[cig-commits] [commit] devel, master: put http:// at the beginning of all \url{} addresses. It seems many had been missing for months. Although the result in the PDF is really ugly, it seems to be the only way of making the clickable URL work. (68fd046)

cig_noreply at geodynamics.org cig_noreply at geodynamics.org
Thu Nov 6 08:14:22 PST 2014 

Repository : https://github.com/geodynamics/specfem3d_globe

On branches: devel,master
Link       : https://github.com/geodynamics/specfem3d_globe/compare/bc58e579b3b0838a0968725a076f5904845437ca...be63f20cbb6f462104e949894dbe205d2398cd7f

>---------------------------------------------------------------

commit 68fd0463429fb0004eefcbe95c1e84ad9709a99c
Author: Dimitri Komatitsch <komatitsch at lma.cnrs-mrs.fr>
Date:   Wed May 7 02:14:49 2014 +0200

    put http:// at the beginning of all \url{} addresses. It seems many had been missing for months.
    Although the result in the PDF is really ugly, it seems to be the only way of making the clickable URL work.


>---------------------------------------------------------------

68fd0463429fb0004eefcbe95c1e84ad9709a99c
 doc/USER_MANUAL/manual_SPECFEM3D_GLOBE.pdf | Bin 24396567 -> 24396315 bytes
 doc/USER_MANUAL/manual_SPECFEM3D_GLOBE.tex |  41 ++++++++++++++---------------
 2 files changed, 20 insertions(+), 21 deletions(-)

diff --git a/doc/USER_MANUAL/manual_SPECFEM3D_GLOBE.pdf b/doc/USER_MANUAL/manual_SPECFEM3D_GLOBE.pdf
index 2d784ed..a2653a1 100644
Binary files a/doc/USER_MANUAL/manual_SPECFEM3D_GLOBE.pdf and b/doc/USER_MANUAL/manual_SPECFEM3D_GLOBE.pdf differ
diff --git a/doc/USER_MANUAL/manual_SPECFEM3D_GLOBE.tex b/doc/USER_MANUAL/manual_SPECFEM3D_GLOBE.tex
index b034447..ebc0240 100644
--- a/doc/USER_MANUAL/manual_SPECFEM3D_GLOBE.tex
+++ b/doc/USER_MANUAL/manual_SPECFEM3D_GLOBE.tex
@@ -143,8 +143,8 @@ Zhinan Xie,
 Hejun Zhu.\\
 
 The cover graphic of the manual was created
-by Santiago Lombeyda from Caltech's Center for Advanced Computing Research (CACR) \urlwithparentheses{www.cacr.caltech.edu}, with free satellite clipart pictures
-from \url{www.4vector.com} and \url{www.clker.com} added to it.\\
+by Santiago Lombeyda from Caltech's Center for Advanced Computing Research (CACR), USA, with free satellite clipart pictures
+from \texttt{www.4vector.com} and \texttt{www.clker.com} added to it.\\
 
 \section*{Current and past main participants or main sponsors}
 
@@ -230,8 +230,7 @@ parallel programming based upon the Message Passing Interface (MPI)
 \citep{GrLuSk94,Pac97}.\\
 
 SPECFEM3D\_GLOBE won the Gordon Bell award for best performance at the SuperComputing~2003
-conference in Phoenix, Arizona (USA) (see \cite{KoTsChTr03}
-and \url{www.sc-conference.org/sc2003/nr_finalaward.html}).
+conference in Phoenix, Arizona (USA) (see \cite{KoTsChTr03}).
 It was a finalist again in 2008 for a run at 0.16 petaflops (sustained) on 149,784 processors of the `Jaguar' Cray XT5 system at Oak Ridge National Laboratories (USA) \citep{CaKoLaTiMiLeSnTr08}.
 It also won the BULL Joseph Fourier supercomputing award in 2010.\\
 
