[FLASH-USERS] Trouble in opening HDF files

[Ryan Farber]

You can also use the python package "yt" to open hdf5 files in general:
https://yt-project.org/

Best,
--------
Ryan


On Fri, Jun 25, 2021 at 4:47 AM Jiří Löffelmann <loffejir at fjfi.cvut.cz>
wrote:

> Hi,
>
> I found out, that the script extract_rays.py is just outdated. The table
> lib changed the naming convention of its functions.
> I attach corrected extract_rays.py, which work for me.
>
> Regards
> Jiří Löffelmann
>
> út 22. 6. 2021 v 8:06 odesílatel Ong Jian Fuh <jianfuh.ong at eli-np.ro>
> napsal:
>
>> Hi,
>>
>> You can open this file for quick inspection by using visIt. You can
>> download it here:
>> https://visit-dav.github.io/visit-website/releases-as-tables/#latest
>>
>> The script extract_rays.py is to extract the laser ray only. You still
>> need visit to find other output like density. You can also use python to
>> extract the data. Other possibility is to use yt:
>> https://yt-project.org/doc/visualizing/plots.html
>>
>> Regards,
>>
>> Dr. Ong Jian Fuh
>> Extreme Light Infrastructure - Nuclear Physics
>> "Horia Hulubei" National Institute for Physics and Nuclear Engineering
>> 30 Reactorului Street, 077125 Magurele (Ilfov), Romaniawww.eli-np.ro
>>
>> On 22/06/2021 8:39 am, Sonali Khanna wrote:
>>
>> Dear all,
>>
>> I am able to run the example problem of the Laser slab.
>>
>> ./setup -auto LaserSlab -2d +cylindrical -nxb=16 -nyb=16 +hdf5typeio
>> \species=cham,targ +mtmmmt +laser +uhd3t +mgd mgd_meshgroups=6
>> \-parfile=example.par
>>
>> After that, I am trying to open the output "lasslab_hdf5_plt_cnt_0000"
>> using the code extract_rays.py, but this showing error.
>>
>> Traceback (most recent call last):
>>   File "extract_rays.py", line 156, in <module>
>>     write_vtk(fn)
>>   File "extract_rays.py", line 20, in write_vtk
>>     h5file = tables.openFile(filename, "r")
>> AttributeError: module 'tables' has no attribute 'openFile'.
>>
>> *Is there any way of extracting data from the hdf5 (output) file in
>> general? Any help in this is much appreciated.  *
>>
>> Thanks and regards
>> Sonali
>>
>>
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