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/// This file is part of Rheolef.
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/// Copyright (C) 2000-2009 Pierre Saramito <Pierre.Saramito@imag.fr>
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/// Rheolef is free software; you can redistribute it and/or modify
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/// it under the terms of the GNU General Public License as published by
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/// the Free Software Foundation; either version 2 of the License, or
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/// (at your option) any later version.
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/// Rheolef is distributed in the hope that it will be useful,
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/// but WITHOUT ANY WARRANTY; without even the implied warranty of
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/// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
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/// GNU General Public License for more details.
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/// You should have received a copy of the GNU General Public License
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/// along with Rheolef; if not, write to the Free Software
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/// Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
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/// =========================================================================
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// TODO: filter options
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// -select u <==> -mask-all -unmask u
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// -norm {-l2|-linf|-h1}
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// -> normes in direct via gnuplot via branch (geo with dim=0)
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// Q. how to combine and synchronize images u(t) and |u(t)| ?
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// -> field n(t,x), mesh with dim=0, one point p0, value n(t,p0) = |u(t)|
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// sqrt(|u^{n+1}-u^n|/(t^{n+1}-t^n)) : mesure a(u,u), l'energie (norme l2 pour u)
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// -height : with -topography, interprets scalar as height
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// -yield value : mask all scalars lesser than
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// transparency : of the height
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// edit color map for height : can put uniform color
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NAME: @code{branch} -- handle a family of fields
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@cindex continuation methods
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@cindex time-dependent problems
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@cindex RHEOPATH environment variable
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@fiindex @file{.branch} family of fields
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branch [@var{options}] @var{filename}
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Generates vtk file colection for visualization with paraview:
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branch output.branch -paraview
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Read and output a branch of finite element fields from file,
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in field text file format.
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INPUT FILE SPECIFICATION:
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add @var{dir} to the RHEOPATH search path.
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See also @ref{geo class} for RHEOPATH mechanism.
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specifies the name of the file containing
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read field on standard input instead on a file.
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@itemx -ndigit @var{int}
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Number of digits used to print floating point values
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when using the @samp{-geo} option.
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Default depends upon the machine precision associated to the
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OUTPUT AND RENDER SPECIFICATION:
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@itemx -extract @var{int}
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Extract the i-th record in the file. The output
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is a field or multi-field file format.
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Output on stdout in @file{.branch} format.
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Generate a collection of @code{vtk} files
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for using @code{paraview}.
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Generate a single @code{vtk} file
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with numbered fields.
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Run 1d animation using @code{gnuplot}.
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This driver is unsupported for animations.
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@itemx -umin @var{float}
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@itemx -umax @var{float}
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set the solution range for the @code{gnuplot} driver.
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By default this range is computed from the first field
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of the branch, and this could be problematic when this
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field is initialy zero.
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@itemx -topography @var{filename}[.field[.gz]]
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performs a tridimensionnal elevation view based
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on the topographic data.
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performs a @code{P1} projection on the fly.
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This option is useful when rendering @code{P0} data
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while @code{vtk} render requieres @code{P1} description.
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For two dimensional field, represent values as elevation in the third dimension.
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Prevent from the elevation representation.
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@itemx -scale @var{float}
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applies a multiplicative factor to the field.
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This is useful e.g. in conjonction with the @code{elevation} option.
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The default value is 1.
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print messages related to graphic files created and
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command system calls (this is the default).
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does not print previous messages.
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clear temporary graphic files (this is the default).
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does not clear temporary graphic files.
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execute graphic command (this is the default).
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does not execute graphic command. Generates only
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graphic files. This is usefull in conjuction with the
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@code{-noclean} command.
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@fiindex @file{.field} field
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The @file{.branch} file format bases on the @file{.field} one:
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1 1 11 <version> <nfield=1> <nvalue=N>
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time u <key> <field name>
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#time 3.14 #<key> <key value 1>
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#time 6.28 #<key> <key value N>
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The key name is here @code{time}, but could be any string (without spaces).
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The previous example contains one @code{field} at each time step.
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Labels appears all along the file to facilitate direct jumps and field and step skips.