@@ -703,7 +702,7 @@ attenuation model from Scripps.
 \item [{\texttt{1D\_ak135f\_no\_mud}}] Spherically symmetric isotropic AK135 model
 \citep{KeEnBu95} modified to use the density and Q attenuation models of \cite{MoKe95}.
 That modified model is traditionally called AK135-F,
-see \url{rses.anu.edu.au/seismology/ak135/ak135f.html} for more details.
+see \url{http://rses.anu.edu.au/seismology/ak135/ak135f.html} for more details.
 As we do not want to use the 300~m-thick mud layer from that model nor the ocean layer,
 above the d120 discontinuity we switch back to the classical AK135 model of \cite{KeEnBu95},
 i.e., we use AK135-F below and AK135 above.
@@ -839,7 +838,7 @@ time function for the movie simulations. When this parameter is set
 to be 0, a default half duration that corresponds to the accuracy
 of the simulation is provided.
 \item [{\texttt{SAVE\_MESH\_FILES}}] Set this flag to \texttt{.true}\texttt{\small .}
-to save AVS \urlwithparentheses{www.avs.com}, OpenDX \urlwithparentheses{www.opendx.org}, or ParaView \urlwithparentheses{www.paraview.org}
+to save AVS \urlwithparentheses{http://www.avs.com}, OpenDX \urlwithparentheses{http://www.opendx.org}, or ParaView \urlwithparentheses{http://www.paraview.org}
 mesh files for subsequent viewing. Turning the flag on generates large
 (distributed) files in the \texttt{LOCAL\_PATH} directory. See Section~\ref{sec:Meshes}
 for a discussion of mesh viewing features.
@@ -887,7 +886,7 @@ by setting the parameters \texttt{OUTPUT\_SEISMOS\_ASCII\_TEXT}, \texttt{OUTPUT\
 and \texttt{OUTPUT\_SEI-}~\\
 \texttt{SMOS\_SAC\_BINARY}. One can choose any combination of these
 parameters (details on the formats follow in the description of each
-parameter). SAC \urlwithparentheses{www.iris.edu/software/sac/} is a signal-processing software
+parameter). SAC \urlwithparentheses{http://www.iris.edu/software/sac/} is a signal-processing software
 package. If a run crashes, you may still find usable (but shorter
 than requested) seismograms in this directory. On a fast machine set
 \texttt{NTSTEP\_BETWEEN\_OUTPUT\_SEISMOS} to a relatively high value
@@ -904,12 +903,12 @@ information). Files will be named with extension \texttt{.ascii}, e.g., \texttt{
 if you want to have the synthetic seismograms written in alphanumeric
 (human readable) SAC format, which includes header information on
 the source and receiver parameters (e.g., source/receiver coordinates,
-station name, etc., see Appendix~\ref{cha:SAC-headers}). For details on the format, please check the SAC webpage \urlwithparentheses{www.iris.edu/software/sac/}. Files will be named with extension \texttt{.sacan}.
+station name, etc., see Appendix~\ref{cha:SAC-headers}). For details on the format, please check the SAC webpage \urlwithparentheses{http://www.iris.edu/software/sac/}. Files will be named with extension \texttt{.sacan}.
 \item [{\texttt{OUTPUT\_SEISMOS\_SAC\_BINARY}}] Set this flag to \texttt{.true.}
 if you want to have the synthetic seismograms written in binary SAC
 format. The header information included is the same as for the alphanumeric
 SAC format (see Appendix~\ref{cha:SAC-headers}). Using this format requires the least disk space, which may be particulary important if you have a large number of stations.
-For details on the binary format please also check the SAC webpage \urlwithparentheses{www.iris.edu/software/sac/} and Appendix~\ref{cha:SAC-headers}. Files will be named with extension \texttt{.sac}.
+For details on the binary format please also check the SAC webpage \urlwithparentheses{http://www.iris.edu/software/sac/} and Appendix~\ref{cha:SAC-headers}. Files will be named with extension \texttt{.sac}.
 \item [{\texttt{ROTATE\_SEISMOGRAMS\_RT}}] Set this flag to \texttt{.true.}
 if you want to have radial (R) and transverse (T) horizontal components
 of the synthetic seismograms (default is \texttt{.false.} $\rightarrow$
@@ -1341,7 +1340,7 @@ Any other change to the \texttt{Par\_file} implies rerunning both
 the mesher and the solver.
 
