Hi Nathan,

Removing netcdf4 fixed the issue. Thanks for the help!

I'll see if I can get a link to the dataset to you.

-Paco

On Wed, Sep 19, 2018 at 11:03 PM, Nathan Goldbaum <nathan12343@gmail.com> wrote:

Hi,

This is an issue with conda-forge’s netcdf4 library. If you don’t actually need netcdf4 you can just uninstall the library and this issue will go away.

I’m a little concerned this is happening with a fresh yt installation, since I thought conda-forge

had updated their netcdf4 package to turn off these debug checks. If you could share the dataset that triggers this I might be able to reproduce this and report it to conda-forge

so the package can be fixed.

Nathan

On Wed, Sep 19, 2018 at 9:16 PM Paco Holguin <opaco450@gmail.com> wrote:

Hi,

I recently tried to re-install yt on my home directory of a local cluster. I used the all in one script. After installation I added the yt path to the PATH environment variable.

The installation looks ok, and the command "yt --help" works.  However, when I try to load data, which worked with a previous installation, I get this error:

Python 3.6.6 | packaged by conda-forge | (default, Jul 26 2018, 09:53:17) 

[GCC 4.8.2 20140120 (Red Hat 4.8.2-15)] on linux

Type "help", "copyright", "credits" or "license" for more information.

>>> import yt

>>> yt.load("disk_mhdhdf5_chk_0020")

python: /home/conda/feedstock_root/build_artifacts/libnetcdf_1535659474245/work/libsrc4/nc4var.c:431: nc4_vararray_add: Assertion `var->varid == grp->vars.nelems' failed.

Aborted (core dumped)

Does anyone know what this means? I must have missed something in the setup. I haven't used conda before.

Thanks!

Paco

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