From komatitsch at lma.cnrs-mrs.fr Wed Dec 5 10:10:13 2018 From: komatitsch at lma.cnrs-mrs.fr (Dimitri Komatitsch) Date: Wed, 5 Dec 2018 19:10:13 +0100 Subject: [CIG-SEISMO] (no subject) In-Reply-To: References: Message-ID: Dear Tianyang, Thank you for your message. Do the examples in the EXAMPLES directory run fine? If not, it could be a faulty memory board on your computer (or a system installation problem). Otherwise, please send me your example (with a run_this_example.sh script to run it) and we will try it on a machine here. Thank you, Best regards, Dimitri. On 11/30/18 5:49 PM, Tianyang Li wrote: > Dear Dimitri, > > Good morning,  I am a PhD student in University of Alberta,  I am > working on Specfem3D, while there is a problem when I run my model on my > local machine.  I have been confused by the problem for a long time. > Please see the details below: > > Program received signal SIGBUS: Access to an undefined portion of a > memory object. > > Backtrace for this error: > #0  0x7F133E925697 > #1  0x7F133E925CDE > #2  0x7F133DC0527F > #3  0x491B44 in locate_receivers_ at locate_receivers.f90:266 > #4  0x50BEA1 in setup_receivers_ at setup_sources_receivers.f90:619 > #5  0x50F0FA in setup_sources_receivers_ at setup_sources_receivers.f90:48 > ------------------------------------------------------- > Primary job  terminated normally, but 1 process returned > a non-zero exit code. Per user-direction, the job has been aborted. > ------------------------------------------------------- > -------------------------------------------------------------------------- > mpirun noticed that process rank 9 with PID 0 on node dziewons exited on > signal 7 (Bus error). > > Thank you so much for your precious time and unlimited sport! > > Cheers, > Tianyang > > _________________________________________________ > CIG-SEISMO has MOVED to our new forum. Please > head to https://community.geodynamics.org. > > This mailing list will be disabled at the end of > January 2019. > _________________________________________________ > CIG-SEISMO mailing list > CIG-SEISMO at geodynamics.org > http://lists.geodynamics.org/cgi-bin/mailman/listinfo/cig-seismo > -- Dimitri Komatitsch, CNRS Research Director (DR CNRS) Laboratory of Mechanics and Acoustics, Marseille, France http://komatitsch.free.fr From alexandre.szenicer at linacre.ox.ac.uk Wed Dec 5 14:23:17 2018 From: alexandre.szenicer at linacre.ox.ac.uk (Alexandre Szenicer) Date: Wed, 5 Dec 2018 22:23:17 +0000 Subject: [CIG-SEISMO] specfem3D : visualising kernels Message-ID: Hello, I am trying to visualise kernels from specfem3D, from simulations I'm running on Archer, a UK supercomputer. More precisely, I'm trying to visualise a single slice of a vp kernel in the source-receiver plane at a given longitude. I have now created the slices (minor, major and ic), and I'm trying to collect the kernel files for vp kernels. Therefore, I'm trying to run copy_oc_globe_database.pl slice_file lsf_machine_file filename. with slice_file --> slices_minor filename --> alpha_kernel lsf_machine_file --> ??? Not sure how can I get that. This is where I'm stuck, I do have files generated by the scheduler after a job is run, but they don't fit the "1 line, node name, and number of procs used " described in copy_oc_globe_database.pl for the lsf_machine_file Any chance you could help out ? Many thanks, Alexandre Szenicer. -------------- next part -------------- An HTML attachment was scrubbed... URL: From ljhwang at ucdavis.edu Thu Dec 6 09:25:47 2018 From: ljhwang at ucdavis.edu (Lorraine Hwang) Date: Thu, 6 Dec 2018 09:25:47 -0800 Subject: [CIG-SEISMO] specfem3D : visualising kernels In-Reply-To: References: Message-ID: <31FDA100-5FF8-4D35-9CC1-8854B66F6777@ucdavis.edu> This topic has been moved to the new CIG community forum at: https://community.geodynamics.org/c/specfem Please sign up to watch for a response and help answer Alexandre’s questions. > On Dec 5, 2018, at 2:23 