[pyngl-talk] missing shared library for PyNIO
Marcia Branstetter
branstetterm at ornl.gov
Thu Feb 9 12:41:54 MST 2017
Hi Kevin,
I tried this, but got an error message when I tried to create the new
myenv2:
[mbranst at or-condo-login02 ~]$ conda create -n myenv2 --file
package-list.txt
Fetching package metadata .........
PackageNotFoundError: Package not found: '' Package missing in current
linux-64 channels:
- ca-certificates 2016.9.26 0
You can search for packages on anaconda.org with
anaconda search -t conda ca-certificates
You may need to install the anaconda-client command line client with
conda install anaconda-client
-------------------------------------------------
I tried those suggestions, but still kept getting the same error.
Thanks,
Marcia
On Wed, 8 Feb 2017, Kevin Hallock wrote:
> Hi Marcia,
> The conda-forge automated build system is currently having issues building a
> new version of PyNGL, although PyNIO was successfully rebuilt yesterday. The
> problem now is that certain packages that both PyNIO and PyNGL depend on
> have been updated.
>
> I have tried to create an environment containing both PyNIO and PyNGL using
> older dependencies, but I have not been able to find a working combination
> of dependencies (although I am certain one exists).
>
> PyNIO is currently working if you do not also install PyNGL, and I have been
> working with conda-forge to get the new version of PyNGL released as soon as
> possible.
>
> If you still have access to the conda environment that worked for you
> several weeks ago, you could try the following (an example from “conda list
> --help”):
> Save packages for future use:
>
> conda list --export > package-list.txt
>
> Reinstall packages from an export file:
>
> conda create -n myenv --file package-list.txt
>
> I have no experience using “conda list” and “conda create” like this, but it
> might allow you to duplicate the environment you had before.
>
> I’m sorry for the inconvenience, hopefully we’ll have PyNGL working again
> shortly.
>
> Kevin
>
> On Feb 8, 2017, at 1:31 PM, Marcia Branstetter
> <branstetterm at ornl.gov> wrote:
>
> Hi Kevin,
>
> Here is the output:
> [mbranst at or-condo-login02 ~]$ conda list -n pyn_test
> # packages in environment at /home/mbranst/miniconda2/envs/pyn_test:
> #
> bzip2 1.0.6 3
> ca-certificates 2016.9.26 0
> conda-forge
> cairo 1.14.6 0
> conda-forge
> certifi 2016.2.28 py27_0
> curl 7.52.1 0
> expat 2.1.0 0
> fontconfig 2.11.1 6
> conda-forge
> freetype 2.6.3 1
> conda-forge
> freexl 1.0.2 1
> conda-forge
> g2clib 1.6.0 2
> conda-forge
> gdal 2.1.3 np111py27_1
> conda-forge
> geos 3.5.0 0
> giflib 5.1.4 0
> conda-forge
> gsl 2.2.1 0
> hdf4 4.2.11 0
> hdf5 1.8.17 1
> hdfeos2 2.19.1 7
> conda-forge
> hdfeos5 5.1.15 6
> conda-forge
> icu 56.1 4
> conda-forge
> jasper 1.900.1 4
> conda-forge
> jbig 2.1 0
> jpeg 9b 0
> json-c 0.12 0
> conda-forge
> kealib 1.4.6 0
> libdap4 3.18.3 2
> conda-forge
> libgcc 5.2.0 0
> libgfortran 3.0.0 1
> libiconv 1.14 0
> libnetcdf 4.4.1.1 2
> conda-forge
> libpng 1.6.28 0
> conda-forge
> libpq 9.5.4 0
> libspatialite 4.3.0a 14
> conda-forge
> libtiff 4.0.6 3
> libxml2 2.9.4 0
> mkl 2017.0.1 0
> ncl 6.3.0 2
> conda-forge
> ncurses 5.9 10
> numpy 1.11.3 py27_0
> openjpeg 2.1.2 2
> conda-forge
> openssl 1.0.2k 0
> pcre 8.39 1
> pip 9.0.1 py27_1
> pixman 0.34.0 0
> pkg-config 0.28 1
> proj4 4.9.3 2
> conda-forge
> pyngl 1.5.0_beta20161122 np111py27_1
> conda-forge
> pynio 1.5.0_beta20160623 np111py27_14
> conda-forge
> python 2.7.13 0
> readline 6.2 2
> setuptools 27.2.0 py27_0
> sqlite 3.13.0 0
> tk 8.5.18 0
> udunits2 2.2.23 0
> conda-forge
> util-linux 2.21 0
> wheel 0.29.0 py27_0
> xerces-c 3.1.4 0
> xz 5.2.2 1
> zlib 1.2.8 3
>
> Thanks,
> Marcia
>
>
> On Tue, 7 Feb 2017, Kevin Hallock wrote:
>
> Hi Marcia,
>
> Could you please run “conda list -n pyn_test” and reply
> with the output?
>
> The conda-forge project has been rebuilding packages the
> past few days to address issues with libicu like what
> you’ve experienced.
>
> Thanks,
> Kevin
>
> On Feb 7, 2017, at 1:23 PM, Marcia Branstetter
> <branstetterm at ornl.gov> wrote:
>
> Hi,
>
> I installed PyNIO and PyNGL on a computer:
> Linux 3.10.0-327.4.4.el7.x86_64 #1 SMP Tue Jan
> 5 16:07:00 UTC 2016 x86_64
> x86_64 x86_64 GNU/Linux
> today, using
> conda create --name pyn_test --channel
> conda-forge pynio
> pyngl
>
> but after I activate pyn_test, go into python
> and then try to import Nio,
> I get an error message:
> import Nio
>
> Traceback (most recent call last):
> File "<stdin>", line 1, in <module>
> File
> "/home/mbranst/miniconda2/envs/pyn_test/lib/python2.7/site-packages/PyNIO/N
> io.py",
> line 83, in <module>
> from nio import *
> ImportError: libicui18n.so.58: cannot open
> shared object file: No such
> file or directory
> import Ngl
>
> Segmentation fault (core dumped)
>
> If I import Ngl first, and print the version,
> I get
> import Ngl
> print
> Ngl.__version__
>
> 1.5.0_beta20161122
>
> A few weeks ago, I installed PyNIO and PyNGL
> in the same way on another
> linux machine, and it's been working fine.
>
> I tried installing on a linux virtual machine
> today and got the same
> errors.
>
> Thanks,
> Marcia Branstetter
>
>
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