 14px;" class="">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:</div>
<div style="font-family: Calibri, sans-serif; font-size: 14px;" class=""><br class="">
</div>
<div style="font-family: Calibri, sans-serif; font-size: 14px;" class="">
<div class="">import Nio</div>
<div class="">---------------------------------------------------------------------------</div>
<div class="">ImportError Traceback (most recent call last)</div>
<div class=""><ipython-input-1-d77b80fd2dfc> in <module>()</div>
<div class="">----> 1 import Nio</div>
<div class=""><br class="">
</div>
<div class="">/home/xfan/Enthought/Canopy_64bit/User/lib/python2.7/site-packages/PyNIO/Nio.py in <module>()</div>
<div class=""> 61 '''</div>
<div class=""> 62 </div>
<div class="">---> 63 from nio import *</div>
<div class=""> 64 from nio import _C_API</div>
<div class=""> 65 </div>
<div class=""><br class="">
</div>
<div class="">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)</div>
<div class=""><br class="">
</div>
<div class="">PLEASE help see what's the problem. While installing, I have the following environment variables set:</div>
<div class="">
<div class="">export HAS_NETCDF4=1</div>
<div class="">export HAS_HDF5=1</div>
<div class="">export NETCDF_PREFIX=/usr/local</div>
<div class="">export F2CLIBS=gfortran</div>
<div class="">export F2CLIBS_PREFIX=/usr/lib/x86_64-linux-gnu</div>
</div>
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<div class="">Thanks,</div>
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<div style="margin: 0in 0in 0.0001pt; font-size: 11pt;" class="">Xingang Fan, Ph. D., | Department of Geography and Geology<o:p class=""></o:p></div>
<div style="margin: 0in 0in 0.0001pt; font-size: 11pt;" class="">Associate Professor | Western Kentucky University<o:p class=""></o:p></div>
<div style="margin: 0in 0in 0.0001pt; font-size: 11pt;" class="">of Meteorology | 1906 College Heights Blvd., #31066<o:p class=""></o:p></div>
<div style="margin: 0in 0in 0.0001pt; font-size: 11pt;" class="">270-745-5980 | Bowling Green, KY 42101-1066<o:p class=""></o:p></div>
<div style="margin: 0in 0in 0.0001pt; font-size: 11pt;" class=""><a href="mailto:xingang.fan@wku.edu" style="color: purple; " class="">xingang.fan@wku.edu</a><o:p class=""></o:p></div>
<div style="margin: 0in 0in 0.0001pt; font-size: 11pt;" class=""><a href="http://people.wku.edu/xingang.fan" style="color: purple; " class="">http://people.wku.edu/xingang.fan</a></div>
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