Dear Iulian,
Thank you for your advices about MOAB and about the limitation of ExodusII !
Your example should work fine... I'm trying a workaround with ExodusII, but if it fails, I'll try GenLargeMesh and keep you informed of the results.
Best regards,
Florent
De : Grindeanu, Iulian R. [mailto:[email protected]]
Envoyé : vendredi 11 mars 2016 14:52
À : De Martin Florent; cgma-dev(a)mcs.anl.gov
Objet : RE: CGM doc
Dear Florent,
we have an example in MOAB, you can take a look
It has to be modified to export just the boundary quads
We usually run it in parallel for big meshes, and its output is in hdf5 format.
http://ftp.mcs.anl.gov/pub/fathom/moab-docs/GenLargeMesh_8cpp-example.html
You can afterwards run mbconvert to export in exodus format
mbconvert large.h5m large.exo
We used this to generate billions of hexas, to test I/O
our exodus is in serial, and never pushed it this high, but you could try
geometry is very regular
you can control though dx, dy, etc
Would something like this work?
Iulian
________________________________
From: De Martin Florent [F.DeMartin(a)brgm.fr]
Sent: Friday, March 11, 2016 4:09 AM
To: Grindeanu, Iulian R.; cgma-dev(a)mcs.anl.gov<mailto:[email protected]>
Subject: RE: CGM doc
Dear Iulian,
Thank you for your prompt response and your advices.
To answer your questions, EFISPEC3D reads ExodusII mesh file generated by CUBIT. Boundary conditions are either free surface (made of QUAD) or absorbing boundaries (made of QUAD). But unfortunately, the NetCDF API inside CUBIT fail to generate a mesh of 200+ millions of hexa. The mesh is very basic: only a cubic domain meshed by millions of hexa. So I was looking for an open-source code (CUBIT is not) to generate such a mesh...
Best regards,
Florent
De : Grindeanu, Iulian R. [mailto:[email protected]]
Envoyé : jeudi 10 mars 2016 17:00
À : De Martin Florent; cgma-dev(a)mcs.anl.gov<mailto:[email protected]>
Objet : RE: CGM doc
Hello,
CGM alone would not be enough to generate a mesh
CGM is mostly a wrapper around other geometry kernels, ACIS or OCC/OCE based.
To generate a mesh you would need the SIGMA stack.
http://sigma.mcs.anl.gov/
I am not familiar with what format you need your mesh for EFISPEC3D; I assume it is similar to NEK5000 solver, which is a spectral element method too. (so Nek needs a hexahedral mesh)
And what is the input geometry format? Terrain data?
We have some capabilities developed for ice sheet modeling. At the core, they do need a quadrilateral mesher for surfaces, which are then extruded/swept to form hexahedral elements. Also, it is assumed that the domain of interest does not have internal caves/tunnels, so the sweeping in vertical direction is trivial.
I am not sure how these would help your project.
Iulian
________________________________
From: cgma-dev-bounces(a)mcs.anl.gov<mailto:[email protected]> [cgma-dev-bounces(a)mcs.anl.gov] on behalf of De Martin Florent [F.DeMartin(a)brgm.fr]
Sent: Thursday, March 10, 2016 9:19 AM
To: cgma-dev(a)mcs.anl.gov<mailto:[email protected]>
Subject: [cgma-dev] CGM doc
Dear CGM support,
I am interested to generate large scale finite element meshes for the spectral-element code EFISPEC3D (http://efispec.free.fr)
I have downloaded (from git) and compiled CGM, but I can hardly find a user documentation. Would you please send it to me ?
Best regards,
Florent DE MARTIN
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Dear Florent,
If you are using direct exodus calls, you may want to check this one
Maybe there are some limitations you need to be aware off
http://gsjaardema.github.io/seacas/ExodusLargeModel.html
In moab, we use direct netcdf calls, and we should not have a problem up to 2 B elements (integer 32 bit).
Iulian
________________________________
From: De Martin Florent [F.DeMartin(a)brgm.fr]
Sent: Friday, March 11, 2016 4:09 AM
To: Grindeanu, Iulian R.; cgma-dev(a)mcs.anl.gov
Subject: RE: CGM doc
Dear Iulian,
Thank you for your prompt response and your advices.
