Hi Erik,
I checked the log.txt file. The assigned allocation was loni_cactus06. I changed it to loni_cactus01 but I don't really know what options I have. How can I check to which I have access?
The results are so far the same. Run seems not to start.
Thanks, Jose
On Tue, Jan 10, 2012 at 7:05 PM, Erik Schnetter schnetter@cct.lsu.edu wrote:
Jose
If the job is "finished", then the .asc files should be there.
No, the job id should not be -1. Once a year, the name of the allocation changes; this happened about a week ago. (Usually the allocation contains a number which is increased by one.) Maybe you are submitting using the old, now dysfunctional allocation? Can you check to which allocations you have access? You can specify a non-default allocation using the --allocation=... option when submitting.
-eri
PS: I notice that you did not reply to the mailing list. The more people know details about your problem, the faster it will be solved -- and others may also benefit from reading the solution. Would you mind replying to the mailing list again?
On Tue, Jan 10, 2012 at 9:35 PM, Jose Fiestas Iquira jafiestas@lbl.gov wrote:
Hi Erik, I renamed the static_tov directory and submited again the example. The response was different:
[ettest24@qb4 Cactus]$ ./simfactory/bin/sim submit static_tov --parfile=par/static_tov.par --procs=32 -walltime=8:0:0]
Parameter file: /home/ettest24/Cactus/par/static_tov.par Skeleton Created Job directory: "/scratch/ettest24/simulations/static_tov" No testsuite option found Executable: "/home/ettest24/Cactus/exe/cactus_sim" Option list: "/scratch/ettest24/simulations/static_tov/SIMFACTORY/cfg/OptionList" Submit script: "/scratch/ettest24/simulations/static_tov/SIMFACTORY/run/SubmitScript" Run script: "/scratch/ettest24/simulations/static_tov/SIMFACTORY/run/RunScript" Parameter file: "/scratch/ettest24/simulations/static_tov/SIMFACTORY/par/static_tov.par" Assigned restart id: 0 Executing submit command: qsub /scratch/ettest24/simulations/static_tov/output-0000/SIMFACTORY/SubmitScript
And ...
[ettest24@qb4 Cactus]$ ./simfactory/bin/sim list-simulations static_tov [ACTIVE (FINISHED), restart 0000, job id -1]
The created directories
/scratch/ettest24/simulations/static_tov/output-0000 /scratch/ettest24/simulations/static_tov/output-0000-active
are, so far, similar as before. The job id -1 disturbs me. Is it OK? Still can not find any .acs files. Should it take long?
Thanks, Jose
On Tue, Jan 10, 2012 at 6:05 PM, Erik Schnetter schnetter@cct.lsu.edu wrote:
Jose
If you made an error submitting the simulation when you submitted the first time, then simfactory will remember some of these choices, and will ignore some of your command line arguments. You will either have to delete the simulation, or create a completely new simulation by choosing a different name.
Can you replace the simulation name "static_tov" by something else? It does not have to be related to the parameter file name. This will create a new simulation.
-erik
On Tue, Jan 10, 2012 at 7:31 PM, Jose Fiestas Iquira jafiestas@lbl.gov wrote:
Dear ETK users,
I am trying to run the ETK example as in https://docs.einsteintoolkit.org/et-docs/Tutorial_for_New_Users
Since /scratch/ettest24/simulations could not be find I created it. Now, after submission of the script with:
$ ./simfactory/bin/sim submit static_tov --parfile=par/static_tov.par --procs=32 --walltime=8:0:0
it gives me, for example:
$ Assigned restart id: 3 Executing submit command: qsub /scratch/ettest24/simulations/static_tov/output 0003/SIMFACTORY/SubmitScript
(I submitted it for the 3. time)
$ ./simfactory/bin/sim list-simulations gives me:
$ static_tov [ACTIVE (FINISHED), restart 0003, job id -1]
But I can not visualize the data, if present. Because: ~/scratch/simulations/static_tov/output-0000/static_tov (as in the tutorial) does not exist.
