[cig-commits] r20925 - in seismo/3D/SPECFEM3D/trunk: doc/USER_MANUAL doc/USER_MANUAL/figures src/generate_databases src/meshfem3D src/specfem3D

dkomati1 at geodynamics.org dkomati1 at geodynamics.org
Thu Oct 25 08:28:20 PDT 2012 

Author: dkomati1
Date: 2012-10-25 08:28:19 -0700 (Thu, 25 Oct 2012)
New Revision: 20925

Modified:
   seismo/3D/SPECFEM3D/trunk/doc/USER_MANUAL/figures/specfem_3d_Cartesian-cover.ai
   seismo/3D/SPECFEM3D/trunk/doc/USER_MANUAL/figures/specfem_3d_Cartesian-cover.pdf
   seismo/3D/SPECFEM3D/trunk/doc/USER_MANUAL/manual_SPECFEM3D_Cartesian.pdf
   seismo/3D/SPECFEM3D/trunk/doc/USER_MANUAL/manual_SPECFEM3D_Cartesian.tex
   seismo/3D/SPECFEM3D/trunk/src/generate_databases/generate_databases.f90
   seismo/3D/SPECFEM3D/trunk/src/meshfem3D/meshfem3D.f90
   seismo/3D/SPECFEM3D/trunk/src/specfem3D/specfem3D.f90
Log:
updated the manual


Modified: seismo/3D/SPECFEM3D/trunk/doc/USER_MANUAL/figures/specfem_3d_Cartesian-cover.ai
===================================================================
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Modified: seismo/3D/SPECFEM3D/trunk/doc/USER_MANUAL/figures/specfem_3d_Cartesian-cover.pdf
===================================================================
(Binary files differ)

Modified: seismo/3D/SPECFEM3D/trunk/doc/USER_MANUAL/manual_SPECFEM3D_Cartesian.pdf
===================================================================
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Modified: seismo/3D/SPECFEM3D/trunk/doc/USER_MANUAL/manual_SPECFEM3D_Cartesian.tex
===================================================================
--- seismo/3D/SPECFEM3D/trunk/doc/USER_MANUAL/manual_SPECFEM3D_Cartesian.tex	2012-10-25 15:26:38 UTC (rev 20924)
+++ seismo/3D/SPECFEM3D/trunk/doc/USER_MANUAL/manual_SPECFEM3D_Cartesian.tex	2012-10-25 15:28:19 UTC (rev 20925)
@@ -108,7 +108,8 @@
 \maketitle
 
 \section*{Authors}
-The SPECFEM3D Cartesian package was first developed by Dimitri Komatitsch and Jeroen Tromp at Harvard University and Caltech, USA, starting in 1998, based on earlier work by Dimitri Komatitsch and Jean-Pierre Vilotte at Institut de Physique du Globe (IPGP) in Paris, France from 1995 to 1997.\\
+The SPECFEM3D Cartesian package was first developed by Dimitri Komatitsch and Jean-Pierre Vilotte at Institut de Physique du Globe (IPGP) in Paris, France 
+from 1995 to 1997 and then by Dimitri Komatitsch and Jeroen Tromp at Harvard University and Caltech, USA, starting in 1998.
 
 Since then it has been developed and maintained by a development team: in alphabetical order,
 Piero Basini,
@@ -117,6 +118,7 @@
 Emanuele Casarotti,
 Joseph Charles,
 Min Chen,
+Dominik G\"oddeke,
 Vala Hj\"orleifsd\'ottir,
 Sue Kientz,
 Dimitri Komatitsch,
@@ -142,9 +144,9 @@
 Leif Strand,
 Carl Tape,
 Jeroen Tromp,
+Jean-Pierre Vilotte,
 Zhinan Xie,
 Hejun Zhu.\\
-%\toall{add full list of developers here and update the AUTHORS file accordingly}
 
 The cover graphic of the manual was created
 by Santiago Lombeyda from Caltech's Center for Advanced Computing Research (CACR) \urlwithparentheses{http://www.cacr.caltech.edu}. \\
@@ -226,7 +228,7 @@
 
 \item [Numerical simulations in general] ~\\
 Forward and adjoint simulations are described in detail in \cite{TrKoLi08,PeKoLuMaLeCaLeMaLiBlNiBaTr11,VaCaSaKoVi99,KoMiEr09,KoErGoMi10,KoGoErMi10,ChKoViCaVaFe07,MaKoDi09,KoViCh10,CaKoLaTiMiLeSnTr08,TrKoHjLiZhPeBoMcFrTrHu10,KoRiTr02,KoTr02a,KoTr02b,KoTr99} or \cite{KoVi98}.
-Additional aspects dealing with adjoint simulations are described in
+Additional aspects of adjoint simulations are described in
 \cite{TrTaLi05,LiTr06,TrKoLi08,LiTr08,TrKoHjLiZhPeBoMcFrTrHu10,PeKoLuMaLeCaLeMaLiBlNiBaTr11}.
 Domain decomposition is explained in detail in \cite{MaKoBlLe08}, and excellent scaling up to 150,000 processor cores is shown for instance in
 \cite{CaKoLaTiMiLeSnTr08,KoLaMi08a,MaKoBlLe08,KoErGoMi10,KoGoErMi10,Kom11},
@@ -339,9 +341,8 @@
 
 The SCOTCH library \citep{PeRo96}
 provides efficent static mapping, graph and mesh partitioning routines. SCOTCH is a free software package developed by
-Fran\c {c}ois Pellegrini et al. from LaBRI and INRIA in Bordeaux, France, downloadable from the web page \url{https://gforge.inria.fr/projects/scotch/}. It is more recent than METIS, actively maintained and performs better in many cases.
-A recent version of its source code is provided in directory \texttt{src/decompose\_mesh\_SCOTCH/scotch\_5.1.10b}.
-In case no SCOTCH libraries can be found on the system, the configuration will bundle this version for compilation.
+Fran\c {c}ois Pellegrini et al. from LaBRI and INRIA in Bordeaux, France, downloadable from the web page \url{https://gforge.inria.fr/projects/scotch/}.
+In case no SCOTCH libraries can be found on the system, the configuration will bundle the version provided with the source code for compilation.
 The path to an existing SCOTCH installation can to be set explicitly with the option \texttt{-{}-with-scotch-dir}. Just as an example:
 \begin{lyxcode}
 ./configure~FC=ifort~MPIFC=mpif90~-{}-with-scotch-dir=/opt/scotch
@@ -449,7 +450,7 @@
 \noindent
 \texttt{-g -qfullpath -O2 -qsave -qstrict -qtune=qp -qarch=qp -qcache=auto -qhalt=w}\\
 \noindent
-\texttt{-qfree=f90 -qsuffix=f=f90 -qlanglvl=95pure -Wl,-relax -Q -Q+rank,swap\_all}.\\
+\texttt{-qfree=f90 -qsuffix=f=f90 -qlanglvl=95pure -Q -Q+rank,swap\_all -Wl,-relax}\\
 
 \noindent
 The most relevant are the -qarch and -qtune flags, otherwise if these flags are set to ``auto'' then they are wrongly assigned to
@@ -711,8 +712,7 @@
 It amounts to balance the number of elements in each slice while minimizing the communication costs
 resulting from the placement of adjacent elements on different processors. \texttt{decompose\_mesh\_SCOTCH} depends on the SCOTCH library \citep{PeRo96},
 which provides efficent static mapping, graph and mesh partitioning routines. SCOTCH is a free software package developed by
-Fran\c {c}ois Pellegrini et al. from LaBRI and INRIA in Bordeaux, France, downloadable from the web page \url{https://gforge.inria.fr/projects/scotch/}. It is more recent than METIS, actively maintained and performs better in many cases.
-A recent version of its source code is provided in directory \texttt{src/decompose\_mesh\_SCOTCH/scotch\_5.1.10b}.
+Fran\c {c}ois Pellegrini et al. from LaBRI and INRIA in Bordeaux, France, downloadable from the web page \url{https://gforge.inria.fr/projects/scotch/}.
 \\
 
 In most cases, the configuration with \texttt{./configure~FC=ifort} should be sufficient.
@@ -2828,7 +2828,7 @@
 \addcontentsline{toc}{chapter}{Copyright}
 \chapter*{Copyright}
 
-Main authors: Dimitri Komatitsch and Jeroen Tromp
+Main historical authors: Dimitri Komatitsch and Jeroen Tromp
 