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The format supports several fields, such as (t,u(t),p(t)), where u could
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be a multi-component (e.g. a vector) field:
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// -------------------------------------------------------------
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// -------------------------------------------------------------
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#include <rheolef/iofem.h>
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using namespace rheolef;
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cerr << "branch: usage: branch"
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<< " [-[no]elevation]"
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<< " [-topography filename]"
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<< " [-paraview|-vtk|-gnuplot|-plotmtv]"
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<< " [-[no]verbose|-[no]clean|-[no]execute]"
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typedef field::size_type size_type;
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extract (idiststream& in, odiststream& out, bool do_proj, size_type extract_id,const Float& scale_value)
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branch_basic<Float,sequential> event;
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in >> event.header();
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out << event.header();
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in >> catchmark (event.parameter_name());
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} while (i <= extract_id);
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event.set_parameter (t);
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for (size_t i = 0; in && i < event.size(); i++) {
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in >> catchmark (event[i].first) >> event[i].second;
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field_basic<Float,sequential> u = event[0].second;
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fatal_macro ("-proj: not yet -- sorry");
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space_basic<Float,sequential> V = u.get_space();
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space_basic<Float,sequential> V1 (u.get_geo(), "P1");
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field_basic<Float,sequential> one (V1, 1);
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form_basic<Float,sequential> proj (V, V1, "mass");
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form_diag_basic<Float,sequential> m (V1, "mass");
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field_basic<Float,sequential> u1(V1);
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u1.u = (1./m.uu)*(proj.uu*u.u);
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if (scale_value != Float(1)) {
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out << event.finalize();
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size_type extract_id,
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const Float& scale_value,
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const std::pair<Float,Float>& u_range)
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if (extract_id != numeric_limits<size_type>::max()) {
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extract (in, out, do_proj, extract_id, scale_value);
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field_basic<Float,sequential> u;
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branch_basic<Float,sequential> event;
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event.set_range (u_range);
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in >> event.header();
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out << event.header();
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while (in >> event) {
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for (size_t i = 0; i < event.size(); i++) {
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fatal_macro ("-proj: not yet -- sorry");
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space_basic<Float,sequential> V = u.get_space();
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size_t n_comp = u.n_component();
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space_basic<Float,sequential> V_new_i (u.get_geo(), "P1");
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space_basic<Float,sequential> V_new = pow(V_new_i, n_comp);
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field_basic<Float,sequential> u_new(V_new);
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field_basic<Float,sequential> one (V_new_i, 1);
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for (size_t i = 0; i < n_comp; i++) {
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space_basic<Float,sequential> Vi = V[i];
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form_basic<Float,sequential> proj (Vi, V_new_i, "mass");
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form_diag_basic<Float,sequential> m (V_new_i, "mass");
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field_basic<Float,sequential> u_new_i(V_new_i);
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u_new_i.u = (1./m.uu)*(proj.uu*u[i].u);
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if (scale_value != Float(1)) {
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out << event.finalize();
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int main(int argc, char**argv)
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environment distributed(argc, argv);
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if (argc <= 1) usage();
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dout.os() << elevation;
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bool on_stdin = false;
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bool do_proj = false;
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int digits10 = numeric_limits<Float>::digits10;
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typedef enum { text_render, paraview_render, vtk_render, plotmtv_render, gnuplot_render } render_type;
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render_type render = text_render;
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size_type extract_id = numeric_limits<size_type>::max();
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Float scale_value = 1;
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std::pair<Float,Float> u_range;
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u_range.first = std::numeric_limits<Float>::min();
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u_range.second = std::numeric_limits<Float>::max();
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for (int i = 1; i < argc; i++) {
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if (strcmp (argv[i], "-ndigit") == 0) { digits10 = atoi(argv[++i]); }
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else if (strcmp (argv[i], "-extract") == 0) { extract_id = atoi(argv[++i]); }
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else if (strcmp (argv[i], "-branch") == 0) { render = text_render; }
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else if (strcmp (argv[i], "-paraview") == 0) { render = paraview_render; dout.os() << paraview; }
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else if (strcmp (argv[i], "-vtk") == 0) { render = vtk_render; dout.os() << vtk; }
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else if (strcmp (argv[i], "-plotmtv") == 0) { render = plotmtv_render; dout.os() << plotmtv; }
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else if (strcmp (argv[i], "-gnuplot") == 0) { render = gnuplot_render; dout.os() << gnuplot; }
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else if (strcmp (argv[i], "-proj") == 0) { do_proj = true; }
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else if (strcmp (argv[i], "-elevation") == 0) { dout.os() << elevation; }
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else if (strcmp (argv[i], "-noelevation") == 0) { dout.os() << noelevation; }
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else if (strcmp (argv[i], "-umin") == 0) {
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if (i+1 == argc || !is_float(argv[i+1])) usage();
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u_range.first = to_float (argv[++i]);
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} else if (strcmp (argv[i], "-umax") == 0) {
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if (i+1 == argc || !is_float(argv[i+1])) usage();
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u_range.second = to_float (argv[++i]);
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} else if (strcmp (argv[i], "-scale") == 0) {
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if (i+1 == argc || !is_float(argv[i+1])) usage();
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scale_value = to_float (argv[++i]);
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} else if (strcmp (argv[i], "-topography") == 0) {
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if (i+1 == argc) usage();
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idiststream zin (argv[++i]);
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field_basic<Float,sequential> z;
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dout.os() << settopography(z);
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else if (strcmp (argv[i], "-noclean") == 0) clog << noclean;
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else if (strcmp (argv[i], "-clean") == 0) clog << clean;
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else if (strcmp (argv[i], "-noexecute") == 0) clog << noexecute;
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else if (strcmp (argv[i], "-execute") == 0) clog << execute;
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else if (strcmp (argv[i], "-verbose") == 0) clog << verbose;
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else if (strcmp (argv[i], "-noverbose") == 0) clog << noverbose;
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else if (argv [i][0] == '-' && argv [i][1] == 'I') {
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append_dir_to_rheo_path (argv[i]+2);
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else if (strcmp (argv [i], "-") == 0) {
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dout.os() << setbasename("output") << reader_on_stdin;
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file_name = "output";
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string dir_name = get_dirname(argv[i]);
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prepend_dir_to_rheo_path (dir_name);
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file_name = get_basename(delete_suffix (delete_suffix (argv[i], "gz"), "branch"));
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if (!on_stdin && file_name == "") {
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cerr << "branch: no input specified" << endl;
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dout.os() << setbasename(file_name)
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<< setprecision(digits10);
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put(din,dout, do_proj, extract_id, scale_value, u_range);
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idiststream in (file_name, "branch");
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check_macro(in.good(), "\"" << file_name << "[.branch[.gz]]\" not found.");
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put(in, dout, do_proj, extract_id, scale_value, u_range);
added
removed
nfem/pbin/branch.cc