But it exists in my user directory:
/scratch/ettest24/simulations/static_tov
only any .asc file exists. So, I can not visualize the example (if run ...)
Few questions about the tutorial:
- Do I need a create a script for the example? Or is created automatically?
- How long should it take the example? Is it possible it is still running?
- Is ssh -Y qb.loni.org a typo? should be -X
Thank you and regards, Jose
On Tue, Dec 13, 2011 at 4:45 PM, Jose Fiestas Iquira jafiestas@lbl.gov wrote:
Dear colleagues,
I am a new ETK user and am running my first example simulation as described here https://docs.einsteintoolkit.org/et-docs/Tutorial_for_New_Users
I could not finish the example after: ./simfactory/bin/sim submit static_tov --parfile=par/static_tov.par --procs=32 --walltime=8:0:0
with the following error message: Parameter file: /home/ettest24/Cactus/par/static_tov.par Error: could not access simulation base directory /scratch/ettest24/simulations for reading and writing Aborting Simfactory.
Probably my LONI account is not completely set, or need to copy some data in /scratch/ettest24/simulations/ which does not exist?
Would appreciate any help.
All the best, Jose
Users mailing list Users@einsteintoolkit.org http://lists.einsteintoolkit.org/mailman/listinfo/users
-- Erik Schnetter schnetter@cct.lsu.edu http://www.cct.lsu.edu/~eschnett/
-- Erik Schnetter schnetter@cct.lsu.edu http://www.cct.lsu.edu/~eschnett/
Try loni_cactus07, increasing the "06" by one.
-erik
On Wed, Jan 11, 2012 at 1:57 AM, Jose Fiestas Iquira jafiestas@lbl.gov wrote:
Hi Erik,
I checked the log.txt file. The assigned allocation was loni_cactus06. I changed it to loni_cactus01 but I don't really know what options I have. How can I check to which I have access?
The results are so far the same. Run seems not to start.
Thanks, Jose
On Tue, Jan 10, 2012 at 7:05 PM, Erik Schnetter schnetter@cct.lsu.edu wrote:
Jose
If the job is "finished", then the .asc files should be there.
No, the job id should not be -1. Once a year, the name of the allocation changes; this happened about a week ago. (Usually the allocation contains a number which is increased by one.) Maybe you are submitting using the old, now dysfunctional allocation? Can you check to which allocations you have access? You can specify a non-default allocation using the --allocation=... option when submitting.
-eri
PS: I notice that you did not reply to the mailing list. The more people know details about your problem, the faster it will be solved -- and others may also benefit from reading the solution. Would you mind replying to the mailing list again?
On Tue, Jan 10, 2012 at 9:35 PM, Jose Fiestas Iquira jafiestas@lbl.gov wrote:
Hi Erik, I renamed the static_tov directory and submited again the example. The response was different:
[ettest24@qb4 Cactus]$ ./simfactory/bin/sim submit static_tov --parfile=par/static_tov.par --procs=32 -walltime=8:0:0]
Parameter file: /home/ettest24/Cactus/par/static_tov.par Skeleton Created Job directory: "/scratch/ettest24/simulations/static_tov" No testsuite option found Executable: "/home/ettest24/Cactus/exe/cactus_sim" Option list: "/scratch/ettest24/simulations/static_tov/SIMFACTORY/cfg/OptionList" Submit script: "/scratch/ettest24/simulations/static_tov/SIMFACTORY/run/SubmitScript" Run script: "/scratch/ettest24/simulations/static_tov/SIMFACTORY/run/RunScript" Parameter file: "/scratch/ettest24/simulations/static_tov/SIMFACTORY/par/static_tov.par" Assigned restart id: 0 Executing submit command: qsub /scratch/ettest24/simulations/static_tov/output-0000/SIMFACTORY/SubmitScript
And ...