To answer your questions, EFISPEC3D reads ExodusII mesh file generated by CUBIT. Boundary conditions are either free surface (made of QUAD) or absorbing boundaries (made of QUAD). But unfortunately, the NetCDF API inside CUBIT fail to generate a mesh of 200+ millions of hexa. The mesh is very basic: only a cubic domain meshed by millions of hexa. So I was looking for an open-source code (CUBIT is not) to generate such a mesh…
Best regards,
Florent
De : Grindeanu, Iulian R. [mailto:[email protected]]
Envoyé : jeudi 10 mars 2016 17:00
À : De Martin Florent; cgma-dev(a)mcs.anl.gov
Objet : RE: CGM doc
Hello,
CGM alone would not be enough to generate a mesh
CGM is mostly a wrapper around other geometry kernels, ACIS or OCC/OCE based.
To generate a mesh you would need the SIGMA stack.
http://sigma.mcs.anl.gov/
I am not familiar with what format you need your mesh for EFISPEC3D; I assume it is similar to NEK5000 solver, which is a spectral element method too. (so Nek needs a hexahedral mesh)
And what is the input geometry format? Terrain data?
We have some capabilities developed for ice sheet modeling. At the core, they do need a quadrilateral mesher for surfaces, which are then extruded/swept to form hexahedral elements. Also, it is assumed that the domain of interest does not have internal caves/tunnels, so the sweeping in vertical direction is trivial.
I am not sure how these would help your project.
Iulian
________________________________
From: cgma-dev-bounces(a)mcs.anl.gov<mailto:[email protected]> [cgma-dev-bounces(a)mcs.anl.gov] on behalf of De Martin Florent [F.DeMartin(a)brgm.fr]
Sent: Thursday, March 10, 2016 9:19 AM
To: cgma-dev(a)mcs.anl.gov<mailto:[email protected]>
Subject: [cgma-dev] CGM doc
Dear CGM support,
I am interested to generate large scale finite element meshes for the spectral-element code EFISPEC3D (http://efispec.free.fr)
I have downloaded (from git) and compiled CGM, but I can hardly find a user documentation. Would you please send it to me ?
Best regards,
Florent DE MARTIN
P Pensez à l'environnement avant d'imprimer ce message
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The contents of this email and any attachments are confidential. They are intended for the named recipient(s) only.
If you have received this email in error please notify the system manager or the sender immediately and do not disclose the contents to
anyone or make copies.
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Think Environment before printing
Le contenu de ce mél et de ses pièces jointes est destiné à l'usage exclusif du (des) destinataire(s) désigné(s) comme tel(s).
En cas de réception par erreur, le signaler à son expéditeur et ne pas en divulguer le contenu.
L'absence de virus a été vérifiée à l'émission, il convient néanmoins de s'assurer de l'absence de contamination à sa réception.
The contents of this email and any attachments are confidential. They are intended for the named recipient(s) only.
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Dear Florent,
we have an example in MOAB, you can take a look
It has to be modified to export just the boundary quads
We usually run it in parallel for big meshes, and its output is in hdf5 format.
http://ftp.mcs.anl.gov/pub/fathom/moab-docs/GenLargeMesh_8cpp-example.html
You can afterwards run mbconvert to export in exodus format
mbconvert large.h5m large.exo
We used this to generate billions of hexas, to test I/O
our exodus is in serial, and never pushed it this high, but you could try
geometry is very regular
you can control though dx, dy, etc
Would something like this work?
Iulian
________________________________
From: De Martin Florent [F.DeMartin(a)brgm.fr]
Sent: Friday, March 11, 2016 4:09 AM
To: Grindeanu, Iulian R.; cgma-dev(a)mcs.anl.gov
Subject: RE: CGM doc
Dear Iulian,
Thank you for your prompt response and your advices.
To answer your questions, EFISPEC3D reads ExodusII mesh file generated by CUBIT. Boundary conditions are either free surface (made of QUAD) or absorbing boundaries (made of QUAD). But unfortunately, the NetCDF API inside CUBIT fail to generate a mesh of 200+ millions of hexa. The mesh is very basic: only a cubic domain meshed by millions of hexa. So I was looking for an open-source code (CUBIT is not) to generate such a mesh…
Best regards,
Florent
De : Grindeanu, Iulian R. [mailto:[email protected]]
Envoyé : jeudi 10 mars 2016 17:00
À : De Martin Florent; cgma-dev(a)mcs.anl.gov
Objet : RE: CGM doc
Hello,
CGM alone would not be enough to generate a mesh
CGM is mostly a wrapper around other geometry kernels, ACIS or OCC/OCE based.
To generate a mesh you would need the SIGMA stack.
http://sigma.mcs.anl.gov/
I am not familiar with what format you need your mesh for EFISPEC3D; I assume it is similar to NEK5000 solver, which is a spectral element method too. (so Nek needs a hexahedral mesh)
And what is the input geometry format? Terrain data?
