[CIG-SEISMO] CIG-SEISMO Digest, Vol 61, Issue 3
Yingzi Ying
yingzi.ying at me.com
Sun Feb 17 07:57:15 PST 2013
Hi Gian,
I encountered similar situation in using svn version. An error segment
is attached below
.
xgenerate_databas 0000000000649673 Unknown Unknown Unknown
xgenerate_databas 00000000004710EE Unknown Unknown Unknown
xgenerate_databas 0000000000451A0E Unknown Unknown Unknown
xgenerate_databas 0000000000413216 Unknown Unknown Unknown
xgenerate_databas 000000000041188D Unknown Unknown Unknown
xgenerate_databas 0000000000408668 Unknown Unknown Unknown
xgenerate_databas 00000000004071F5 Unknown Unknown Unknown
xgenerate_databas 000000000040718C Unknown Unknown Unknown
libc.so.6 00007FC31A12BBC6 Unknown Unknown Unknown
xgenerate_databas 0000000000407089 Unknown Unknown Unknown
forrtl: severe (174): SIGSEGV, segmentation fault occurred
Image PC Routine Line Source
Best,
Yingzi
On 02/16/2013 08:00 PM, cig-seismo-request at geodynamics.org wrote:
> Send CIG-SEISMO mailing list submissions to
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> Today's Topics:
>
> 1. Re: CIG-SEISMO Digest, Vol 61, Issue 2 (Ying Ying)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Fri, 15 Feb 2013 20:25:06 +0000
> From: Ying Ying<yingzi.ying at me.com>
> Subject: Re: [CIG-SEISMO] CIG-SEISMO Digest, Vol 61, Issue 2
> To: "cig-seismo at geodynamics.org"<cig-seismo at geodynamics.org>
> Cc: "cig-seismo at geodynamics.org"<cig-seismo at geodynamics.org>
> Message-ID:<92465B55-5670-41ED-9858-7E47523D5DDD at me.com>
> Content-Type: text/plain; charset=us-ascii
>
> Hi Gian,
>
> I was going to generate meshes of 3d velocity model with xmeshfem3d and set "MODEL=tomo", but not successful. It seems that in the tar version, this function is not implemented yet, and the MODEL type is even not read in. But I successfully did it by using CUBIT and providing "tomography_model.xyz".
>
> This function might have already been implemented in the svn version. I will try it soon
>
> Best,
> Yingzi
>
> Sent from my iPad
>
> On Feb 15, 2013, at 20:00, cig-seismo-request at geodynamics.org wrote:
>
>> Send CIG-SEISMO mailing list submissions to
>> cig-seismo at geodynamics.org
>>
>> To subscribe or unsubscribe via the World Wide Web, visit
>> http://geodynamics.org/cgi-bin/mailman/listinfo/cig-seismo
>> or, via email, send a message with subject or body 'help' to
>> cig-seismo-request at geodynamics.org
>>
>> You can reach the person managing the list at
>> cig-seismo-owner at geodynamics.org
>>
>> When replying, please edit your Subject line so it is more specific
>> than "Re: Contents of CIG-SEISMO digest..."
>>
>>
>> Today's Topics:
>>
>> 1. SPECFEM3D: Segmentation fault - xgenerate_databases
>> (gmatharu at eos.ubc.ca)
>> 2. Re: SPECFEM3D: Segmentation fault - xgenerate_databases
>> (gmatharu at eos.ubc.ca)
>> 3. CIG/QUEST/IRIS joint workshop on Seismic Imaging - deadline
>> for applications approaching. (Ariel Shoresh)
>>
>>
>> ----------------------------------------------------------------------
>>
>> Message: 1
>> Date: Thu, 14 Feb 2013 12:27:21 -0800
>> From: gmatharu at eos.ubc.ca
>> Subject: [CIG-SEISMO] SPECFEM3D: Segmentation fault -
>> xgenerate_databases
>> To: cig-seismo at geodynamics.org
>> Message-ID:
>> <0c83d8f4365cec3de9c467aaf21d7a5d.squirrel at webmail.eos.ubc.ca>
>> Content-Type: text/plain;charset=iso-8859-1
>>
>> Hi
>>
>> I have been running SPECFEM3D on a couple of different clusters on the
>> Westgrid computer consortium. As I'm not sure what details are relevant
>> I've included links which explain the builds of either cluster.
>>
>> http://www.westgrid.ca/support/quickstart/lattice
>> http://www.westgrid.ca/support/quickstart/orcinus
>>
>> I'm currently generating a mesh on 256 processors which is 256*128*60
>> (X/Y/Z). A few months back on an older build of the software I had no
>> issues generating a mesh on the orcinus cluster and running the solver.
>> However with an updated package I am encountering segmentation fault
>> errors when running xgenerate_databases on both Lattice and Orcinus (using
>> ifort,icc and mpif90 on both). My submission scripts seem correct and the
>> initial meshing seems to work ok, however I'm at a loss as to what's
>> causing this error. Do you have any recommendations on how to resolve this
>> issue? If you require further information let me know.
>>
>> Best Regards,
>>
>> Gian
>>
>> Below is a snippet of the error message I receive.
>>
>>
>> starting MPI internal mesher on 256 processors
>>
>> generating databases...
>> cp: cannot stat `/OUTPUT_FILES/output_mesher.txt': No such file or directory
>> forrtl: severe (174): SIGSEGV, segmentation fault occurred
>> Image PC Routine Line Source
>> libifcore.so.5 00002B8064AF3683 Unknown Unknown Unknown
>> xgenerate_databas 0000000000473530 Unknown Unknown Unknown
>> xgenerate_databas 000000000045248E Unknown Unknown Unknown
>> xgenerate_databas 0000000000417D08 Unknown Unknown Unknown
>> xgenerate_databas 0000000000416351 Unknown Unknown Unknown
>> xgenerate_databas 000000000040D10B Unknown Unknown Unknown
>> xgenerate_databas 000000000040BD09 Unknown Unknown Unknown
>> xgenerate_databas 000000000040BC9C Unknown Unknown Unknown
>> libc.so.6 0000003F7FA1D994 Unknown Unknown Unknown
>> xgenerate_databas 000000000040BBA9 Unknown Unknown Unknown
>> forrtl: severe (174): SIGSEGV, segmentation fault occurred
>> Image PC Routine Line Source
>> libifcore.so.5 00002B2EB0DF5683 Unknown Unknown Unknown
>> xgenerate_databas 0000000000473530 Unknown Unknown Unknown
>> xgenerate_databas 000000000045248E Unknown Unknown Unknown
>> xgenerate_databas 0000000000417D08 Unknown Unknown Unknown
>> xgenerate_databas 0000000000416351 Unknown Unknown Unknown
>> xgenerate_databas 000000000040D10B Unknown Unknown Unknown
>> xgenerate_databas 000000000040BD09 Unknown Unknown Unknown
>> xgenerate_databas 000000000040BC9C Unknown Unknown Unknown
>> libc.so.6 000000336A21D994 Unknown Unknown Unknown
>> xgenerate_databas 000000000040BBA9 Unknown Unknown Unknown
>>
>>
>>
>>
>> ------------------------------
>>
>> Message: 2
>> Date: Thu, 14 Feb 2013 16:56:34 -0800
>> From: gmatharu at eos.ubc.ca
>> Subject: Re: [CIG-SEISMO] SPECFEM3D: Segmentation fault -
>> xgenerate_databases
>> To: cig-seismo at geodynamics.org
>> Message-ID:
>> <d5ff40aee3421f1b59558099b9c6ceb7.squirrel at webmail.eos.ubc.ca>
>> Content-Type: text/plain;charset=iso-8859-1
>>
>> So I seemed to have traced the issue down to how the tomography file is
>> being read in. The error report directs me to line 360 in the
>> model_tomography.f90 source code. I compared an older version and to the
>> current one and there has been the introduction of an imaterial variable
>> (seems more for CUBIT users). I checked the latest manual which suggests
>> two ways of specifying a tomography model. I chose 1) set MODEL=tomo in
>> Par_file as I had previously done.
>>
>> if( imaterial_id< 0 .and. trim(undef_mat_prop(2,abs(imaterial_id))) ==
>> 'tomography' ) then
>>
>> Is the line causing the error. Is this an error in the way I've specified
>> the input? Or does the code no longer allow input in the way it used to?
>>
>> Regards,
>>
>> Gian
>>
>>
>>
>>> Hi
>>>
>>> I have been running SPECFEM3D on a couple of different clusters on the
>>> Westgrid computer consortium. As I'm not sure what details are relevant
>>> I've included links which explain the builds of either cluster.
>>>
>>> http://www.westgrid.ca/support/quickstart/lattice
>>> http://www.westgrid.ca/support/quickstart/orcinus
>>>
>>> I'm currently generating a mesh on 256 processors which is 256*128*60
>>> (X/Y/Z). A few months back on an older build of the software I had no
>>> issues generating a mesh on the orcinus cluster and running the solver.
>>> However with an updated package I am encountering segmentation fault
>>> errors when running xgenerate_databases on both Lattice and Orcinus (using
>>> ifort,icc and mpif90 on both). My submission scripts seem correct and the
>>> initial meshing seems to work ok, however I'm at a loss as to what's
>>> causing this error. Do you have any recommendations on how to resolve this
>>> issue? If you require further information let me know.