[ettest24@qb4 Cactus]$ ./simfactory/bin/sim list-simulations static_tov [ACTIVE (FINISHED), restart 0000, job id -1]
The created directories
/scratch/ettest24/simulations/static_tov/output-0000 /scratch/ettest24/simulations/static_tov/output-0000-active
are, so far, similar as before. The job id -1 disturbs me. Is it OK? Still can not find any .acs files. Should it take long?
Thanks, Jose
On Tue, Jan 10, 2012 at 6:05 PM, Erik Schnetter schnetter@cct.lsu.edu wrote:
Jose
If you made an error submitting the simulation when you submitted the first time, then simfactory will remember some of these choices, and will ignore some of your command line arguments. You will either have to delete the simulation, or create a completely new simulation by choosing a different name.
Can you replace the simulation name "static_tov" by something else? It does not have to be related to the parameter file name. This will create a new simulation.
-erik
On Tue, Jan 10, 2012 at 7:31 PM, Jose Fiestas Iquira jafiestas@lbl.gov wrote:
Dear ETK users,
I am trying to run the ETK example as in https://docs.einsteintoolkit.org/et-docs/Tutorial_for_New_Users
Since /scratch/ettest24/simulations could not be find I created it. Now, after submission of the script with:
$ ./simfactory/bin/sim submit static_tov --parfile=par/static_tov.par --procs=32 --walltime=8:0:0
it gives me, for example:
$ Assigned restart id: 3 Executing submit command: qsub /scratch/ettest24/simulations/static_tov/output 0003/SIMFACTORY/SubmitScript
(I submitted it for the 3. time)
$ ./simfactory/bin/sim list-simulations gives me:
$ static_tov [ACTIVE (FINISHED), restart 0003, job id -1]
But I can not visualize the data, if present. Because: ~/scratch/simulations/static_tov/output-0000/static_tov (as in the tutorial) does not exist.
But it exists in my user directory:
/scratch/ettest24/simulations/static_tov
only any .asc file exists. So, I can not visualize the example (if run ...)
Few questions about the tutorial:
- Do I need a create a script for the example? Or is created automatically?
- How long should it take the example? Is it possible it is still running?
- Is ssh -Y qb.loni.org a typo? should be -X
Thank you and regards, Jose
On Tue, Dec 13, 2011 at 4:45 PM, Jose Fiestas Iquira jafiestas@lbl.gov wrote:
Dear colleagues,
I am a new ETK user and am running my first example simulation as described here https://docs.einsteintoolkit.org/et-docs/Tutorial_for_New_Users
I could not finish the example after: ./simfactory/bin/sim submit static_tov --parfile=par/static_tov.par --procs=32 --walltime=8:0:0
with the following error message: Parameter file: /home/ettest24/Cactus/par/static_tov.par Error: could not access simulation base directory /scratch/ettest24/simulations for reading and writing Aborting Simfactory.
Probably my LONI account is not completely set, or need to copy some data in /scratch/ettest24/simulations/ which does not exist?
Would appreciate any help.
All the best, Jose
Users mailing list Users@einsteintoolkit.org http://lists.einsteintoolkit.org/mailman/listinfo/users
-- Erik Schnetter schnetter@cct.lsu.edu http://www.cct.lsu.edu/~eschnett/
-- Erik Schnetter schnetter@cct.lsu.edu http://www.cct.lsu.edu/~eschnett/
Hi Erik,
It seems to work. More files appear in the directory. And now I can find me in qstat -u ettest24
qb2:
Req'd Req'd Elap Job ID Username Queue Jobname SessID NDS TSK Memory Time S Time -------------------- -------- -------- ---------- ------ ----- --- ------ ----- - ----- 595490.qb2 ettest24 checkpt static_tov 2531 4 1 -- 08:00 R 00:10
The only thing is that now $ ./simfactory/bin/sim list-simulations returns
Error: unknown command list-simulation Aborting Simfactory.
I will wait it finishes and check if the .asc files appear. Thanks, Jose
On Wed, Jan 11, 2012 at 5:44 AM, Erik Schnetter schnetter@cct.lsu.edu wrote:
Try loni_cactus07, increasing the "06" by one.
