[cig-commits] r20178 - in seismo/3D/SPECFEM3D_GLOBE/trunk: . doc/USER_MANUAL
dkomati1 at geodynamics.org
dkomati1 at geodynamics.org
Sat May 19 11:48:12 PDT 2012
Author: dkomati1
Date: 2012-05-19 11:48:12 -0700 (Sat, 19 May 2012)
New Revision: 20178
Modified:
seismo/3D/SPECFEM3D_GLOBE/trunk/configure.ac
seismo/3D/SPECFEM3D_GLOBE/trunk/doc/USER_MANUAL/manual_SPECFEM3D_GLOBE.pdf
seismo/3D/SPECFEM3D_GLOBE/trunk/doc/USER_MANUAL/manual_SPECFEM3D_GLOBE.tex
seismo/3D/SPECFEM3D_GLOBE/trunk/flags.guess
Log:
better IBM compiler options.
also updated the manual
Modified: seismo/3D/SPECFEM3D_GLOBE/trunk/configure.ac
===================================================================
--- seismo/3D/SPECFEM3D_GLOBE/trunk/configure.ac 2012-05-19 16:45:32 UTC (rev 20177)
+++ seismo/3D/SPECFEM3D_GLOBE/trunk/configure.ac 2012-05-19 18:48:12 UTC (rev 20178)
@@ -10,7 +10,7 @@
AC_PREREQ(2.61)
-AC_INIT([Specfem3D Globe], [5.1.2], [jtromp AT princeton.edu], [Specfem3DGlobe])
+AC_INIT([Specfem3D Globe], [5], [jtromp AT princeton.edu], [Specfem3DGlobe])
AC_CONFIG_SRCDIR([src/specfem3D/specfem3D.F90])
AC_CONFIG_HEADER([setup/config.h])
AC_CONFIG_MACRO_DIR([m4])
@@ -101,7 +101,7 @@
# Checks for library functions.
-AC_CONFIG_FILES([Makefile src/auxiliaries/Makefile src/meshfem3D/Makefile src/specfem3D/Makefile src/create_header_file/Makefile setup/constants.h setup/precision.h DATA/Par_file DATA/CMTSOLUTION DATA/STATIONS])
+AC_CONFIG_FILES([Makefile src/auxiliaries/Makefile src/meshfem3D/Makefile src/specfem3D/Makefile src/create_header_file/Makefile setup/constants.h setup/precision.h])
AC_OUTPUT
Modified: seismo/3D/SPECFEM3D_GLOBE/trunk/doc/USER_MANUAL/manual_SPECFEM3D_GLOBE.pdf
===================================================================
(Binary files differ)
Modified: seismo/3D/SPECFEM3D_GLOBE/trunk/doc/USER_MANUAL/manual_SPECFEM3D_GLOBE.tex
===================================================================
--- seismo/3D/SPECFEM3D_GLOBE/trunk/doc/USER_MANUAL/manual_SPECFEM3D_GLOBE.tex 2012-05-19 16:45:32 UTC (rev 20177)
+++ seismo/3D/SPECFEM3D_GLOBE/trunk/doc/USER_MANUAL/manual_SPECFEM3D_GLOBE.tex 2012-05-19 18:48:12 UTC (rev 20178)
@@ -284,7 +284,7 @@
If you run very large meshes on a relatively small number
of processors, the memory size needed on each processor might become
greater than 2 gigabytes, which is the upper limit for 32-bit addressing.
-In this case, on some compilers you may need to add \texttt{``-mcmodel=medium}''
+In this case, on some compilers you may need to add \texttt{``-mcmodel=medium}'' or \texttt{``-mcmodel=medium -shared-intel}''
to the compiler options of CFLAGS, FCFLAGS and LDFLAGS otherwise the compiler will display an error
message (for instance \texttt{``relocation truncated to fit: R\_X86\_64\_PC32 against .bss''} or something similar);
on an IBM machine with the \texttt{xlf} and \texttt{xlc} compilers, using \texttt{-q64} is usually sufficient.\\
@@ -392,9 +392,10 @@
\texttt{ FLAGS\_NO\_CHECK="-O3 -qsave -qstrict -qtune=auto -qarch=450d -qcache=auto \\}
\texttt{ -qfree=f90 -qsuffix=f=f90 -g -qlanglvl=95pure -qhalt=w -Q -Q+rank,swap\_all -Wl,-relax"}
-Option "-Wl,-relax" must be added to be able to link the binaries \texttt{xmeshfem3D}
-and \texttt{xspecfem3D} because on BlueGene the final link step is done by the \texttt{gcc} compiler even if
+Option "-Wl,-relax" must be added on many (but not all) BlueGene systems to be able to link the binaries \texttt{xmeshfem3D}
+and \texttt{xspecfem3D} because the final link step is done by the GNU \texttt{ld} linker even if
one uses \texttt{FC=bgxlf90\_r, MPIFC=mpixlf90\_r} and \texttt{CC=bgxlc\_r} to create all the object files.