 Princeton University, USA, and CNRS / INRIA / University of Pau, France
 
@@ -2846,9 +2846,9 @@
 
  MPI v. 2.0, November 2010:
  Dimitri Komatitsch, Nicolas Le Goff, Roland Martin and Pieyre Le Loher, University of Pau, France,
- Jeroen Tromp and the Princeton group of developers, Princeton University, USA,
+ Daniel Peter, Jeroen Tromp and the Princeton group of developers, Princeton University, USA,
  and Emanuele Casarotti, INGV Roma, Italy:
-  support for CUBIT meshes decomposed by SCOTCH, METIS or ZOLTAN;
+  support for CUBIT meshes decomposed by SCOTCH;
   much faster solver using Michel Deville's inlined matrix products.\\
 
  MPI v. 1.4 Dimitri Komatitsch, University of Pau, Qinya Liu and others, Caltech, September 2006:

Modified: seismo/3D/SPECFEM3D/trunk/src/generate_databases/generate_databases.f90
===================================================================
--- seismo/3D/SPECFEM3D/trunk/src/generate_databases/generate_databases.f90	2012-10-25 15:26:38 UTC (rev 20924)
+++ seismo/3D/SPECFEM3D/trunk/src/generate_databases/generate_databases.f90	2012-10-25 15:28:19 UTC (rev 20925)
@@ -161,9 +161,9 @@
 !
 ! MPI v. 2.0 "Sesame" (Spectral ElementS on Any MEsh), November 2010:
 ! Dimitri Komatitsch, Nicolas Le Goff, Roland Martin and Pieyre Le Loher, University of Pau, France,
-! Jeroen Tromp and the Princeton group of developers, Princeton University, USA,
+! Daniel Peter, Jeroen Tromp and the Princeton group of developers, Princeton University, USA,
 ! and Emanuele Casarotti, INGV Roma, Italy:
-!  support for CUBIT meshes decomposed by SCOTCH, METIS or ZOLTAN;
+!  support for CUBIT meshes decomposed by SCOTCH;
 !  much faster solver using Michel Deville's inlined matrix products.
 !
 ! MPI v. 1.4 Dimitri Komatitsch, University of Pau, Qinya Liu and others, Caltech, September 2006:

Modified: seismo/3D/SPECFEM3D/trunk/src/meshfem3D/meshfem3D.f90
===================================================================
--- seismo/3D/SPECFEM3D/trunk/src/meshfem3D/meshfem3D.f90	2012-10-25 15:26:38 UTC (rev 20924)
+++ seismo/3D/SPECFEM3D/trunk/src/meshfem3D/meshfem3D.f90	2012-10-25 15:28:19 UTC (rev 20925)
@@ -200,9 +200,9 @@
 !
 ! MPI v. 2.0, November 2010:
 ! Dimitri Komatitsch, Nicolas Le Goff, Roland Martin and Pieyre Le Loher, University of Pau, France,
-! Jeroen Tromp and the Princeton group of developers, Princeton University, USA,
+! Daniel Peter, Jeroen Tromp and the Princeton group of developers, Princeton University, USA,
 ! and Emanuele Casarotti, INGV Roma, Italy:
-!  support for CUBIT meshes decomposed by SCOTCH, METIS or ZOLTAN;
+!  support for CUBIT meshes decomposed by SCOTCH;
 !  much faster solver using Michel Deville's inlined matrix products.
 !
 ! MPI v. 1.4 Dimitri Komatitsch, University of Pau, Qinya Liu and others, Caltech, September 2006:

Modified: seismo/3D/SPECFEM3D/trunk/src/specfem3D/specfem3D.f90
===================================================================
--- seismo/3D/SPECFEM3D/trunk/src/specfem3D/specfem3D.f90	2012-10-25 15:26:38 UTC (rev 20924)
+++ seismo/3D/SPECFEM3D/trunk/src/specfem3D/specfem3D.f90	2012-10-25 15:28:19 UTC (rev 20925)
@@ -279,9 +279,9 @@
 !
 ! MPI v. 2.0, November 2010:
 ! Dimitri Komatitsch, Nicolas Le Goff, Roland Martin and Pieyre Le Loher, University of Pau, France,
-! Jeroen Tromp and the Princeton group of developers, Princeton University, USA,
+! Daniel Peter, Jeroen Tromp and the Princeton group of developers, Princeton University, USA,
 ! and Emanuele Casarotti, INGV Roma, Italy:
-!  support for CUBIT meshes decomposed by SCOTCH, METIS or ZOLTAN;
+!  support for CUBIT meshes decomposed by SCOTCH;
 !  much faster solver using Michel Deville's inlined matrix products.
 !
 ! MPI v. 1.4 Dimitri Komatitsch, University of Pau, Qinya Liu and others, Caltech, September 2006:

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