PM, Alexandre Szenicer wrote: > > Hello, > > I am trying to visualise kernels from specfem3D, from simulations I'm running on Archer, a UK supercomputer. > More precisely, I'm trying to visualise a single slice of a vp kernel in the source-receiver plane at a given longitude. > I have now created the slices (minor, major and ic), and I'm trying to collect the kernel files for vp kernels. > Therefore, I'm trying to run > copy_oc_globe_database.pl slice_file lsf_machine_file filename. > with slice_file --> slices_minor > filename --> alpha_kernel > lsf_machine_file --> ??? Not sure how can I get that. > > This is where I'm stuck, I do have files generated by the scheduler after a job is run, but they don't fit the "1 line, node name, and number of procs used > " described in copy_oc_globe_database.pl for the lsf_machine_file > > Any chance you could help out ? > > Many thanks, > > Alexandre Szenicer. > _________________________________________________ > CIG-SEISMO has MOVED to our new forum. Please > head to https://community.geodynamics.org . > > This mailing list will be disabled at the end of > January 2019. > _________________________________________________ > CIG-SEISMO mailing list > CIG-SEISMO at geodynamics.org > http://lists.geodynamics.org/cgi-bin/mailman/listinfo/cig-seismo -------------- next part -------------- An HTML attachment was scrubbed... URL: From chendibest at hotmail.com Sun Dec 23 19:10:58 2018 From: chendibest at hotmail.com (Chen Di) Date: Mon, 24 Dec 2018 03:10:58 +0000 Subject: [CIG-SEISMO] =?iso-2022-jp?b?U29tZSBxdWVzdGlvbnMgYWJvdXQgVmlzdWFs?= =?iso-2022-jp?b?aXphdGlvbiB1c2luZyBBVlMgZm9ybWF0GyRCISQbKEJhbmltYXRpb24g?= =?iso-2022-jp?b?YWx3YXlzIHNob3dlZCA1MDAwIHN0ZXBz?= Message-ID: Dear developers， Hi,there！ Now I have got results，like 'moviedata_xxx' , ‘surface_from_mesher.h’ and ‘valve_from_mesher’ etc in ‘./SPECFEM3D/OUTPUT_file’ folder. I have made ‘xcreate_movie_shakemap_AVS_DX_GMT’ in ./SPECFEM3D root folder. I ran this script, set the parameter just like these: # time step parameters NSTEP = 15000 DT = 0.002 # Visualization CREATE_SHAKEMAP = .true. MOVIE_SURFACE = .true. MOVIE_TYPE = 2 MOVIE_VOLUME = .true. SAVE_DISPLACEMENT = .true. USE_HIGHRES_FOR_MOVIES = .false. NTSTEP_BETWEEN_FRAMES = 100 HDUR_MOVIE = 0.0 # interval at which we output time step info and max of norm of displacement NTSTEP_BETWEEN_OUTPUT_INFO = 200 (more information When I use ‘xcreate_movie_shakemap_AVS_DX_GMT’ to convert those moviedata_xxx file, I set to AVS format , first frame = step1 , last frame = step 15000. But no matter what I set the number(more than 5000), it always stopped on 5000 steps. It makes me confused. How can I fix it ? Please give me some little help. Thanks a lot. Best wishes! Di Chen -------------- next part -------------- An HTML attachment was scrubbed... URL: From carene at lanl.gov Sun Dec 23 22:12:05 2018 From: carene at lanl.gov (Larmat, Carene) Date: Mon, 24 Dec 2018 06:12:05 +0000 Subject: [CIG-SEISMO] =?utf-8?q?Some_questions_about_Visualization_using_A?= =?utf-8?q?VS_format=EF=BC=8Canimation_always_showed_5000_steps?= In-Reply-To: References: Message-ID: <7AE7B3CA-3FEC-41D1-B404-FCCAA6A8D5C6@lanl.gov> Hi Di, Not a developer but an user. Did your modeling go all way through or stop around 5000? Cheers! Carene Larmat, EES-17 LANL, carene at lanl.gov, 505 667 2074 On Dec 23, 2018, at 8:10 PM, Chen Di > wrote: Dear developers， Hi,there！ Now I have got results，like 'moviedata_xxx' , ‘surface_from_mesher.h’ and ‘valve_from_mesher’ etc in ‘./SPECFEM3D/OUTPUT_file’ folder. I have made ‘xcreate_movie_shakemap_AVS_DX_GMT’ in ./SPECFEM3D root folder. I ran this script, set the parameter just like these: # time step parameters NSTEP = 15000 DT = 0.002 # Visualization CREATE_SHAKEMAP = .true. MOVIE_SURFACE = .true. MOVIE_TYPE = 2 MOVIE_VOLUME = .true. SAVE_DISPLACEMENT = .true. USE_HIGHRES_FOR_MOVIES = .false. NTSTEP_BETWEEN_FRAMES = 100 HDUR_MOVIE = 0.0 # interval at which we output time step info and max of norm of displacement NTSTEP_BETWEEN_OUTPUT_INFO = 200 (more information When I use ‘xcreate_movie_shakemap_AVS_DX_GMT’ to convert those moviedata_xxx file, I set to AVS format , first frame = step1 , last frame = step 15000. But no matter what I set the number(more than 5000), it always stopped on 5000 steps. It makes me confused. How can I fix it ? Please give me some little help. Thanks a lot. Best wishes! Di Chen _________________________________________________ CIG-SEISMO has MOVED to our new forum. Please head to https://community.geodynamics.org. This mailing list will be disabled at the end of January 2019. _________________________________________________ CIG-SEISMO mailing list CIG-SEISMO at geodynamics.org http://lists.geodynamics.org/cgi-bin/mailman/listinfo/cig-seismo -------------- next part -------------- An HTML attachment was scrubbed... URL: From ljhwang at ucdavis.edu Mon Dec 24 08:37:55 2018 From: ljhwang at ucdavis.edu (Lorraine Hwang) Date: Mon, 24 Dec 2018 08:37:55 -0800 Subject: [CIG-SEISMO] =?utf-8?q?Some_questions_about_Visualization_using_A?= =?utf-8?q?VS_format=EF=BC=8Canimation_always_showed_5000_steps?= In-Reply-To: <7AE7B3CA-3FEC-41D1-B404-FCCAA6A8D5C6@lanl.gov> References: <7AE7B3CA-3FEC-41D1-B404-FCCAA6A8D5C6@lanl.gov> Message-ID: <65F97B80-13DD-4468-8033-5E87C4CC8A3F@ucdavis.edu> This topic has been moved to our new community forum. Please navigate here to give and receive help: https://community.geodynamics.org/c/specfem You may sign up for the community forum here: https://community.geodynamics.org/ Best, -Lorraine ***************************** Lorraine Hwang, Ph.D. Associate Director, CIG 530.752.3656 > On Dec 23, 2018, at 10:12 PM, Larmat, Carene wrote: > > Hi Di, > > Not a developer but an user. Did your modeling go all way through or stop around 5000? > > Cheers! > Carene Larmat, EES-17 > LANL, carene at lanl.gov , 505 667 2074 > > > >> On Dec 23, 2018, at 8:10 PM, Chen Di > wrote: >> >> Dear developers， >> Hi,there！ >> Now I have got results，like 'moviedata_xxx' , ‘surface_from_mesher.h’ and ‘valve_from_mesher’ etc in ‘./SPECFEM3D/OUTPUT_file’ folder. I have made ‘xcreate_movie_shakemap_AVS_DX_GMT’ in ./SPECFEM3D root folder. >> I ran this script, set the parameter just like these: >> >> # time step parameters >> NSTEP = 15000 >> DT = 0.002 >> # Visualization >> CREATE_SHAKEMAP = .true. >> MOVIE_SURFACE = .true. >> MOVIE_TYPE = 2 >> MOVIE_VOLUME = .true. >> SAVE_DISPLACEMENT = .true. >> USE_HIGHRES_FOR_MOVIES = .false. >> NTSTEP_BETWEEN_FRAMES = 100 >> HDUR_MOVIE = 0.0 >> # interval at which we output time step info and max of norm of displacement >> NTSTEP_BETWEEN_OUTPUT_INFO = 200 >> (more information >> When I use ‘xcreate_movie_shakemap_AVS_DX_GMT’ to convert those moviedata_xxx file, I set to AVS format , first frame = step1 , last frame = step 15000. But no matter what I set the number(more than 5000), it always stopped on 5000 steps. It makes me confused. How can I fix it ? Please give me some little help. Thanks a lot. >> Best wishes! >> Di Chen >> >> >> >> _________________________________________________ >> CIG-SEISMO has MOVED to our new forum. Please >> head to https://community.geodynamics.org . >> >> This mailing list will be disabled at the end of >> January 2019. >> _________________________________________________ >> CIG-SEISMO mailing list >> CIG-SEISMO at geodynamics.org >> http://lists.geodynamics.org/cgi-bin/mailman/listinfo/cig-seismo > _________________________________________________ > CIG-SEISMO has MOVED to our new forum. Please > head to https://community.geodynamics.org. > > This mailing list will be disabled at the end of > January 2019. > _________________________________________________ > CIG-SEISMO mailing list > CIG-SEISMO at geodynamics.org > http://lists.geodynamics.org/cgi-bin/mailman/listinfo/cig-seismo -------------- next part -------------- An HTML attachment was scrubbed... URL: