[yt-users] IO error

[Britton Smith]

Hi everyone,

I just wanted to provide some resolution to this issue.  The issue had to
do with some problems that have cropped up when trying to read hdf5 string
attributes in Python 3.  You wouldn't see this if you were still using
Python 2.  This has been resolved with the following pull request, which
has already been accepted:
https://github.com/yt-project/yt/pull/1487

Britton

On Mon, Jul 10, 2017 at 1:13 PM, Britton Smith <brittonsmith at gmail.com>
wrote:

> Hi Nick,
>
> This is a bit puzzling since I think there have been relatively few
> changes to the halo catalog frontend responsible for loading that data.
> That said, I would be more than happy to take a look as I am responsible
> for much of this code.  Would you be able to share either 1) this dataset
> that is failing to load or 2) a script that uses example data that I can
> run to reproduce this?
>
> Britton
>
> On Mon, Jul 10, 2017 at 8:53 AM, Nick Gnedin <ngnedin at gmail.com> wrote:
>
>>
>> Folks,
>>
>> I have encountered a bizarre IO error. I am reading a file previously
>> created by yt HOP halo finder on two separate machines. The file reads
>> correctly on the machine it was created on, but on another machine with the
>> most recent anaconda install (yt 3.3.5) the format is not recognized. Both
>> machines are little endian. Is there any way to get more info on what yt
>> does not like about that file?
>>
>> yt : [ERROR    ] 2017-07-10 10:46:00,454 Couldn't figure out output type
>> for hop.0.h5
>> Traceback (most recent call last):
>>   File "hmf.py", line 14, in <module>
>>     Plot("hop.0.h5",color="b")
>>   File "hmf.py", line 8, in Plot
>>     my_halos = load(file)
>>   File "/ext/anaconda3/lib/python3.6/site-packages/yt/convenience.py",
>> line 98, in load
>>     raise YTOutputNotIdentified(args, kwargs)
>> yt.utilities.exceptions.YTOutputNotIdentified: Supplied ('hop.0.h5',)
>> {}, but could not load!
>>
>> Here is the script (taken form your examples):
>>
>>
>> import yt
>> from yt.mods import *
>> from yt.analysis_modules.halo_mass_function.api import *
>> import matplotlib.pyplot as plt
>>
>> def Plot(file,color="r"):
>>     my_halos = load(file)
>>     hmf = HaloMassFcn(halos_ds=my_halos)
>>     plt.loglog(hmf.masses_analytic, hmf.n_cumulative_analytic,colo
>> r="orange",linewidth=3)
>>     plt.loglog(hmf.masses_sim, hmf.n_cumulative_sim,color=col
>> or,linewidth=3)
>>
>> Plot("hop.0.h5",color="b")
>>
>>
>> Thank you for your advice,
>>
>> Nick Gnedin
>> _______________________________________________
>> yt-users mailing list
>> yt-users at lists.spacepope.org
>> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
>>
>
>
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