+On the contrary, on some BlueGene systems that use the native AIX linker option "-Wl,-relax" can lead to problems and must be suppressed from \texttt{flags.guess}.
Also, \texttt{AR=ar, ARFLAGS=cru} and \texttt{RANLIB=ranlib} are hardwired in all \texttt{Makefile.in} files by default, but to cross-compile on BlueGene/P one needs to change
these values to \texttt{AR=bgar, ARFLAGS=cru} and \texttt{RANLIB=bgranlib}. Thus the easiest thing to do is to modify
@@ -493,7 +494,11 @@
If OMP\_SCHEDULE is not set or is empty, the DO-loop will assume generic
scheduling policy, which will slow down the job quite a bit.
+\section{Visualizing the subroutine calling tree of the source code}
+Packages such as \texttt{doxywizard} can be used to visualize the subroutine calling tree of the source code.
+\texttt{Doxywizard} is a GUI front-end for configuring and running \texttt{doxygen}.
+
\chapter{\label{cha:Running-the-Mesher}Running the Mesher \texttt{xmeshfem3D}}
You are now ready to compile the mesher. In the directory with the
Modified: seismo/3D/SPECFEM3D_GLOBE/trunk/flags.guess
===================================================================
--- seismo/3D/SPECFEM3D_GLOBE/trunk/flags.guess 2012-05-19 16:45:32 UTC (rev 20177)
+++ seismo/3D/SPECFEM3D_GLOBE/trunk/flags.guess 2012-05-19 18:48:12 UTC (rev 20178)
@@ -180,15 +180,16 @@
#
if test x"$FLAGS_NO_CHECK" = x; then
# deleted -qxflag=dvz because it requires handler function __xl_dzx and thus linking will fail
- FLAGS_NO_CHECK="-O3 -qstrict -q64 -qtune=auto -qarch=auto -qcache=auto -qfree=f90 -qsuffix=f=f90 -qhalt=w -qlanglvl=90pure -qsuppress=1518-317 -qflttrap=overflow:zerodivide:invalid:enable -qfloat=nans -qinitauto=7FBFFFFF -Q -Q+rank,swap_all -Wl,-relax -qunroll=yes"
- # on "MareNostrum" IBM at the Barcelona SuperComputing Center (Spain) use:
- # -qtune=ppc970 -qarch=ppc64v -qsave instead of -qtune=auto -qarch=auto
+ FLAGS_NO_CHECK="-O3 -qsave -qstrict -q64 -qtune=auto -qarch=auto -qcache=auto -qfree=f90 -qsuffix=f=f90 -qhalt=w -qlanglvl=90pure -qsuppress=1518-317 -Q -Q+rank,swap_all -Wl,-relax -qunroll=yes"
+ # on MareNostrum at the Barcelona SuperComputing Center (Spain) one can use
+ # -qtune=ppc970 -qarch=ppc64v instead of -qtune=auto -qarch=auto
# on "Babel" IBM BlueGene at IDRIS (France) use:
# -qtune=auto -qarch=450d -qsave instead of -qtune=auto -qarch=auto
fi
if test x"$FLAGS_CHECK" = x; then
#
# to debug with IBM xlf, one can add this: -g -O0 -C -qddim -qfullpath
+ # to debug, one can add these three flags: -qflttrap=overflow:zerodivide:invalid:enable -qfloat=nans -qinitauto=7FBFFFFF
#
FLAGS_CHECK="\$(FLAGS_NO_CHECK) -g -C -qddim -qfullpath"
fi
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