>>>
>>> Best Regards,
>>>
>>> Gian
>>>
>>> Below is a snippet of the error message I receive.
>>>
>>>
>>> starting MPI internal mesher on 256 processors
>>>
>>> generating databases...
>>> cp: cannot stat `/OUTPUT_FILES/output_mesher.txt': No such file or
>>> directory
>>> forrtl: severe (174): SIGSEGV, segmentation fault occurred
>>> Image PC Routine Line Source
>>> libifcore.so.5 00002B8064AF3683 Unknown Unknown
>>> Unknown
>>> xgenerate_databas 0000000000473530 Unknown Unknown
>>> Unknown
>>> xgenerate_databas 000000000045248E Unknown Unknown
>>> Unknown
>>> xgenerate_databas 0000000000417D08 Unknown Unknown
>>> Unknown
>>> xgenerate_databas 0000000000416351 Unknown Unknown
>>> Unknown
>>> xgenerate_databas 000000000040D10B Unknown Unknown
>>> Unknown
>>> xgenerate_databas 000000000040BD09 Unknown Unknown
>>> Unknown
>>> xgenerate_databas 000000000040BC9C Unknown Unknown
>>> Unknown
>>> libc.so.6 0000003F7FA1D994 Unknown Unknown
>>> Unknown
>>> xgenerate_databas 000000000040BBA9 Unknown Unknown
>>> Unknown
>>> forrtl: severe (174): SIGSEGV, segmentation fault occurred
>>> Image PC Routine Line Source
>>> libifcore.so.5 00002B2EB0DF5683 Unknown Unknown
>>> Unknown
>>> xgenerate_databas 0000000000473530 Unknown Unknown
>>> Unknown
>>> xgenerate_databas 000000000045248E Unknown Unknown
>>> Unknown
>>> xgenerate_databas 0000000000417D08 Unknown Unknown
>>> Unknown
>>> xgenerate_databas 0000000000416351 Unknown Unknown
>>> Unknown
>>> xgenerate_databas 000000000040D10B Unknown Unknown
>>> Unknown
>>> xgenerate_databas 000000000040BD09 Unknown Unknown
>>> Unknown
>>> xgenerate_databas 000000000040BC9C Unknown Unknown
>>> Unknown
>>> libc.so.6 000000336A21D994 Unknown Unknown
>>> Unknown
>>> xgenerate_databas 000000000040BBA9 Unknown Unknown
>>> Unknown
>>
>>
>>
>>
>> ------------------------------
>>
>> Message: 3
>> Date: Fri, 15 Feb 2013 08:41:58 -0800
>> From: Ariel Shoresh<ashoresh at ucdavis.edu>
>> Subject: [CIG-SEISMO] CIG/QUEST/IRIS joint workshop on Seismic Imaging
>> - deadline for applications approaching.
>> To: cig-all at geodynamics.org, cig-seismo at geodynamics.org
>> Message-ID:<909992E2-350F-4DD5-BD57-23BF54A0175B at ucdavis.edu>
>> Content-Type: text/plain; charset=us-ascii
>>
>>
>>
>>
>> Good morning!
>>
>> A quick reminder that the application to attend the CIG/QUEST/IRIS Joint Workshop on Seismic Imaging of Structure and
>> Source will be closing on February 25th.
>>
>> Below you will find the link to the workshop webpage, containing information on the workshop, application/selection process, and the
>> registration link.
>>
>> http://geodynamics.org/cig/community/workinggroups/seismo/workshops/CIGQUESTIRIS/index
>>
>> Attendance is limited to 80 participants. If you are interested in attending, please apply for registration as soon as possible -- we
>> will contact applicants on March 1st to let them know their acceptance based on the qualifications on the workshop webpage. You are
>> encouraged to present a poster at the workshop, and a preliminary title would be helpful. Please provide an estimate for travel expenses
>> (airfare only), as we expect to have some funds for partial reimbursement. Accommodation will be provided for the participants.
>>
>> Yours,
>> Ariel Shoresh, on behalf of the Workshop Organizers:
>>
>> Carl Tape
>> Tim Ahern
>> Alan Levander
>> Tarje Nissen-Meyer
>> Arthur Rodgers
>>
>> ------------------------------
>>
>> _______________________________________________
>> CIG-SEISMO mailing list
>> CIG-SEISMO at geodynamics.org
>> http://geodynamics.org/cgi-bin/mailman/listinfo/cig-seismo
>>
>> End of CIG-SEISMO Digest, Vol 61, Issue 2
>> *****************************************
>
>
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