[Users] Users Digest, Vol 184, Issue 14

Leonardo Werneck wernecklr at gmail.com
Thu Jul 31 12:26:08 CDT 2025


Dear Iosif,

I hope this message finds you well.

I'm not sure you already got a reply, but in case you haven't, my
understanding is that placeholders like @FOO@ are there to indicate things
you need to change yourself, manually.

So when you see something like:

#SBATCH -A @ALLOCATION@

then it means you should replace @ALLOCATION@ with the name of your
allocation in the specific cluster.

Someone else can correct me if this is not correct, but that's how I
usually handle these.

Cheers,
Leo


On Fri, Jul 25, 2025 at 8:06 AM <users-request at einsteintoolkit.org> wrote:

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> Today's Topics:
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>    1. SimFactory placeholder macros (IOSIF PANAGIOTIS)
>    2. Issue with ReadInterpolate (Luciano Combi)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Fri, 25 Jul 2025 10:43:36 +0000
> From: IOSIF PANAGIOTIS <PANAGIOTIS.IOSIF at units.it>
> To: Einstein Toolkit Users <users at einsteintoolkit.org>
> Subject: [Users] SimFactory placeholder macros
> Message-ID:
>         <
> AS8P250MB08637A69A316C8763E533B5FF959A at AS8P250MB0863.EURP250.PROD.OUTLOOK.COM
> >
>
> Content-Type: text/plain; charset="iso-8859-1"
>
> Hi,
>
> I have been following this document,
> https://einsteintoolkit.org/seminars/2022_02_24/index.html , to set up ET
> on my cluster, working also on some example configuration files.
>
> While preparing the submit and run scripts, I wanted to check the
> description of the @FOO@ macros that SimFactory uses.
>
> I checked these places but found no information.
>
>   *
> https://simfactory.bitbucket.io/simfactory2/userguide/ (no mention of
> macros)
>   *
>
> https://docs.einsteintoolkit.org/et-docs/Simulation_Factory_Advanced_Tutorial
> (1 mention of the @USER@ macro and a pointer to a section #Macros<
> https://docs.einsteintoolkit.org/et-docs/Simulation_Factory_Advanced_Tutorial#Macros>
> that seems missing)
>   *
> https://docs.einsteintoolkit.org/et-docs/Configuring_a_new_machine (there
> is no information on the submitscript and runscript)
>
> So I would like to ask:
>
> If e.g. I have this line in my submitscript:
> #SBATCH -A @ALLOCATION@
>
> Where is @ALLOCATION@ "read" from?
>
> My guess is that this is specified in the .ini file in this line:
> allocation = <project_account>
>
> Could you confirm if this is the case?
>
> Is there another source of documentation (that I might have missed)
> describing what these @FOO@ placeholders do?
>
> Best regards,
> Panagiotis
>
>
> -------------------
> Panagiotis Iosif
> postdoctoral researcher
> Department of Physics, University of Trieste
> Via Alfonso Valerio 2, Trieste 34127
> Italy
> -------------------
>
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> Message: 2
> Date: Fri, 25 Jul 2025 15:05:48 +0000
> From: Luciano Combi <lcombi at perimeterinstitute.ca>
> To: "users at einsteintoolkit.org" <users at einsteintoolkit.org>
> Subject: [Users] Issue with ReadInterpolate
> Message-ID:
>         <
> YQBPR0101MB544409A753F7D8E3ED3097D9CC59A at YQBPR0101MB5444.CANPRD01.PROD.OUTLOOK.COM
> >
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> Content-Type: text/plain; charset="iso-8859-1"
>
> Hi people,
>
> I have used ReadInterpolate successfully for different applications in the
> past. I'm now trying to use it to interpolate onto a new grid that has 5
> ghost zones i.e.:
>
> CoordBase::boundary_size_x_lower     = 5
> CoordBase::boundary_size_y_lower     = 5
> CoordBase::boundary_size_z_lower     = 5
> CoordBase::boundary_size_x_upper     = 5
> CoordBase::boundary_size_y_upper     = 5
> CoordBase::boundary_size_z_upper     = 5
> Driver::ghost_size                   = 5
> GRHydro::GRHydro_stencil             = 5
> But I'm getting this error:
>
> CCTK_Proc569.err <==
>   while executing schedule bin ReadInterpolate_ReadData, routine
> ReadInterpolate::ReadInterpolate_Read
>   in thorn ReadInterpolate, file
> /home/mvxcombi/ET_Zelmani/Cactus/arrangements/EinsteinInitialData/ReadInterpolate/src/read.c:559:
>   -> Skipping integer variable 'SPACEMASK::space_mask it=335925 tl=0 rl=0
> c=569'. Do not know how to interpolate integers.
> ERROR from host bcn1814.usr.hlrn.de process 569
>   while executing schedule bin ReadInterpolate_ReadData, routine
> ReadInterpolate::ReadInterpolate_Read
>   in thorn ReadInterpolate, file
> /home/mvxcombi/ET_Zelmani/Cactus/arrangements/EinsteinInitialData/ReadInterpolate/src/interpolate.cc:130:
>   -> There were 70227 points in 27 variables that could not be set.
> cactus_etk_devel:
> /home/mvxcombi/ET_Zelmani/Cactus/arrangements/Carpet/Carpet/src/helpers.cc:275:
> int Carpet::Abort(const cGH*, int): Assertion `0' failed.
> Rank 569 with PID 1675935 received signal 6
> Writing backtrace to AIC_interp/backtrace.569.txt
> The original grid has 3 ghost zones. I'm using the following parfile:
> # What to interpolate
> # -------------------
> ReadInterpolate::files                        =
> "checkpoint.chkpt.it_335925"
> ReadInterpolate::max_number_of_read_variables = 30
> ReadInterpolate::only_these_datasets          = ":Y_e, :rho, :temperature,
> :vel, :Ax, :Ay, :Az, :psi6phi, :kxx, :kxy, :kxz, :kyy, :kyz, :kzz, :gxx,
> :gxy, :gxz, :gyy, :gyz, :gzz, :betax, :betay, :betaz, :alp"
> ReadInterpolate::minimum_reflevel             = 0     # Default
> ReadInterpolate::maximum_reflevel             = 1000  # Default
>
> # Interpolator settings
> # ---------------------
> ReadInterpolate::epsilon                 = 1.e-12 #2  # Default
> ReadInterpolate::interpolator_half_width = -1      # Default, use
> cctk_nghostzones
> ReadInterpolate::interpolator_name       = "Lagrange polynomial
> interpolation"
> ReadInterpolate::interpolator_pars       = "
>     order = 3
>     boundary_off_centering_tolerance = {1. 1. 1. 1. 1. 1.}
>     boundary_extrapolation_tolerance = {1.e-12 1.e-12 1.e-12 1.e-12 1.e-12
> 1.e-12}
> "
>
> # Fixing the read-in data
> # -----------------------
> ReadInterpolate::shift_read_datasets_by[0] = 0.
> ReadInterpolate::shift_read_datasets_by[1] = 0.
> ReadInterpolate::shift_read_datasets_by[2] = 0.
>
> ReadInterpolate::enforce_symmetries_after_reading = no  # Default
> ReadInterpolate::fix_cell_centered_origins        = no  # Default
>
> Any suggestions on how to solve this issue?
>
> Thanks a lot!!
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