[Users] error after activating IllinoisGRMHD and VolumeIntegrals_GRMHD
Zach Etienne
zachetie at gmail.com
Thu Jul 19 12:31:50 CDT 2018
Dear Chia-Hui,
Thank you for your report! I just updated the parameter files to fix these
issues (sorry, I should've checked earlier), and they seem to run fine now
when using the latest Einstein Toolkit release, ET_2018_02. There may be
some remaining warnings about ML_BSSN parameters, but these may be safely
ignored.
Please consider attending the next IllinoisGRMHD Working Group telecon next
Thursday or Friday; respond to http://whenisgood.net/pfjbm3c if you are
interesting in attending.
-Zach
* * *
Zachariah Etienne
Assistant Professor of Mathematics
West Virginia University
*https://math.wvu.edu/~zetienne/ <https://math.wvu.edu/~zetienne/>*
https://blackholesathome.net
On Thu, Jul 19, 2018 at 9:30 AM, 林家暉 <r06222015 at ntu.edu.tw> wrote:
> Dear Zach,
> Thank you for updating the parameter file. But I have several questions :
> 1.It seems some name of parameters should be changed,
> from VolumeIntegrals_GRMHD::volintegral_inside_sphere__center_x_initial
> to VolumeIntegrals_GRMHD::volintegral_sphere__center_x_initial
> and
> from VolumeIntegrals_vacuum::volintegral_inside_sphere__tracks__amr_centre
> to VolumeIntegrals_vacuum::amr_centre__tracks__volintegral_inside_sphere
>
> 2. There is an error message for this parameter IllinoisGRMHD::Symmetry =
> 0:
>
> in thorn IllinoisGRMHD, file nsns_test.par:78:
> -> Invalid assignment: Attempting to set a variable of type KEYWORD with (INT)0
>
>
> I tried to change 0 to "no", another error message appeared:
>
> ParameterSetKeyword: Unable to set keyword 'IllinoisGRMHD::Symmetry', new
> value 'no' is not in any active range
>
> 3.For parameter IOUtil::checkpoint_dir= ABEoutput_directory-$parfile
>
> There is an error message:
>
> in thorn IOUtil, file nsns_test.par:388:
> -> Unknown add operator: -
> Interpreting as literal string with value 'ABEoutput_directory-nsns_test'
>
> I met obove problems when I executed the code.How could I modify?
> Thank you very much.
>
> Best regards,
> Chia-Hui
>
> ------------------------------
> *寄件者:* Zach Etienne <zachetie at gmail.com>
> *寄件日期:* 2018年7月18日 下午 09:07:46
>
> *收件者:* 林家暉
> *副本:* Einstein Toolkit Users
> *主旨:* Re: [Users] error after activating IllinoisGRMHD and
> VolumeIntegrals_GRMHD
>
> Dear Chia-Hui,
>
> Thanks so much for sending the error message. Based on the file you sent,
> I was able to push a few bugfixes to the WVUThorns_Diagnostics arrangement.
>
> I also updated the example parameter files and moved them to a new
> location:
> wvuthorns_diagnostics/NSNS_parameter_files
>
> You'll find that nsns_test.par has been updated as well.
>
> Please grab the latest wvuthorns_diagnostics git repo. I'd suggest
> comparing the updated nsns_test.par to the version you sent me and
> modifying as needed so that your neutron stars are properly centered
> (you'll need to replace +/- "20.319527" with the locations of the neutron
> stars in your initial data).
>
> Thanks again, and let me know if you run into further troubles.
>
> -Zach
>
> * * *
> Zachariah Etienne
> Assistant Professor of Mathematics
> West Virginia University
> *https://math.wvu.edu/~zetienne/ <https://math.wvu.edu/~zetienne/>*
> https://blackholesathome.net
>
> On Wed, Jul 18, 2018 at 2:26 AM, 林家暉 <r06222015 at ntu.edu.tw> wrote:
>
>> Dear Zach,
>> I modified nsns_test.par as the attached file by replacing
>> VolumeIntegrals with VolumeIntegrals_GRMHD and remove the line using centeroflapse
>> which is for VolumeIntegrals_vacuum. Then I got the error message as the
>> attached file.What else should I modify?
