[cig-commits] r15628 - in seismo/3D/SPECFEM3D_GLOBE/trunk: . version41_beta/src
dkomati1 at geodynamics.org
dkomati1 at geodynamics.org
Sat Aug 29 08:16:16 PDT 2009
Author: dkomati1
Date: 2009-08-29 08:16:16 -0700 (Sat, 29 Aug 2009)
New Revision: 15628
Modified:
seismo/3D/SPECFEM3D_GLOBE/trunk/meshfem3D.f90
seismo/3D/SPECFEM3D_GLOBE/trunk/specfem3D.f90
seismo/3D/SPECFEM3D_GLOBE/trunk/version41_beta/src/main_program.F90
Log:
more precise BibTeX information as comments in the header
Modified: seismo/3D/SPECFEM3D_GLOBE/trunk/meshfem3D.f90
===================================================================
--- seismo/3D/SPECFEM3D_GLOBE/trunk/meshfem3D.f90 2009-08-29 15:04:29 UTC (rev 15627)
+++ seismo/3D/SPECFEM3D_GLOBE/trunk/meshfem3D.f90 2009-08-29 15:16:16 UTC (rev 15628)
@@ -47,8 +47,51 @@
! !
!=====================================================================!
!
-! If you use this code for your own research, please cite some of these articles:
+! If you use this code for your own research, please cite at least one article
+! written by the developers of the package, for instance:
!
+! @ARTICLE{TrKoLi08,
+! author = {Jeroen Tromp and Dimitri Komatitsch and Qinya Liu},
+! title = {Spectral-Element and Adjoint Methods in Seismology},
+! journal = {Communications in Computational Physics},
+! year = {2008},
+! volume = {3},
+! pages = {1-32},
+! number = {1}}
+!
+! or
+!
+! @INCOLLECTION{ChKoViCaVaFe07,
+! author = {Emmanuel Chaljub and Dimitri Komatitsch and Jean-Pierre Vilotte and
+! Yann Capdeville and Bernard Valette and Gaetano Festa},
+! title = {Spectral Element Analysis in Seismology},
+! booktitle = {Advances in Wave Propagation in Heterogeneous Media},
+! publisher = {Elsevier - Academic Press},
+! year = {2007},
+! editor = {Ru-Shan Wu and Val\'erie Maupin},
+! volume = {48},
+! series = {Advances in Geophysics},
+! pages = {365-419}}
+!
+! @ARTICLE{KoVi98,
+! author={D. Komatitsch and J. P. Vilotte},
+! title={The spectral-element method: an efficient tool to simulate the seismic response of 2{D} and 3{D} geological structures},
+! journal={Bull. Seismol. Soc. Am.},
+! year=1998,
+! volume=88,
+! number=2,
+! pages={368-392}}
+!
+! @ARTICLE{KoTr99,
+! author={D. Komatitsch and J. Tromp},
+! year=1999,
+! title={Introduction to the spectral-element method for 3-{D} seismic wave propagation},
+! journal={Geophys. J. Int.},
+! volume=139,
+! number=3,
+! pages={806-822},
+! doi={10.1046/j.1365-246x.1999.00967.x}}
+!
! @ARTICLE{KoRiTr02,
! author={D. Komatitsch and J. Ritsema and J. Tromp},
! year=2002,
@@ -79,27 +122,23 @@
! number=1,
! doi={10.1046/j.1365-246X.2002.01716.x}}
!
-! @ARTICLE{KoTr99,
-! author={D. Komatitsch and J. Tromp},
-! year=1999,
-! title={Introduction to the spectral-element method for 3-{D} seismic wave propagation},
-! journal={Geophys. J. Int.},
-! volume=139,
-! number=3,
-! pages={806-822},
-! doi={10.1046/j.1365-246x.1999.00967.x}}
+! and/or another article from http://web.univ-pau.fr/~dkomati1/publications.html
!
-! @ARTICLE{KoVi98,
-! author={D. Komatitsch and J. P. Vilotte},
-! title={The spectral-element method: an efficient tool to simulate the seismic response of 2{D} and 3{D} geological structures},
-! journal={Bull. Seismol. Soc. Am.},
-! year=1998,
-! volume=88,
-! number=2,
-! pages={368-392}}
!
-! If you use the kernel capabilities of the code, please cite
+! If you use the kernel capabilities of the code, please cite at least one article
+! written by the developers of the package, for instance:
!
+! @ARTICLE{TrKoLi08,
+! author = {Jeroen Tromp and Dimitri Komatitsch and Qinya Liu},
+! title = {Spectral-Element and Adjoint Methods in Seismology},
+! journal = {Communications in Computational Physics},
+! year = {2008},
+! volume = {3},
+! pages = {1-32},
+! number = {1}}
+!
+! or
+!
! @ARTICLE{LiTr06,
! author={Qinya Liu and Jeroen Tromp},
! title={Finite-frequency kernels based on adjoint methods},
@@ -110,7 +149,7 @@
! pages={2383-2397},
! doi={10.1785/0120060041}}
!
-! If you use 3-D model S20RTS, please cite
+! If you use 3-D model S20RTS, please cite:
!
! @ARTICLE{RiVa00,
! author={J. Ritsema and H. J. {Van Heijst}},
@@ -145,9 +184,71 @@
! - Z axis is up
!
! To report bugs or suggest improvements to the code, please send an email
-! to Jeroen Tromp <jtromp AT caltech.edu> and/or use our online
+! to Jeroen Tromp <jtromp AT princeton.edu> and/or use our online
! bug tracking system at http://www.geodynamics.org/roundup .
!
+! Evolution of the code:
+! ---------------------
+!
+! v. 4.0 David Michea and Dimitri Komatitsch, University of Pau, France, February 2008:
+! new doubling brick in the mesh, new perfectly load-balanced mesh,
+! more flexible routines for mesh design, new inflated central cube
+! with optimized shape, far fewer mesh files saved by the mesher,
+! global arrays sorted to speed up the simulation, seismos can be
+! written by the master, one more doubling level at the bottom
+! of the outer core if needed (off by default)
+! v. 3.6 Many people, many affiliations, September 2006:
+! adjoint and kernel calculations, fixed IASP91 model,
+! added AK135 and 1066a, fixed topography/bathymetry routine,
+! new attenuation routines, faster and better I/Os on very large
+! systems, many small improvements and bug fixes, new "configure"
+! script, new Pyre version, new user's manual etc.
+! v. 3.5 Dimitri Komatitsch, Brian Savage and Jeroen Tromp, Caltech, July 2004:
+! any size of chunk, 3D attenuation, case of two chunks,
+! more precise topography/bathymetry model, new Par_file structure
+! v. 3.4 Dimitri Komatitsch and Jeroen Tromp, Caltech, August 2003:
+! merged global and regional codes, no iterations in fluid, better movies
+! v. 3.3 Dimitri Komatitsch, Caltech, September 2002:
+! flexible mesh doubling in outer core, inlined code, OpenDX support
+! v. 3.2 Jeroen Tromp, Caltech, July 2002:
+! multiple sources and flexible PREM reading
+! v. 3.1 Dimitri Komatitsch, Caltech, June 2002:
+! vectorized loops in solver and merged central cube
+! v. 3.0 Dimitri Komatitsch and Jeroen Tromp, Caltech, May 2002:
+! ported to SGI and Compaq, double precision solver, more general anisotropy
+! v. 2.3 Dimitri Komatitsch and Jeroen Tromp, Caltech, August 2001:
+! gravity, rotation, oceans and 3-D models
+! v. 2.2 Dimitri Komatitsch and Jeroen Tromp, Caltech, March 2001:
+! final MPI package
+! v. 2.0 Dimitri Komatitsch, Harvard, January 2000: MPI code for the globe
+! v. 1.0 Dimitri Komatitsch, Mexico, June 1999: first MPI code for a chunk
+! Jeroen Tromp, Harvard, July 1998: first chunk solver using OpenMP on Sun
+! Dimitri Komatitsch, IPG Paris, December 1996: first 3-D solver for the CM5
+!
+! From Dahlen and Tromp (1998):
+! ----------------------------
+!
+! Gravity is approximated by solving eq (3.259) without the Phi_E' term
+! The ellipsoidal reference model is that of section 14.1
+! The transversely isotropic expression for PREM is that of eq (8.190)
+!
+! Formulation in the fluid (acoustic) outer core:
+! -----------------------------------------------
+!
+! In case of an acoustic medium, a displacement potential Chi is used
+! as in Chaljub and Valette, Geophysical Journal International, vol. 158,
+! p. 131-141 (2004) and *NOT* a velocity potential as in Komatitsch and Tromp,
+! Geophysical Journal International, vol. 150, p. 303-318 (2002).
+! This permits acoustic-elastic coupling based on a non-iterative time scheme.
+! Displacement if we ignore gravity is then: u = grad(Chi)
+! (In the context of the Cowling approximation displacement is
+! u = grad(rho * Chi) / rho, *not* u = grad(Chi).)
+! Velocity is then: v = grad(Chi_dot) (Chi_dot being the time derivative of Chi)
+! and pressure is: p = - rho * Chi_dot_dot (Chi_dot_dot being the time second derivative of Chi).
+! The source in an acoustic element is a pressure source.
+! The potential in the outer core is called displ_outer_core for simplicity.
+! Its first time derivative is called veloc_outer_core.
+! Its second time derivative is called accel_outer_core.
! aniso_mantle_model_variables
type aniso_mantle_model_variables
Modified: seismo/3D/SPECFEM3D_GLOBE/trunk/specfem3D.f90
===================================================================
--- seismo/3D/SPECFEM3D_GLOBE/trunk/specfem3D.f90 2009-08-29 15:04:29 UTC (rev 15627)
+++ seismo/3D/SPECFEM3D_GLOBE/trunk/specfem3D.f90 2009-08-29 15:16:16 UTC (rev 15628)
@@ -47,8 +47,51 @@
! !
!=======================================================================!
!
-! If you use this code for your own research, please cite some of these articles:
+! If you use this code for your own research, please cite at least one article
+! written by the developers of the package, for instance:
!
+! @ARTICLE{TrKoLi08,
+! author = {Jeroen Tromp and Dimitri Komatitsch and Qinya Liu},
+! title = {Spectral-Element and Adjoint Methods in Seismology},
+! journal = {Communications in Computational Physics},
+! year = {2008},
+! volume = {3},
+! pages = {1-32},
+! number = {1}}
+!
+! or
+!
+! @INCOLLECTION{ChKoViCaVaFe07,
+! author = {Emmanuel Chaljub and Dimitri Komatitsch and Jean-Pierre Vilotte and
+! Yann Capdeville and Bernard Valette and Gaetano Festa},
+! title = {Spectral Element Analysis in Seismology},
+! booktitle = {Advances in Wave Propagation in Heterogeneous Media},
+! publisher = {Elsevier - Academic Press},
+! year = {2007},
+! editor = {Ru-Shan Wu and Val\'erie Maupin},
+! volume = {48},
+! series = {Advances in Geophysics},
+! pages = {365-419}}
+!
+! @ARTICLE{KoVi98,
+! author={D. Komatitsch and J. P. Vilotte},
+! title={The spectral-element method: an efficient tool to simulate the seismic response of 2{D} and 3{D} geological structures},
+! journal={Bull. Seismol. Soc. Am.},
+! year=1998,
+! volume=88,
+! number=2,
+! pages={368-392}}
+!
+! @ARTICLE{KoTr99,
+! author={D. Komatitsch and J. Tromp},
+! year=1999,
+! title={Introduction to the spectral-element method for 3-{D} seismic wave propagation},
+! journal={Geophys. J. Int.},
+! volume=139,
+! number=3,
+! pages={806-822},
+! doi={10.1046/j.1365-246x.1999.00967.x}}
+!
! @ARTICLE{KoRiTr02,
! author={D. Komatitsch and J. Ritsema and J. Tromp},
! year=2002,
@@ -79,27 +122,23 @@
! number=1,
! doi={10.1046/j.1365-246X.2002.01716.x}}
!
-! @ARTICLE{KoTr99,
-! author={D. Komatitsch and J. Tromp},
-! year=1999,
-! title={Introduction to the spectral-element method for 3-{D} seismic wave propagation},
-! journal={Geophys. J. Int.},
-! volume=139,
-! number=3,
-! pages={806-822},
-! doi={10.1046/j.1365-246x.1999.00967.x}}
+! and/or another article from http://web.univ-pau.fr/~dkomati1/publications.html
!
-! @ARTICLE{KoVi98,
-! author={D. Komatitsch and J. P. Vilotte},
-! title={The spectral-element method: an efficient tool to simulate the seismic response of 2{D} and 3{D} geological structures},
-! journal={Bull. Seismol. Soc. Am.},
-! year=1998,
-! volume=88,
-! number=2,
-! pages={368-392}}
!
-! If you use the kernel capabilities of the code, please cite
+! If you use the kernel capabilities of the code, please cite at least one article
+! written by the developers of the package, for instance:
!
+! @ARTICLE{TrKoLi08,
+! author = {Jeroen Tromp and Dimitri Komatitsch and Qinya Liu},
+! title = {Spectral-Element and Adjoint Methods in Seismology},
+! journal = {Communications in Computational Physics},
+! year = {2008},
+! volume = {3},
+! pages = {1-32},
+! number = {1}}
+!
+! or
+!
! @ARTICLE{LiTr06,
! author={Qinya Liu and Jeroen Tromp},
! title={Finite-frequency kernels based on adjoint methods},
@@ -110,7 +149,7 @@
! pages={2383-2397},
! doi={10.1785/0120060041}}
!
-! If you use 3-D model S20RTS, please cite
+! If you use 3-D model S20RTS, please cite:
!
! @ARTICLE{RiVa00,
! author={J. Ritsema and H. J. {Van Heijst}},
@@ -145,7 +184,7 @@
! - Z axis is up
!
! To report bugs or suggest improvements to the code, please send an email
-! to Jeroen Tromp <jtromp AT caltech.edu> and/or use our online
+! to Jeroen Tromp <jtromp AT princeton.edu> and/or use our online
! bug tracking system at http://www.geodynamics.org/roundup .
!
! Evolution of the code:
Modified: seismo/3D/SPECFEM3D_GLOBE/trunk/version41_beta/src/main_program.F90
===================================================================
--- seismo/3D/SPECFEM3D_GLOBE/trunk/version41_beta/src/main_program.F90 2009-08-29 15:04:29 UTC (rev 15627)
+++ seismo/3D/SPECFEM3D_GLOBE/trunk/version41_beta/src/main_program.F90 2009-08-29 15:16:16 UTC (rev 15628)
@@ -39,8 +39,51 @@
! !
!===================================================================!
!
-! If you use this code for your own research, please cite some of these articles:
+! If you use this code for your own research, please cite at least one article
+! written by the developers of the package, for instance:
!
+! @ARTICLE{TrKoLi08,
+! author = {Jeroen Tromp and Dimitri Komatitsch and Qinya Liu},
+! title = {Spectral-Element and Adjoint Methods in Seismology},
+! journal = {Communications in Computational Physics},
+! year = {2008},
+! volume = {3},
+! pages = {1-32},
+! number = {1}}
+!
+! or
+!
+! @INCOLLECTION{ChKoViCaVaFe07,
+! author = {Emmanuel Chaljub and Dimitri Komatitsch and Jean-Pierre Vilotte and
+! Yann Capdeville and Bernard Valette and Gaetano Festa},
+! title = {Spectral Element Analysis in Seismology},
+! booktitle = {Advances in Wave Propagation in Heterogeneous Media},
+! publisher = {Elsevier - Academic Press},
+! year = {2007},
+! editor = {Ru-Shan Wu and Val\'erie Maupin},
+! volume = {48},
+! series = {Advances in Geophysics},
+! pages = {365-419}}
+!
