[Users] problem with first example simulation with ETK
Ian Hinder
ian.hinder at aei.mpg.de
Tue Jan 17 03:13:50 CST 2012
On 16 Jan 2012, at 23:21, Jose Fiestas Iquira wrote:
> Thanks, I am attaching the output file.
The output file looks fine - I can't see any problem with the simulation. According to the output file, it reached t = 100 M, and in the parameter file that is listed as cctk_final_time, so all looks well!
> I did copy the development version. As I can see, it was already
> fixed, so I should not get this warning, since I copied the
> development version.
Yes, if you are using the current development version, then I don't know why you get the warning. Can you check which version of Carpet you have by doing
cd repos/carpet
hg tip
to be sure you are using the development version?
> Is the puncture tracker not a better way to plot BH trajectories.
It's cheaper to use the puncture tracker, because computing the horizon centroid is more expensive, but it has to be done every iteration, whereas the horizon can be found less frequently. For comparison with point-particle results, I don't think it makes much difference; the results are gauge dependent anyway so differences on the order of the horizon size cannot be interpreted physically. Since the parameter file already has horizon-finding built in, it is easier for you to use that.
If you want to figure out how to add the puncture tracker to the simulation, you can start with these parameters:
ActiveThorns = "PunctureTracker"
PunctureTracker::track [0] = yes
PunctureTracker::initial_x [0] = $xp
PunctureTracker::which_surface_to_store_info[0] = 0
PunctureTracker::track [1] = yes
PunctureTracker::initial_x [1] = $xm
PunctureTracker::which_surface_to_store_info[1] = 1
IOASCII::out0D_vars = "PunctureTracker::pt_loc"
Replace $xp and $xm with the initial x coordinates of the +x and -x punctures (this will be \pm TwoPunctures::par_b). You then need to choose two spherical surfaces (https://docs.einsteintoolkit.org/et-docs/Einstein_Toolkit_standards) which are not being used currently to store the puncture locations in. If there is already 0D output, just add the puncturetracker variable separated with a space.
> I
> did some plots, what are really the combinations xx, xy, xz, yy, zz ?
> Are they related to the trajectories of one BH (projections)? What
> about the second BH?
You should have BH_diagnostics.ah1.gp and BH_diagnostics.ah2.gp. These correspond to the first and second BHs. If you look at the top of these files, you will see an explanation of the columns. More information about each column is available in the AHFinderDirect documentation (http://einsteintoolkit.org/documentation/ThornGuide/ThornGuidech128.html#x144-2264000O4). Specifically, information about the BH_diagnostics output files is at http://einsteintoolkit.org/documentation/ThornGuide/ThornGuidech128.html#x144-2274000O4.5.5
To plot the trajectory of one of the BHs, you want to plot column 3 and column 4 in a parametric plot.
> Cheers,
> Jose
>
> On Mon, Jan 16, 2012 at 4:39 AM, Ian Hinder <ian.hinder at aei.mpg.de> wrote:
>>
>> On 14 Jan 2012, at 00:41, Jose Fiestas Iquira wrote:
>>
>> Hi Ian,
>> I did the changes but it started and finished early. I am attaching
>> the qc0-mclachlan.err file. At the end there is a warning in one of
>> the Carpet files (mask_test.c)
>>
>>
>> The warning you see,
>>
>> WARNING level 1 in thorn CarpetReduce processor 0 host qb517
>> (line 120 of
>> /home/ettest24/Cactus/arrangements/Carpet/CarpetReduce/src/mask_test.c):
>> -> Simulation domain volume and reduction weight sum differ
>>
>> is a known issue (https://trac.einsteintoolkit.org/ticket/434) which was
>> fixed after the last release and the fix is only available in the
>> development version. I believe that the warning is not fatal, and it should
>> not have terminated the simulation. Can you also post the qc0-mclachlan.out
>> file?
>>
>> Where can I find the puncture tracker?
>>
>>
>> The PunctureTracker thorn is part of the Einstein Toolkit thornlist, so you
>> should have it already. However, I think the best thing for you to do
>> initially would be to look at the BH_diagnostics files for the apparent
>> horizon centroid locations for tracking the locations of the BHs.
>>
>>
>>
>>
>> Thanks,
>> Jose
>>
>> On Fri, Jan 13, 2012 at 4:38 AM, Ian Hinder <ian.hinder at aei.mpg.de> wrote:
>>
>>
>> On 13 Jan 2012, at 12:32, Jose Fiestas Iquira wrote:
>>
>>
>> Yes, trajectories and wave forms would be enough for now. Which are
>>
>> the names of this files? Many of the .asc files have data like kxx,
>>
>> kxy, kxz, etc. Is there any description of them?