 For any particular earthquake, the \texttt{CMTSOLUTION} file that
-represents the point source may be obtained directly from the Harvard Centroid-Moment Tensor (CMT) web page \urlwithparentheses{www.globalcmt.org}.
+represents the point source may be obtained directly from the Harvard Centroid-Moment Tensor (CMT) web page \urlwithparentheses{http://www.globalcmt.org}.
 It looks like this:
 
 \begin{lyxcode}
@@ -1384,7 +1383,7 @@ the postprocessing script \texttt{process\_syn.pl} (see Section \ref{sub:process
 with the \texttt{-h} flag, or the serial code \texttt{convolve\_source\_timefunction.f90}
 and the script \texttt{UTILS/convolve\_source\_timefunction.csh} for
 this purpose, or alternatively use signal-processing software packages
-such as SAC \urlwithparentheses{www.iris.edu/software/sac/}. Type
+such as SAC \urlwithparentheses{http://www.iris.edu/software/sac/}. Type
 
 \begin{lyxcode}
 make~convolve\_source\_timefunction
@@ -2277,7 +2276,7 @@ Finally, note again that those examples show only one contribution of the ensemb
 
 Use the serial code \texttt{combine\_AVS\_DX.f90} (type `\texttt{make
 combine\_AVS\_DX}' and then `\texttt{xcombine\_AVS\_DX}') to generate
-AVS \urlwithparentheses{www.avs.com} output files (in AVS UCD format) or OpenDX \urlwithparentheses{www.opendx.org}
+AVS \urlwithparentheses{http://www.avs.com} output files (in AVS UCD format) or OpenDX \urlwithparentheses{http://www.opendx.org}
 output files showing the mesh, the MPI partition (slices), the $\nchunks$
 chunks, the source and receiver location, etc. Use the AVS UCD files
 \texttt{AVS\_continent\_boundaries.inp} and \texttt{AVS\_plate\_boundaries.inp}
@@ -2547,7 +2546,7 @@ mesh2vtu~-i~file.mesh~-o~file.vtu
 \end{lyxcode}
 \item Notice that this program \texttt{mesh2vtu}, in the
 \texttt{UTILS/Visualization/Paraview/mesh2vtu} directory, uses the
-VTK \urlwithparentheses{www.vtk.org} run-time library for its execution. Therefore,
+VTK \urlwithparentheses{http://www.vtk.org} run-time library for its execution. Therefore,
 make sure you have it properly installed.
 \end{enumerate}
 \item \textbf{Copy over the source and receiver .vtk file}
@@ -2561,7 +2560,7 @@ in the next step.
 \item \textbf{View the mesh in ParaView}
 
 
-Finally, we can view the mesh in ParaView \urlwithparentheses{www.paraview.org}.
+Finally, we can view the mesh in ParaView \urlwithparentheses{http://www.paraview.org}.
 