We have some capabilities developed for ice sheet modeling. At the core, they do need a quadrilateral mesher for surfaces, which are then extruded/swept to form hexahedral elements. Also, it is assumed that the domain of interest does not have internal caves/tunnels, so the sweeping in vertical direction is trivial.
I am not sure how these would help your project.
Iulian
________________________________
From: cgma-dev-bounces(a)mcs.anl.gov<mailto:[email protected]> [cgma-dev-bounces(a)mcs.anl.gov] on behalf of De Martin Florent [F.DeMartin(a)brgm.fr]
Sent: Thursday, March 10, 2016 9:19 AM
To: cgma-dev(a)mcs.anl.gov<mailto:[email protected]>
Subject: [cgma-dev] CGM doc
Dear CGM support,
I am interested to generate large scale finite element meshes for the spectral-element code EFISPEC3D (http://efispec.free.fr)
I have downloaded (from git) and compiled CGM, but I can hardly find a user documentation. Would you please send it to me ?
Best regards,
Florent DE MARTIN
P Pensez à l'environnement avant d'imprimer ce message
Think Environment before printing
Le contenu de ce mél et de ses pièces jointes est destiné à l'usage exclusif du (des) destinataire(s) désigné(s) comme tel(s).
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L'absence de virus a été vérifiée à l'émission, il convient néanmoins de s'assurer de l'absence de contamination à sa réception.
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Dear Vijay,
Thank you very much for your advices.
The mesh I would like to generate is very basic: only a cubic domain meshed by millions of hexa. I generally use CUBIT, but unfortunately, the NetCDF API inside CUBIT fails to generate a mesh of 200+ millions of hexa. So I was looking for an open-source code (CUBIT is not) to generate such a mesh…
Best regards,
Florent
-----Message d'origine-----
De : Vijay S. Mahadevan [mailto:[email protected]]
Envoyé : jeudi 10 mars 2016 17:00
À : De Martin Florent
Cc : cgma-dev(a)mcs.anl.gov
Objet : Re: [cgma-dev] CGM doc
Hi Florent,
The doxygen documentation pages [1] and the website [2] provide some information depending on what you want to do. We currently do not have any examples in CGM and are planning to add few in the coming months.
For mesh generation, I suggest you please take a look at MeshKit, which uses CGM and MOAB underneath to handle the geometry and mesh queries, while optionally interfacing with external tools such as Cubit to generate high-quality meshes.
What is the general complexity in your geometry and what kind of meshes do you want to generate (HEX, TET. Hybrid) ? Also if you have any specific questions about the usage, do let us know.
Vijay
[1] ftp://ftp.mcs.anl.gov/pub/fathom/cgm-docs/index.html
[2] http://sigma.mcs.anl.gov/cgm-library
On Thu, Mar 10, 2016 at 9:19 AM, De Martin Florent <F.DeMartin(a)brgm.fr> wrote:
> Dear CGM support,
>
>
>
> I am interested to generate large scale finite element meshes for the
> spectral-element code EFISPEC3D (http://efispec.free.fr)
>
> I have downloaded (from git) and compiled CGM, but I can hardly find a
> user documentation. Would you please send it to me ?
>
>
>
> Best regards,
>
> Florent DE MARTIN
>
> P Pensez à l'environnement avant d'imprimer ce message
>
> Think Environment before printing
>
>
>
> Le contenu de ce mél et de ses pièces jointes est destiné à l'usage
> exclusif du (des) destinataire(s) désigné(s) comme tel(s).
>
> En cas de réception par erreur, le signaler à son expéditeur et ne pas
> en divulguer le contenu.
> L'absence de virus a été vérifiée à l'émission, il convient néanmoins
> de s'assurer de l'absence de contamination à sa réception.
>
>
>
> The contents of this email and any attachments are confidential. They
> are intended for the named recipient(s) only.
>
> If you have received this email in error please notify the system
> manager or the sender immediately and do not disclose the contents to
> anyone or make copies.
>
> This email was scanned for viruses, vandals and malicious content.
>
>
P Pensez à l'environnement avant d'imprimer ce message
Think Environment before printing
Le contenu de ce mél et de ses pièces jointes est destiné à l'usage exclusif du (des) destinataire(s) désigné(s) comme tel(s).
En cas de réception par erreur, le signaler à son expéditeur et ne pas en divulguer le contenu.