-erik
On Wed, Jan 11, 2012 at 1:57 AM, Jose Fiestas Iquira jafiestas@lbl.gov wrote:
Hi Erik,
I checked the log.txt file. The assigned allocation was loni_cactus06. I changed it to loni_cactus01 but I don't really know what options I have. How can I check to which I have access?
The results are so far the same. Run seems not to start.
Thanks, Jose
On Tue, Jan 10, 2012 at 7:05 PM, Erik Schnetter schnetter@cct.lsu.edu wrote:
Jose
If the job is "finished", then the .asc files should be there.
No, the job id should not be -1. Once a year, the name of the allocation changes; this happened about a week ago. (Usually the allocation contains a number which is increased by one.) Maybe you are submitting using the old, now dysfunctional allocation? Can you check to which allocations you have access? You can specify a non-default allocation using the --allocation=... option when submitting.
-eri
PS: I notice that you did not reply to the mailing list. The more people know details about your problem, the faster it will be solved -- and others may also benefit from reading the solution. Would you mind replying to the mailing list again?
On Tue, Jan 10, 2012 at 9:35 PM, Jose Fiestas Iquira jafiestas@lbl.gov wrote:
Hi Erik, I renamed the static_tov directory and submited again the example. The response was different:
[ettest24@qb4 Cactus]$ ./simfactory/bin/sim submit static_tov --parfile=par/static_tov.par --procs=32 -walltime=8:0:0]
Parameter file: /home/ettest24/Cactus/par/static_tov.par Skeleton Created Job directory: "/scratch/ettest24/simulations/static_tov" No testsuite option found Executable: "/home/ettest24/Cactus/exe/cactus_sim" Option list: "/scratch/ettest24/simulations/static_tov/SIMFACTORY/cfg/OptionList" Submit script: "/scratch/ettest24/simulations/static_tov/SIMFACTORY/run/SubmitScript" Run script: "/scratch/ettest24/simulations/static_tov/SIMFACTORY/run/RunScript" Parameter file: "/scratch/ettest24/simulations/static_tov/SIMFACTORY/par/static_tov.par" Assigned restart id: 0 Executing submit command: qsub /scratch/ettest24/simulations/static_tov/output-0000/SIMFACTORY/SubmitScript
And ...
[ettest24@qb4 Cactus]$ ./simfactory/bin/sim list-simulations static_tov [ACTIVE (FINISHED), restart 0000, job id -1]
The created directories
/scratch/ettest24/simulations/static_tov/output-0000 /scratch/ettest24/simulations/static_tov/output-0000-active
are, so far, similar as before. The job id -1 disturbs me. Is it OK? Still can not find any .acs files. Should it take long?
Thanks, Jose
On Tue, Jan 10, 2012 at 6:05 PM, Erik Schnetter schnetter@cct.lsu.edu wrote:
Jose
If you made an error submitting the simulation when you submitted the first time, then simfactory will remember some of these choices, and will ignore some of your command line arguments. You will either have to delete the simulation, or create a completely new simulation by choosing a different name.
Can you replace the simulation name "static_tov" by something else? It does not have to be related to the parameter file name. This will create a new simulation.
-erik
On Tue, Jan 10, 2012 at 7:31 PM, Jose Fiestas Iquira jafiestas@lbl.gov wrote:
Dear ETK users,
I am trying to run the ETK example as in https://docs.einsteintoolkit.org/et-docs/Tutorial_for_New_Users
Since /scratch/ettest24/simulations could not be find I created it. Now, after submission of the script with:
$ ./simfactory/bin/sim submit static_tov --parfile=par/static_tov.par --procs=32 --walltime=8:0:0
it gives me, for example:
$ Assigned restart id: 3 Executing submit command: qsub /scratch/ettest24/simulations/static_tov/output 0003/SIMFACTORY/SubmitScript
(I submitted it for the 3. time)
$ ./simfactory/bin/sim list-simulations gives me:
$ static_tov [ACTIVE (FINISHED), restart 0003, job id -1]
But I can not visualize the data, if present. Because: ~/scratch/simulations/static_tov/output-0000/static_tov (as in the tutorial) does not exist.