 \begin{enumerate}
 \item Open ParaView.
@@ -2587,7 +2586,7 @@ lower and upper limits, or change the color scheme.
 $\rightarrow$\textsf{ Open data}, select \texttt{sr.vt}k, and click
 the \textsf{Accept} button. Choose \textsf{Filter} $\rightarrow$\textsf{
 Glyph}, and represent the points by `\textsf{spheres}'.
-\item For more information about ParaView, see the ParaView Users Guide \urlwithparentheses{www.paraview.org/files/v1.6/ParaViewUsersGuide.PDF}.
+\item For more information about ParaView, see the ParaView Users Guide \urlwithparentheses{http://www.paraview.org/files/v1.6/ParaViewUsersGuide.PDF}.
 \end{enumerate}
 \end{enumerate}
 For illustration purposes, Figure \ref{fig:P-wave-speed-finite-frequency}
@@ -2725,7 +2724,7 @@ directories on these nodes (\texttt{\small /scratch/}~\\
 for temporary storage of the database files. The scratch directories
 are created using \texttt{shmux}, a shell multiplexor that can execute
 the same commands on many hosts in parallel. \texttt{shmux} is available
-from Shmux \urlwithparentheses{web.taranis.org/shmux/}. Make sure that the \texttt{LOCAL\_PATH}
+from Shmux \urlwithparentheses{http://web.taranis.org/shmux/}. Make sure that the \texttt{LOCAL\_PATH}
 parameter in \texttt{DATA/Par\_file} is also set properly.
 \item The next portion of the script launches the mesher and then the solver
 using \texttt{run\_lsf.bash}.
@@ -3280,7 +3279,7 @@ to \texttt{.true.} in the parameter file \texttt{DATA/Par\_file}.
 
 Note: You need to have the \texttt{sismoutil-0.9b} package installed
 on your computer if you want to run this script on binary SAC files.
-The software is available via the ORFEUS web site \urlwithparentheses{www.orfeus-eu.org}.
+The software is available via the ORFEUS web site \urlwithparentheses{http://www.orfeus-eu.org}.
 
 In case the simulation crashes during run-time without computing and
 writing all time steps, the SAC files (if flags \texttt{OUTPUT\_SEISMOS\_SAC\_ALPHANUM}
@@ -3334,9 +3333,9 @@ of Technology, Department of Mechanical Engineering (Cambridge, Massachusetts, U
 The non-structured global numbering software was provided by Paul
 F. Fischer (Brown University, Providence, Rhode Island, USA, now at Argonne National Laboratory, USA).
 
-OpenDX \urlwithparentheses{www.opendx.org} is open-source based on IBM Data Explorer,
-AVS \urlwithparentheses{www.avs.com} is a trademark of Advanced Visualization Systems,
-and ParaView \urlwithparentheses{www.paraview.org} is an open-source visualization
+OpenDX \urlwithparentheses{http://www.opendx.org} is open-source based on IBM Data Explorer,
+AVS \urlwithparentheses{http://www.avs.com} is a trademark of Advanced Visualization Systems,
+and ParaView \urlwithparentheses{http://www.paraview.org} is an open-source visualization
 platform.{\small{} }{\small \par}
 
 Please e-mail your feedback, questions, comments, and suggestions
@@ -3592,7 +3591,7 @@ IRIS involve geographic coordinates.
 
 \chapter{\label{cha:SAC-headers}SAC Headers}
 
-Information about the simulation (i.e., event/station information, sampling rate, etc.) is written in the header of the seismograms in SAC format. The list of values and related explanation are given in Figure \ref{fig:SAC-headers}. Please check the SAC webpages \urlwithparentheses{www.iris.edu/software/sac/} for further information. Please note that the reference time KZTIME is the centroid time ($t_\text{CMT}=t_\text{PDE}+\texttt{time shift}$) which corresponds to zero time in the synthetics. For kinematic rupture simulations, KZTIME is equal to the CMT time of the source having the minimum time-shift in the \texttt{CMTSOLUTION} file, and coordinates, depth and half-duration of the event are not provided in the headers.
+Information about the simulation (i.e., event/station information, sampling rate, etc.) is written in the header of the seismograms in SAC format. The list of values and related explanation are given in Figure \ref{fig:SAC-headers}. Please check the SAC webpages \urlwithparentheses{http://www.iris.edu/software/sac/} for further information. Please note that the reference time KZTIME is the centroid time ($t_\text{CMT}=t_\text{PDE}+\texttt{time shift}$) which corresponds to zero time in the synthetics. For kinematic rupture simulations, KZTIME is equal to the CMT time of the source having the minimum time-shift in the \texttt{CMTSOLUTION} file, and coordinates, depth and half-duration of the event are not provided in the headers.
 
 \begin{figure}[ht]
 \noindent \begin{centering}

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