L'absence de virus a été vérifiée à l'émission, il convient néanmoins de s'assurer de l'absence de contamination à sa réception.
The contents of this email and any attachments are confidential. They are intended for the named recipient(s) only.
If you have received this email in error please notify the system manager or the sender immediately and do not disclose the contents to
anyone or make copies.
This email was scanned for viruses, vandals and malicious content.
Dear Iulian,
Thank you for your prompt response and your advices.
To answer your questions, EFISPEC3D reads ExodusII mesh file generated by CUBIT. Boundary conditions are either free surface (made of QUAD) or absorbing boundaries (made of QUAD). But unfortunately, the NetCDF API inside CUBIT fail to generate a mesh of 200+ millions of hexa. The mesh is very basic: only a cubic domain meshed by millions of hexa. So I was looking for an open-source code (CUBIT is not) to generate such a mesh...
Best regards,
Florent
De : Grindeanu, Iulian R. [mailto:[email protected]]
Envoyé : jeudi 10 mars 2016 17:00
À : De Martin Florent; cgma-dev(a)mcs.anl.gov
Objet : RE: CGM doc
Hello,
CGM alone would not be enough to generate a mesh
CGM is mostly a wrapper around other geometry kernels, ACIS or OCC/OCE based.
To generate a mesh you would need the SIGMA stack.
http://sigma.mcs.anl.gov/
I am not familiar with what format you need your mesh for EFISPEC3D; I assume it is similar to NEK5000 solver, which is a spectral element method too. (so Nek needs a hexahedral mesh)
And what is the input geometry format? Terrain data?
We have some capabilities developed for ice sheet modeling. At the core, they do need a quadrilateral mesher for surfaces, which are then extruded/swept to form hexahedral elements. Also, it is assumed that the domain of interest does not have internal caves/tunnels, so the sweeping in vertical direction is trivial.
I am not sure how these would help your project.
Iulian
________________________________
From: cgma-dev-bounces(a)mcs.anl.gov<mailto:[email protected]> [cgma-dev-bounces(a)mcs.anl.gov] on behalf of De Martin Florent [F.DeMartin(a)brgm.fr]
Sent: Thursday, March 10, 2016 9:19 AM
To: cgma-dev(a)mcs.anl.gov<mailto:[email protected]>
Subject: [cgma-dev] CGM doc
Dear CGM support,
I am interested to generate large scale finite element meshes for the spectral-element code EFISPEC3D (http://efispec.free.fr)
I have downloaded (from git) and compiled CGM, but I can hardly find a user documentation. Would you please send it to me ?
Best regards,
Florent DE MARTIN
P Pensez à l'environnement avant d'imprimer ce message
Think Environment before printing
Le contenu de ce mél et de ses pièces jointes est destiné à l'usage exclusif du (des) destinataire(s) désigné(s) comme tel(s).
En cas de réception par erreur, le signaler à son expéditeur et ne pas en divulguer le contenu.
L'absence de virus a été vérifiée à l'émission, il convient néanmoins de s'assurer de l'absence de contamination à sa réception.
The contents of this email and any attachments are confidential. They are intended for the named recipient(s) only.
If you have received this email in error please notify the system manager or the sender immediately and do not disclose the contents to
anyone or make copies.
This email was scanned for viruses, vandals and malicious content.
P Pensez à l'environnement avant d'imprimer ce message
Think Environment before printing
Le contenu de ce mél et de ses pièces jointes est destiné à l'usage exclusif du (des) destinataire(s) désigné(s) comme tel(s).
En cas de réception par erreur, le signaler à son expéditeur et ne pas en divulguer le contenu.
L'absence de virus a été vérifiée à l'émission, il convient néanmoins de s'assurer de l'absence de contamination à sa réception.
The contents of this email and any attachments are confidential. They are intended for the named recipient(s) only.
If you have received this email in error please notify the system manager or the sender immediately and do not disclose the contents to
anyone or make copies.
This email was scanned for viruses, vandals and malicious content.
Hi Florent,
The doxygen documentation pages [1] and the website [2] provide some
information depending on what you want to do. We currently do not have
any examples in CGM and are planning to add few in the coming months.
For mesh generation, I suggest you please take a look at MeshKit,
which uses CGM and MOAB underneath to handle the geometry and mesh
queries, while optionally interfacing with external tools such as
Cubit to generate high-quality meshes.
What is the general complexity in your geometry and what kind of
meshes do you want to generate (HEX, TET. Hybrid) ? Also if you have
any specific questions about the usage, do let us know.