But it exists in my user directory:
/scratch/ettest24/simulations/static_tov
only any .asc file exists. So, I can not visualize the example (if run ...)
Few questions about the tutorial:
- Do I need a create a script for the example? Or is created automatically?
- How long should it take the example? Is it possible it is still running?
- Is ssh -Y qb.loni.org a typo? should be -X
Thank you and regards, Jose
On Tue, Dec 13, 2011 at 4:45 PM, Jose Fiestas Iquira jafiestas@lbl.gov wrote: > Dear colleagues, > > I am a new ETK user and am running my first example simulation as described here > https://docs.einsteintoolkit.org/et-docs/Tutorial_for_New_Users > > I could not finish the example after: > ./simfactory/bin/sim submit static_tov --parfile=par/static_tov.par > --procs=32 --walltime=8:0:0 > > with the following error message: > Parameter file: /home/ettest24/Cactus/par/static_tov.par > Error: could not access simulation base directory > /scratch/ettest24/simulations for reading and writing > Aborting Simfactory. > > Probably my LONI account is not completely set, or need to copy some > data in /scratch/ettest24/simulations/ which does not exist? > > Would appreciate any help. > > All the best, > Jose _______________________________________________ Users mailing list Users@einsteintoolkit.org http://lists.einsteintoolkit.org/mailman/listinfo/users
-- Erik Schnetter schnetter@cct.lsu.edu http://www.cct.lsu.edu/~eschnett/
-- Erik Schnetter schnetter@cct.lsu.edu http://www.cct.lsu.edu/~eschnett/
-- Erik Schnetter schnetter@cct.lsu.edu http://www.cct.lsu.edu/~eschnett/
On Wed, Jan 11, 2012 at 2:42 PM, Jose Fiestas Iquira jafiestas@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
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@cct.lsu.edu wrote:
On Wed, Jan 11, 2012 at 2:42 PM, Jose Fiestas Iquira jafiestas@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@cct.lsu.edu http://www.cct.lsu.edu/~eschnett/
Thanks to Erik for advise. ETK example simulation run successfully.
On Wed, Jan 11, 2012 at 11:49 AM, Jose Fiestas Iquira jafiestas@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@cct.lsu.edu wrote:
On Wed, Jan 11, 2012 at 2:42 PM, Jose Fiestas Iquira jafiestas@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@cct.lsu.edu http://www.cct.lsu.edu/~eschnett/
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.
Cheers, Jose
On Wed, Jan 11, 2012 at 7:06 PM, Jose Fiestas Iquira jafiestas@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@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@cct.lsu.edu wrote:
On Wed, Jan 11, 2012 at 2:42 PM, Jose Fiestas Iquira jafiestas@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@cct.lsu.edu http://www.cct.lsu.edu/~eschnett/
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@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@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@cct.lsu.edu wrote:
On Wed, Jan 11, 2012 at 2:42 PM, Jose Fiestas Iquira jafiestas@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@cct.lsu.edu http://www.cct.lsu.edu/~eschnett/
Users mailing list Users@einsteintoolkit.org http://lists.einsteintoolkit.org/mailman/listinfo/users
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?
Thanks, Jose
On Fri, Jan 13, 2012 at 12:41 AM, Ian Hinder ian.hinder@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@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@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@cct.lsu.edu wrote:
On Wed, Jan 11, 2012 at 2:42 PM, Jose Fiestas Iquira jafiestas@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@cct.lsu.edu http://www.cct.lsu.edu/~eschnett/
Users mailing list Users@einsteintoolkit.org http://lists.einsteintoolkit.org/mailman/listinfo/users
-- Ian Hinder http://numrel.aei.mpg.de/people/hinder
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@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@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@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@cct.lsu.edu wrote:
On Wed, Jan 11, 2012 at 2:42 PM, Jose Fiestas Iquira jafiestas@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@cct.lsu.edu http://www.cct.lsu.edu/~eschnett/
Users mailing list Users@einsteintoolkit.org http://lists.einsteintoolkit.org/mailman/listinfo/users
-- Ian Hinder http://numrel.aei.mpg.de/people/hinder
In fact, I need to get used and find the meaning of the data. Thank you for the hints. I will now try this and tell you.