>> By the way , my ETK version is ET_2018_02.
>> On the other hand,I am still trying to use illinoisGRMHD in the gallery
>> example (nsnstohmns.par),but not yet success. I haven't come up with ideal
>> how to make it compatible with IllinoisGRMHD.
>> Thanks,
>> Best regards,
>> Chia-Hui
>> ------------------------------
>> *寄件者:* Zach Etienne <zachetie at gmail.com>
>> *寄件日期:* 2018年7月18日 上午 03:17:53
>>
>> *收件者:* 林家暉
>> *副本:* Einstein Toolkit Users
>> *主旨:* Re: [Users] error after activating IllinoisGRMHD and
>> VolumeIntegrals_GRMHD
>>
>> Dear Chia-Hui,
>> > Does this mean that I should update the parameter file in order to use
>> them ?
>>
>> Yes, though this should be simple. I would expect that simply replacing
>> all references to VolumeIntegrals by references to VolumeIntegrals_GRMHD
>> will fix the problem.
>>
>> > I have already produced some initial data by LORENE.
>>
>> Great to hear. You will need to modify the parameter file so that the AMR
>> grid structures are properly centered on each neutron star initially.
>>
>> > Can I consult for your suggestion that which method would be more
>> efficient and proper without tracking problem? Or there are other possible
>> solution?
>>
>> I am unsure what advice would be best. You have told me is that the code
>> exits unexpectedly. To help diagnose, I will need to know the exact version
>> of the ETK you are using and the error message.
>>
>> -Zach
>>
>> * * *
>> Zachariah Etienne
>> Assistant Professor of Mathematics
>> West Virginia University
>> *https://math.wvu.edu/~zetienne/ <https://math.wvu.edu/~zetienne/>*
>> https://blackholesathome.net
>>
>> On Tue, Jul 17, 2018 at 10:18 AM, 林家暉 <r06222015 at ntu.edu.tw> wrote:
>>
>>> Dear Zach,
>>> It seems that none parameter file in https://bitbucket.org/zach_
>>> etienne/wvuthorns_diagnostics/src/a7dfd31684ba/Meudon_Bin_NS
>>> -modified/par/?at=master uses VolumeIntegrals_GRMHD but use VolumeIntegrals
>>> instead. Does this mean that I should update the parameter file in order to
>>> use them ?
>>> My main goal is to simulate binary neutron star with unequal mass, and I
>>> have already produced some initial data by LORENE. It seems now I have two
>>> options. First is to modify (update) one of the parameter files above(e.g.
>>> nsns_test.par ) and second is significantly modify nsnstohmns.par in
>>> the gallery. Can I consult for your suggestion that which method would
>>> be more efficient and proper without tracking problem? Or there are other
>>> possible solution?
>>>
>>> Thank you.
>>> Best regards,
>>> Chia-Hui
>>> ------------------------------
>>> *寄件者:* Zach Etienne <zachetie at gmail.com>
>>> *寄件日期:* 2018年7月17日 下午 09:53:20
>>>
>>> *收件者:* 林家暉
>>> *副本:* Einstein Toolkit Users
>>> *主旨:* Re: [Users] error after activating IllinoisGRMHD and
>>> VolumeIntegrals_GRMHD
>>>
>>> Dear Chia-Hui,
>>>
>>> > Is there a thorn called VolumeIntegrals ?
>>>
>>> No, there isn't, and this *might* be evidence that the parameter file
>>> you chose is outdated (try to find one that depends on
>>> VolumeIntegrals_GRMHD): the old "VolumeIntegrals" thorn was split into the
>>> VolumeIntegrals_GRMHD and VolumeIntegrals_vacuum thorns. The former can use
>>> IllinoisGRMHD gridfunctions and the latter can use McLachlan gridfunctions.
>>> VolumeIntegrals_GRMHD is used to find the center of masses of the
>>> neutron stars so their motion can be tracked by the AMR grids.
>>>
>>> > And I am curious about: what is the main difference between the
>>> parameter file (nsnstohmns.par) in the gallery example and nsns_test.par ?