+! @ARTICLE{KoVi98,
+! author={D. Komatitsch and J. P. Vilotte},
+! title={The spectral-element method: an efficient tool to simulate the seismic response of 2{D} and 3{D} geological structures},
+! journal={Bull. Seismol. Soc. Am.},
+! year=1998,
+! volume=88,
+! number=2,
+! pages={368-392}}
+!
+! @ARTICLE{KoTr99,
+! author={D. Komatitsch and J. Tromp},
+! year=1999,
+! title={Introduction to the spectral-element method for 3-{D} seismic wave propagation},
+! journal={Geophys. J. Int.},
+! volume=139,
+! number=3,
+! pages={806-822},
+! doi={10.1046/j.1365-246x.1999.00967.x}}
+!
! @ARTICLE{KoRiTr02,
! author={D. Komatitsch and J. Ritsema and J. Tromp},
! year=2002,
@@ -71,27 +114,23 @@
! number=1,
! doi={10.1046/j.1365-246X.2002.01716.x}}
!
-! @ARTICLE{KoTr99,
-! author={D. Komatitsch and J. Tromp},
-! year=1999,
-! title={Introduction to the spectral-element method for 3-{D} seismic wave propagation},
-! journal={Geophys. J. Int.},
-! volume=139,
-! number=3,
-! pages={806-822},
-! doi={10.1046/j.1365-246x.1999.00967.x}}
+! and/or another article from http://web.univ-pau.fr/~dkomati1/publications.html
!
-! @ARTICLE{KoVi98,
-! author={D. Komatitsch and J. P. Vilotte},
-! title={The spectral-element method: an efficient tool to simulate the seismic response of 2{D} and 3{D} geological structures},
-! journal={Bull. Seismol. Soc. Am.},
-! year=1998,
-! volume=88,
-! number=2,
-! pages={368-392}}
!
-! If you use the kernel capabilities of the code, please cite
+! If you use the kernel capabilities of the code, please cite at least one article
+! written by the developers of the package, for instance:
!
+! @ARTICLE{TrKoLi08,
+! author = {Jeroen Tromp and Dimitri Komatitsch and Qinya Liu},
+! title = {Spectral-Element and Adjoint Methods in Seismology},
+! journal = {Communications in Computational Physics},
+! year = {2008},
+! volume = {3},
+! pages = {1-32},
+! number = {1}}
+!
+! or
+!
! @ARTICLE{LiTr06,
! author={Qinya Liu and Jeroen Tromp},
! title={Finite-frequency kernels based on adjoint methods},
@@ -102,7 +141,7 @@
! pages={2383-2397},
! doi={10.1785/0120060041}}
!
-! If you use 3-D model S20RTS, please cite
+! If you use 3-D model S20RTS, please cite:
!
! @ARTICLE{RiVa00,
! author={J. Ritsema and H. J. {Van Heijst}},
@@ -147,59 +186,67 @@
! merged the mesher and the solver, support for diskless supercomputers,
! converted many arrays from memory heap to stack (using automatic arrays instead of allocatable)
! to avoid memory fragmentation in the case of very large models
-!
! v. 4.0 David Michea and Dimitri Komatitsch, University of Pau, France, February 2008:
! new doubling brick in the mesh, new perfectly load-balanced mesh,
! more flexible routines for mesh design, new inflated central cube
! with optimized shape, far fewer mesh files saved by the mesher,
-! global arrays sorted to speed up the simulation, seismograms can be
-! written by the master
-!
+! global arrays sorted to speed up the simulation, seismos can be
+! written by the master, one more doubling level at the bottom
+! of the outer core if needed (off by default)
! v. 3.6 Many people, many affiliations, September 2006:
-! adjoint and kernel calculations (by Qinya Liu), fixed IASP91 model,
+! adjoint and kernel calculations, fixed IASP91 model,
! added AK135 and 1066a, fixed topography/bathymetry routine,
! new attenuation routines, faster and better I/Os on very large
! systems, many small improvements and bug fixes, new "configure"
! script, new Pyre version, new user's manual etc.