Would like to get nice plots like the ones in Flickr :) http://www.flickr.com/photos/einsteintoolkit/4481568123/in/photostream/ Is this gnuplot?
Thanks, Jose
On Fri, Jan 13, 2012 at 4:38 AM, Ian Hinder ian.hinder@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@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@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@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@cct.lsu.edu wrote:
On Wed, Jan 11, 2012 at 2:42 PM, Jose Fiestas Iquira jafiestas@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@cct.lsu.edu http://www.cct.lsu.edu/~eschnett/
Users mailing list Users@einsteintoolkit.org http://lists.einsteintoolkit.org/mailman/listinfo/users
-- Ian Hinder http://numrel.aei.mpg.de/people/hinder
-- Ian Hinder http://numrel.aei.mpg.de/people/hinder
On Fri, Jan 13, 2012 at 4:03 PM, Jose Fiestas Iquira jafiestas@lbl.gov wrote:
In fact, I need to get used and find the meaning of the data. Thank you for the hints. I will now try this and tell you.
Would like to get nice plots like the ones in Flickr :) http://www.flickr.com/photos/einsteintoolkit/4481568123/in/photostream/ Is this gnuplot?
No -- gnuplot produces graphs. This was probably produced by Amira, similar to VisIt that was recommended earlier. Tools such as VisIt are not trivial to use, and also require a certain artistic experience to produce images that highlight the interesting physics.
-erik
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)
Where can I find the puncture tracker?
Thanks, Jose
On Fri, Jan 13, 2012 at 4:38 AM, Ian Hinder ian.hinder@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@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@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@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@cct.lsu.edu wrote:
On Wed, Jan 11, 2012 at 2:42 PM, Jose Fiestas Iquira jafiestas@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@cct.lsu.edu http://www.cct.lsu.edu/~eschnett/
Users mailing list Users@einsteintoolkit.org http://lists.einsteintoolkit.org/mailman/listinfo/users
-- Ian Hinder http://numrel.aei.mpg.de/people/hinder
-- Ian Hinder http://numrel.aei.mpg.de/people/hinder
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@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@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@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@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@cct.lsu.edu wrote:
On Wed, Jan 11, 2012 at 2:42 PM, Jose Fiestas Iquira jafiestas@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@cct.lsu.edu http://www.cct.lsu.edu/~eschnett/
Users mailing list Users@einsteintoolkit.org http://lists.einsteintoolkit.org/mailman/listinfo/users
-- Ian Hinder http://numrel.aei.mpg.de/people/hinder
-- Ian Hinder http://numrel.aei.mpg.de/people/hinder
<qc0-mclachlan.err>
On Fri, 2012-01-13 at 09:41 +0100, Ian Hinder 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.
As of a couple of months ago, the answer was still no.
-Hal
Cheers, Jose
On Wed, Jan 11, 2012 at 7:06 PM, Jose Fiestas Iquira jafiestas@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@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@cct.lsu.edu wrote:
On Wed, Jan 11, 2012 at 2:42 PM, Jose Fiestas Iquira jafiestas@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@cct.lsu.edu http://www.cct.lsu.edu/~eschnett/
Users mailing list Users@einsteintoolkit.org http://lists.einsteintoolkit.org/mailman/listinfo/users
-- Ian Hinder http://numrel.aei.mpg.de/people/hinder
Users mailing list Users@einsteintoolkit.org http://lists.einsteintoolkit.org/mailman/listinfo/users
users@lists.einsteintoolkit.org
-
Erik Schnetter -
Hal Finkel -
Ian Hinder -
Jose Fiestas Iquira