[Users] Combine multiple h5 files

[Hamilton, Maria]

Thank you so much for the help!

_______________________
Maria C. Babiuc Hamilton, Ph.D.
Professor, Department of Physics
College of Science, Marshall University,
1 John Marshall Drive, Huntington, WV, 25755
Room S 257, Phone: (304)696-2754


________________________________
From: Roland Haas
Sent: Wednesday, June 15, 2022 4:29 PM
To: Chris Stevens
Cc: Hamilton, Maria; users at einsteintoolkit.org
Subject: Re: Combine multiple h5 files

Hello all,

Chris' answer is absolutely correct.

The utilities are built by default by Simfactory and by doing `make
sim-utils` using a non-simfactory build.

hdf5_merge is the tool to use to combine multiple HDF5 files, eg
different variables or multiple segments of the same simulation.

It won't merge output files from multiple processes into a single file
(so foo.xyz.file_0.h5 and foo.xyz.file_1.h5 cannot be merged but
foo.xyz.file_0.h5 and bar.xyz.file_0.h5 can be merged).

If you need merge files foo.xyz.file_0.h5 and foo.xyz.file_1.h5 into
foo.xyz.h5 then you can use the hdf5_slicer utility and its
--out3d-cube option (hdf5_slicer --help gives some examples).

Yours,
Roland

> KIa ora Maria,
>
> For me, there are hdf scripts located in Cactus/exe/<Build name>,
> such as hdf5_merge, which should do what you are after. These
> potentially may only be there for certain build options but someone
> more knowledgeable than me can probably expand on that.
>
> Cheers,
>
> Chris
>
> [cid:8795d7d8-3669-4adf-905d-788d81a3ba8c]
>
>
> [cid:3a28163e-f206-41a5-8619-e8b15edd91b0]
>
>
>
> Dr Chris Stevens
>
> Lecturer in Applied Mathematics
>
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> ________________________________
> From: users-bounces at einsteintoolkit.org
> <users-bounces at einsteintoolkit.org> on behalf of Hamilton, Maria
> <babiuc at marshall.edu> Sent: 16 June 2022 08:02 To: Roland Haas
> <rhaas at illinois.edu> Cc: users at einsteintoolkit.org
> <users at einsteintoolkit.org> Subject: [Users] Combine multiple h5 files
>
> You don't often get email from babiuc at marshall.edu. Learn why this is
> important<https://urldefense.com/v3/__https://aka.ms/LearnAboutSenderIdentification__;!!DZ3fjg!7WZG6jdWvLk-xY5fpz4Gs3WVdDMulNQE0FhbqLOwxf9IysF59IG7mH_Z0TF3XaW3u_RV_uOqShXgQ0PhdVxvHwVDSfd6n3TN$
> > Hi,
>
> I have a quick question: my output has a series of ....xyz.file_...h5
> and I would like to look at them. Do I have to combine them? If yes,
> is there a way to combine them in one single file?
>
> Maria
>
> _______________________
> Maria C. Babiuc Hamilton, Ph.D.
> Professor, Department of Physics
> College of Science, Marshall University,
> 1 John Marshall Drive, Huntington, WV, 25755
> Room S 257, Phone: (304)696-2754
>



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