-!
! v. 3.5 Dimitri Komatitsch, Brian Savage and Jeroen Tromp, Caltech, July 2004:
! any size of chunk, 3D attenuation, case of two chunks,
! more precise topography/bathymetry model, new Par_file structure
-!
! v. 3.4 Dimitri Komatitsch and Jeroen Tromp, Caltech, August 2003:
! merged global and regional codes, no iterations in fluid, better movies
-!
! v. 3.3 Dimitri Komatitsch, Caltech, September 2002:
-! flexible mesh doubling in outer core, inlined code, OpenDX support for mesh files
-!
+! flexible mesh doubling in outer core, inlined code, OpenDX support
! v. 3.2 Jeroen Tromp, Caltech, July 2002:
! multiple sources and flexible PREM reading
-!
! v. 3.1 Dimitri Komatitsch, Caltech, June 2002:
! vectorized loops in solver and merged central cube
-!
! v. 3.0 Dimitri Komatitsch and Jeroen Tromp, Caltech, May 2002:
-! ported to SGI and Compaq DEC Alpha, double precision solver, more general anisotropy
-!
+! ported to SGI and Compaq, double precision solver, more general anisotropy
! v. 2.3 Dimitri Komatitsch and Jeroen Tromp, Caltech, August 2001:
-! gravity, rotation, oceans and 3-D models
-!
+! gravity, rotation, oceans and 3-D models
! v. 2.2 Dimitri Komatitsch and Jeroen Tromp, Caltech, March 2001:
-! final MPI package
+! final MPI package
+! v. 2.0 Dimitri Komatitsch, Harvard, January 2000: MPI code for the globe
+! v. 1.0 Dimitri Komatitsch, Mexico, June 1999: first MPI code for a chunk
+! Jeroen Tromp, Harvard, July 1998: first chunk solver using OpenMP on Sun
+! Dimitri Komatitsch, IPG Paris, December 1996: first 3-D solver for the CM5
!
-! v. 2.0 Dimitri Komatitsch, Harvard, January 2000:
-! MPI code for the globe
+! From Dahlen and Tromp (1998):
+! ----------------------------
!
-! v. 1.0 Dimitri Komatitsch, Mexico, June 1999:
-! first MPI code for a chunk
+! Gravity is approximated by solving eq (3.259) without the Phi_E' term
+! The ellipsoidal reference model is that of section 14.1
+! The transversely isotropic expression for PREM is that of eq (8.190)
!
-! Jeroen Tromp, Harvard, July 1998:
-! first chunk solver using OpenMP on Sun
+! Formulation in the fluid (acoustic) outer core:
+! -----------------------------------------------
!
-! Dimitri Komatitsch, IPG Paris, December 1996:
-! first 3-D solver for the Connection Machine CM-5 (by Thinking Machines)
-!
+! In case of an acoustic medium, a displacement potential Chi is used
+! as in Chaljub and Valette, Geophysical Journal International, vol. 158,
+! p. 131-141 (2004) and *NOT* a velocity potential as in Komatitsch and Tromp,
+! Geophysical Journal International, vol. 150, p. 303-318 (2002).
+! This permits acoustic-elastic coupling based on a non-iterative time scheme.
+! Displacement if we ignore gravity is then: u = grad(Chi)
+! (In the context of the Cowling approximation displacement is
+! u = grad(rho * Chi) / rho, *not* u = grad(Chi).)
+! Velocity is then: v = grad(Chi_dot) (Chi_dot being the time derivative of Chi)
+! and pressure is: p = - rho * Chi_dot_dot (Chi_dot_dot being the time second derivative of Chi).
+! The source in an acoustic element is a pressure source.
+! The potential in the outer core is called displ_outer_core for simplicity.
+! Its first time derivative is called veloc_outer_core.
+! Its second time derivative is called accel_outer_core.
+
!! DK DK added this for merged version
!! DK DK stored in single precision for merged version, check if it precise enough (probably yes)
!! DK DK now defined as pointers, in order to be able to deallocate them
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