>>
>>
>> Not that I am aware of. Files with extension .x.asc are 1D ascii output of
>> grid functions from CarpetIOASCII. kxy is the variable name for the x,y
>> component of the extrinsic curvature tensor K. The waveform file should be
>> in mp_psi4_l2_m2_r*.asc where * corresponds to the radius of the extraction
>> sphere. However, looking at the qc0-mclachlan.par file, I see that there is
>> no wave extraction switched on. You should be able to enable wave
>> extraction by adding something like the following to the parameter file:
>>
>>
>> ActiveThorns = "WeylScal4 CarpetInterp AEILocalInterp Multipole"
>>
>>
>> Multipole::nradii = 3
>>
>> Multipole::radius[0] = 30
>>
>> Multipole::radius[1] = 40
>>
>> Multipole::radius[2] = 50
>>
>> Multipole::variables = "WeylScal4::Psi4r{sw=-2 cmplx=’WeylScal4::Psi4i’}"
>>
>> Multipole::l_max = 4
>>
>> WeylScal4::fdOrder = 4
>>
>>
>> (I haven't tested this, so let me know if it doesn't work)
>>
>>
>> I've just found that the usual PunctureTracker thorn is not enabled in this
>> example parameter file. So to look at trajectories you will have to use the
>> apparent horizon centroids. These are in the files BH_diagnostics.ah*.gp.
>> The meanings of the columns are at the top of the files. You want the
>> centroid x and y columns to plot in GnuPlot.
>>
>>
>>
>>
>>
>>
>> Thanks,
>>
>> Jose
>>
>>
>> On Fri, Jan 13, 2012 at 12:41 AM, Ian Hinder <ian.hinder at aei.mpg.de> wrote:
>>
>>
>> On 12 Jan 2012, at 23:46, Jose Fiestas Iquira wrote:
>>
>>
>> Dear all,
>>
>>
>> I run the tutorial and found other interesting examples like the
>>
>> McLachlan tool for Binary Black Holes.
>>
>>
>> Regarding the McLachlan tool,
>>
>> Could somebody help me finding a description of the output? Is all
>>
>> contained in the .asc files? I would like to visualize it.
>>
>>
>>
>> Hi Jose,
>>
>>
>> What sort of output do you want to visualise? Cactus thorns typically
>>
>> output "lightweight" information such as BH trajectories and waveforms as
>>
>> ASCII, and more heavyweight data -- like gridfunctions -- as HDF5. For the
>>
>> trajectories (from thorn Puncture Tracker) and waveforms (from Multipole)
>>
>> you can use gnuplot or anything that can read standard ASCII output to
>>
>> visualise them. For gridfunctions in HDF5 format, I think the easiest way
>>
>> to get started is to use VisIt, for which there is a Carpet plugin (though
>>
>> installing VisIt is sometimes not so easy!).
>>
>>
>> Does anyone know if the Carpet plugin is distributed with VisIt yet? I
>>
>> believe that was the intention.
>>
>>
>>
>>
>> Cheers,
>>
>> Jose
>>
>>
>>
>> On Wed, Jan 11, 2012 at 7:06 PM, Jose Fiestas Iquira <jafiestas at lbl.gov>
>>
>> wrote:
>>
>>
>> Thanks to Erik for advise. ETK example simulation run successfully.
>>
>>
>>
>>
>> On Wed, Jan 11, 2012 at 11:49 AM, Jose Fiestas Iquira <jafiestas at lbl.gov>
>>
>> wrote:
>>
>>
>> Right, it looks good now:
>>
>>
>>
>> ./simfactory/bin/sim list-simulations
>>
>>
>> static_tov [ACTIVE (RUNNING), restart 0000, job id 595490]
>>
>>
>>
>> Let see how it looks when it finishes. The example was set to 8 hours.
>>
>>
>>
>> Thanks,
>>
>>
>> Jose
>>
>>
>>
>>
>> On Wed, Jan 11, 2012 at 11:45 AM, Erik Schnetter <schnetter at cct.lsu.edu>
>>
>> wrote:
>>
>>
>> On Wed, Jan 11, 2012 at 2:42 PM, Jose Fiestas Iquira <jafiestas at lbl.gov>
>>
>> wrote:
>>
>>
>>
>> The only thing is that now
>>
>>
>> $ ./simfactory/bin/sim list-simulations
>>
>>
>> returns
>>
>>
>>
>> Error: unknown command list-simulation
>>
>>
>> Aborting Simfactory.
>>
>>
>>
>> Did you really type "list-simulations", and the error message says
>>
>>
>> "list-simulation" (without the final "s")?
>>
>>
>>
>> -erik
>>
>>
>>
>> --
>>
>>
>> Erik Schnetter <schnetter at cct.lsu.edu> http://www.cct.lsu.edu/~eschnett/
>>
>>
>> _______________________________________________
>>
>>
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>>
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>>
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>>
>>
>> --
>>
>> Ian Hinder
>>
>> http://numrel.aei.mpg.de/people/hinder
>>
>>
>>
>> --
>>
>> Ian Hinder
>>
>> http://numrel.aei.mpg.de/people/hinder
>>
>>
>> <qc0-mclachlan.err>
>>
>>
>> --
>> Ian Hinder
>> http://numrel.aei.mpg.de/people/hinder
>>
> <qc0-mclachlan.out>
--
Ian Hinder
http://numrel.aei.mpg.de/people/hinder
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