[yt-users] Stacked temperature profiles

[Thor Andreas Seiff Ellewsen]

Hi again.

Thank for helping me Britton!

I think I've gotten the halo catalog saved to file now, but I'm having
problems loading it using HaloCatalog.
I've used the code you provided, and everything seems to be going fine
until I try loading the catalog.

If I try this:
save_as_dataset(ds,'test.h5', data, field_types=ftypes,
extra_attrs=extra_attrs)
ds_halo = load('test.h5')
hc = HaloCatalog(data_ds=ds, halos_ds=ds_halo)

This returns
IOError: Unable to open file (Unable to open file: name = '.0.h5', errno =
2, error message = 'no such file or directory', flags = 0, o_flags = 0)

I tried using
save_as_dataset(ds,'test.0.h5', data, field_types=ftypes,
extra_attrs=extra_attrs)
ds_halo = load('test.0.h5')
hc = HaloCatalog(data_ds=ds, halos_ds=ds_halo)
instead, but then I get

IOError: Unable to open file (Unable to open file: name = 'test.1.h5',
errno = 2, error message = 'no such file or directory', flags = 0, o_flags
= 0)

It seems it's trying to open more than one file for some reason?
Did I misunderstand something?

I've uploaded the code again to http://paste.yt-project.org/show/7062/

Best,
Andreas Ellewsen

On Thu, 2 Mar 2017 at 19:37 Britton Smith <brittonsmith at gmail.com> wrote:

Hi Andreas,

I think all this can be done very cleanly using yt's halo analysis
toolkit.  I'd be happy to help you with this.

Documentation for the halo analysis, also called the HaloCatalog, is here:
http://yt-project.org/docs/dev/analyzing/analysis_modules/halo_catalogs.html#halo-catalog-analysis

The HaloCatalog works with the simulation snapshot and the halo finder
output in tandem to run a pipeline of analysis that you define.  yt comes
with a number of functions out of the box for doing profiling, etc,
including scaling of profiles to r_vir.

Before that, you will need to convert your halo finder output into a form
that yt can read in using yt.load.  This should be relatively
straightforward.  I've sketched out how to do this here:
http://paste.yt-project.org/show/7061/
The code snippet there assumes some of the variables you've got in the
script you posted.

There may be some hiccups still, but I'm happy to work with you to get it
going.  Once that works, you should be able to use the HaloCatalog as
documented to do the rest, but feel free to ask any other questions you
might have.

Britton

On Wed, Mar 1, 2017 at 5:16 AM, Thor Andreas Seiff Ellewsen <
tellewsen at gmail.com> wrote:

Hi everyone.

I'm currently working on making temperature and density profiles from some
ramses simulations.
I'd like to make these profiles the average radial profile of the halos in
the simulation.

I think the included rockstar in yt supports this in some form, but my halo
catalog is made using AHF and then imported from an ascii file.

To do this I need help with two things:
The first one is how to scale the radius of each profile to the
corresponding virial radius.
The other is how to actually average all these profiles.

Is this something that can be done?

I will be trying to compare the resulting profile with the same for
different simulations in the end, but I don't expect to have any big
problems with that.

The code I'm currently using for this can be found at
http://paste.yt-project.org/show/7058/

Best,
Andreas Ellewsen

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