Vijay
[1] ftp://ftp.mcs.anl.gov/pub/fathom/cgm-docs/index.html
[2] http://sigma.mcs.anl.gov/cgm-library
On Thu, Mar 10, 2016 at 9:19 AM, De Martin Florent <F.DeMartin(a)brgm.fr> wrote:
> Dear CGM support,
>
>
>
> I am interested to generate large scale finite element meshes for the
> spectral-element code EFISPEC3D (http://efispec.free.fr)
>
> I have downloaded (from git) and compiled CGM, but I can hardly find a user
> documentation. Would you please send it to me ?
>
>
>
> Best regards,
>
> Florent DE MARTIN
>
> P Pensez à l'environnement avant d'imprimer ce message
>
> Think Environment before printing
>
>
>
> Le contenu de ce mél et de ses pièces jointes est destiné à l'usage exclusif
> du (des) destinataire(s) désigné(s) comme tel(s).
>
> En cas de réception par erreur, le signaler à son expéditeur et ne pas en
> divulguer le contenu.
> L'absence de virus a été vérifiée à l'émission, il convient néanmoins de
> s'assurer de l'absence de contamination à sa réception.
>
>
>
> The contents of this email and any attachments are confidential. They are
> intended for the named recipient(s) only.
>
> If you have received this email in error please notify the system manager or
> the sender immediately and do not disclose the contents to
> anyone or make copies.
>
> This email was scanned for viruses, vandals and malicious content.
>
>
Hello,
CGM alone would not be enough to generate a mesh
CGM is mostly a wrapper around other geometry kernels, ACIS or OCC/OCE based.
To generate a mesh you would need the SIGMA stack.
http://sigma.mcs.anl.gov/
I am not familiar with what format you need your mesh for EFISPEC3D; I assume it is similar to NEK5000 solver, which is a spectral element method too. (so Nek needs a hexahedral mesh)
And what is the input geometry format? Terrain data?
We have some capabilities developed for ice sheet modeling. At the core, they do need a quadrilateral mesher for surfaces, which are then extruded/swept to form hexahedral elements. Also, it is assumed that the domain of interest does not have internal caves/tunnels, so the sweeping in vertical direction is trivial.
I am not sure how these would help your project.
Iulian
________________________________
From: cgma-dev-bounces(a)mcs.anl.gov [cgma-dev-bounces(a)mcs.anl.gov] on behalf of De Martin Florent [F.DeMartin(a)brgm.fr]
Sent: Thursday, March 10, 2016 9:19 AM
To: cgma-dev(a)mcs.anl.gov
Subject: [cgma-dev] CGM doc
Dear CGM support,
I am interested to generate large scale finite element meshes for the spectral-element code EFISPEC3D (http://efispec.free.fr)
I have downloaded (from git) and compiled CGM, but I can hardly find a user documentation. Would you please send it to me ?
Best regards,
Florent DE MARTIN
P Pensez à l'environnement avant d'imprimer ce message
Think Environment before printing
Le contenu de ce mél et de ses pièces jointes est destiné à l'usage exclusif du (des) destinataire(s) désigné(s) comme tel(s).
En cas de réception par erreur, le signaler à son expéditeur et ne pas en divulguer le contenu.
L'absence de virus a été vérifiée à l'émission, il convient néanmoins de s'assurer de l'absence de contamination à sa réception.
The contents of this email and any attachments are confidential. They are intended for the named recipient(s) only.
If you have received this email in error please notify the system manager or the sender immediately and do not disclose the contents to
anyone or make copies.
This email was scanned for viruses, vandals and malicious content.
Dear CGM support,
I am interested to generate large scale finite element meshes for the spectral-element code EFISPEC3D (http://efispec.free.fr)
I have downloaded (from git) and compiled CGM, but I can hardly find a user documentation. Would you please send it to me ?
Best regards,
Florent DE MARTIN
P Pensez à l'environnement avant d'imprimer ce message
Think Environment before printing
Le contenu de ce mél et de ses pièces jointes est destiné à l'usage exclusif du (des) destinataire(s) désigné(s) comme tel(s).
En cas de réception par erreur, le signaler à son expéditeur et ne pas en divulguer le contenu.
L'absence de virus a été vérifiée à l'émission, il convient néanmoins de s'assurer de l'absence de contamination à sa réception.
The contents of this email and any attachments are confidential. They are intended for the named recipient(s) only.
If you have received this email in error please notify the system manager or the sender immediately and do not disclose the contents to
anyone or make copies.
This email was scanned for viruses, vandals and malicious content.