>>>
>>> The nsns_test.par is designed to evolve the "Missing Link" case (
>>> https://arxiv.org/abs/1101.4298), which is probably different than the
>>> gallery example. To run this case, you'll need to use the LORENE initial
>>> data file here (credit: Meudon group; you can find this case on the LORENE
>>> website -- https://lorene.obspm.fr/ -- as well, but you'll need to hunt
>>> for it):
>>> http://math.wvu.edu/~zetienne/resu.d
>>>
>>> -Zach
>>>
>>> * * *
>>> Zachariah Etienne
>>> Assistant Professor of Mathematics
>>> West Virginia University
>>> *https://math.wvu.edu/~zetienne/ <https://math.wvu.edu/~zetienne/>*
>>> https://blackholesathome.net
>>>
>>> On Tue, Jul 17, 2018 at 9:26 AM, 林家暉 <r06222015 at ntu.edu.tw> wrote:
>>>
>>>> Dear Zach,
>>>>
>>>> Sorry for late reply. I have tried one of the parameter file you
>>>> mentioned ( nsns_test.par ). I have a question for this file that the
>>>> thorn VolumeIntegrals should be activated but I can only find VolumeIntegrals_GRMHD
>>>> and VolumeIntegrals_vacuum. After I tried both thorns, I chose
>>>> VolumeIntegrals_GRMHD(that is, I change all VolumeIntegrals into VolumeIntegrals_GRMHD
>>>> in the nsns_test.par).However the code stopped after several minutes
>>>> running. So what I want to ask is: Is there a thorn called VolumeIntegrals ?
>>>> Since I cannot find after searching and I think it is the reason
>>>> terminating the code.
>>>>
>>>> And I am curious about: what is the main difference between the
>>>> parameter file (nsnstohmns.par) in the gallery example and nsns_test.par
>>>> ?
>>>>
>>>>
>>>> Thank you.
>>>>
>>>> Best regards,
>>>>
>>>> Chia-Hui
>>>> ------------------------------
>>>> *寄件者:* Zach Etienne <zachetie at gmail.com>
>>>> *寄件日期:* 2018年7月14日 上午 02:41:24
>>>>
>>>> *收件者:* 林家暉
>>>> *副本:* Einstein Toolkit Users
>>>> *主旨:* Re: [Users] error after activating IllinoisGRMHD and
>>>> VolumeIntegrals_GRMHD
>>>>
>>>> Hi Chia-Hui,
>>>>
>>>> If you really want to use VolumeIntegrals_GRMHD, you are more than
>>>> welcome to do so. However, the parameter file you are using from the
>>>> examples gallery will need to be significantly modified to be compatible
>>>> with IllinoisGRMHD. My immediate thought (which may be correct or
>>>> incorrect) is that it is attempting to initialize both GRHydro and
>>>> IllinoisGRMHD simultaneously.
>>>>
>>>> If you want to use IllinoisGRMHD, the easiest route would be to start
>>>> with a parameter file in the following wvuthorns_diagnostics directory:
>>>> https://bitbucket.org/zach_etienne/wvuthorns_diagnostics/src
>>>> /master/Meudon_Bin_NS-modified/par/
>>>>
>>>> I haven't had time yet to fully set up a gallery example for this BNS
>>>> case, so beware: you may need to modify the parameter file a bit to make it
>>>> work properly. I'm hoping to schedule the next IllinoisGRMHD Working Group
>>>> telecon in the next few weeks, so please stay tuned if you are interested.
>>>>
>>>> -Zach
>>>>
>>>> * * *
>>>> Zachariah Etienne
>>>> Assistant Professor of Mathematics
>>>> West Virginia University
>>>> http://math.wvu.edu/~zetienne/
>>>> http://blackholesathome.net
>>>>
>>>> On Fri, Jul 13, 2018 at 11:50 AM, 林家暉 <r06222015 at ntu.edu.tw> wrote:
>>>>
>>>>> Dear Zach,
>>>>> Becasue if I only activate VolumeIntegrals_GRMHD but not IllinoisGRMHD
>>>>> , there will be following error in the .out file:
>>>>>
>>>>> Error: Implementation 'ILLINOISGRMHD' not activated.
>>>>> This implementation is required by activated thorn(s):
>>>>> VolumeIntegrals_GRMHD (implementing VolumeIntegrals_GRMHD)
>>>>> This implementation is provided by compiled thorn(s):
>>>>> IllinoisGRMHD
>>>>> Add a thorn providing this implementation to the ActiveThorns
>>>>> parameter.
>>>>> Activation failed - 1 errors in activation sequence
>>>>>
>>>>> It seems it is required to activate IllinoisGRMHD in order to use
>>>>> VolumeIntegrals_GRMHD.
>>>>>
>>>>> Thanks,
>>>>> Chia-Hui
>>>>> ------------------------------
>>>>> *寄件者:* Zach Etienne <zachetie at gmail.com>
>>>>> *寄件日期:* 2018年7月13日 下午 09:04:30
>>>>> *收件者:* 林家暉
>>>>> *副本:* Einstein Toolkit Users
>>>>> *主旨:* Re: [Users] error after activating IllinoisGRMHD and
>>>>> VolumeIntegrals_GRMHD
>>>>>
>>>>> Hi Chia-Hui,
>>>>>
>>>>> Is there a reason you are using IllinoisGRMHD for this particular
>>>>> example? The example was written for GRHydro.
>>>>>
>>>>> -Zach
>>>>>
>>>>> * * *
>>>>> Zachariah Etienne
>>>>> Assistant Professor of Mathematics
>>>>> West Virginia University
>>>>> http://math.wvu.edu/~zetienne/
>>>>> http://blackholesathome.net
>>>>>
>>>>> On Thu, Jul 12, 2018 at 11:35 PM, 林家暉 <r06222015 at ntu.edu.tw> wrote:
>>>>>
>>>>>> Dear whom it may concern,
>>>>>> I tried to solve the tracking problem of unequal mass binary neutron (
>>>>>> http://einsteintoolkit.org/gallery/bns/index.html ) star by using
>>>>>> the thorn WVUThorns_Diagnostics / VolumeIntegrals_GRMHD . Therefore
>>>>>> I activate both IllinoisGRMHD and VolumeIntegrals_GRMHD. However I
>>>>>> met the error which showed in both .err file and .out file.
>>>>>>
>>>>>> In .err file:
>>>>>> Thu Jul 12 08:03:04 2018: [unset]:_pmi_alps_init:alps_get_placement_info
>>>>>> returned with error -1
>>>>>> Thu Jul 12 08:03:04 2018: [unset]:_pmi_init:_pmi_alps_init returned
>>>>>> -1
>>>>>>
>>>>>> In .out file:
>>>>>> INFO (IllinoisGRMHD): Font fix failed!
>>>>>> INFO (IllinoisGRMHD): i,j,k = 78 31 41, stats.failure_checker = 10000
>>>>>> x,y,z = -1.800000e+01 -7.593750e+00 1.068750e+01 , index=574610 st_i = -nan
>>>>>> -nan -nan, rhostar = 2.902693e+243, Bi = 0.000000e+00 0.000000e+00
>>>>>> 0.000000e+00, gij = 1.295702e+00 0.000000e+00 0.000000e+00 1.295702e+00
>>>>>> 0.000000e+00 1.295702e+00, Psi6 = 1.474883e+00
>>>>>> INFO (IllinoisGRMHD): Couldn't find root from: -nan 2.902693e+243
>>>>>> -nan -nan -nan, rhob approx=1.968084e+243, rho_b_atm=1.000000e+200,
>>>>>> Bx=0.000000e+00, By=0.000000e+00, Bz=0.000000e+00, gij_phys=1.295702e+00
>>>>>> 0.000000e+00 0.000000e+00 1.295702e+00 0.000000e+00 1.295702e+00,
>>>>>> alpha=8.746533e-01
>>>>>>
>>>>>> I am not sure what these error exactly mean and how to solve it.
>>>>>>
>>>>>> Thanks.
>>>>>> Chia-Hui
>>>>>>
>>>>>>
>>>>>> _______________________________________________
>>>>>> Users mailing list
>>>>>> Users at einsteintoolkit.org
>>>>>> http://lists.einsteintoolkit.org/mailman/listinfo/users
>>>>>>
>>>>>>
>>>>>
>>>>
>>>
>>
>
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