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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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NAME: @code{geo} - plot a finite element mesh
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@cindex mesh graphic representation
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geo @var{options} @var{mesh}[.geo[.gz]]
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Plot or upgrade a finite element mesh.
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Plot a mesh into a file:
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geo square.geo -image-format png
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Convert from a old geo file format to the new one:
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geo -upgrade - < square-old.geo > square.geo
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See below for the geo file format scpecification.
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The old file format does not contains edges and faces connectivity in 3d geometries,
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or edges connectivity in 2d geometries.
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The converter add it automatically into the upgraded file format.
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Conversely, the old file format is usefull when combined with a
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translator from another file format that do not provides edges and faces connectivity.
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INPUT FILE SPECIFICATION:
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specifies the name of the file containing
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The ".geo" suffix extension is assumed.
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read mesh on standard input instead on a file.
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when mesh comes from standard input, the mesh name
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is not known and is set to "output" by default.
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This option allows to change this default.
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Useful when dealing with output formats (graphic, format conversion)
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that creates auxilliary files, based on this name.
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@cindex RHEOPATH environment variable
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Add @var{dir} to the rheolef file search path.
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This mechanism initializes a search path given by the environment variable @samp{RHEOPATH}.
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If the environment variable @samp{RHEOPATH} is not set, the default value is the current directory.
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Check that element orientation is positive.
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@fiindex @file{.bamg} mesh file
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@fiindex @file{.vtk} mesh file
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@itemx -if @var{format}
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@itemx -input-format @var{format}
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load mesh in @var{format} file format,
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instead of plotting it.
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Supported output formats are: @code{geo}, @code{bamg}, @code{vtk}.
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When loading from a file, the corresponding suffix extension is assumed.
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@cindex graphic render
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@toindex @code{gnuplot}
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@toindex @code{mayavi}
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use @code{mayavi} tool.
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When using a high order geometry, the lattice inside any element appears.
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@itemx -subdivide int
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When using a high order geometry, the number of points per edge used to draw
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a curved element. Default value is the mesh order.
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All internal edges appears, for 3d meshes.
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Fill mesh faces using light effects, when available.
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@cindex @code{stereo 3D rendering}
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Rendering mode suitable for red-blue anaglyph 3D stereoscopic glasses.
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Option only available with @code{mayavi}.
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cut by plane and clip (with @code{mayavi} only).
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OUTPUT FILE FORMAT OPTIONS:
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output mesh on standard output stream in geo text file format,
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instead of plotting it.
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Convert from a old geo file format to the new one.
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@fiindex @file{.gmsh} mesh file
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output mesh on standard output stream in gmsh text file format,
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instead of plotting it.
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@cindex graphic render
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@cindex image file format
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@cindex graphic render
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@fiindex @file{.png} image
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@fiindex @file{.gif} image
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@fiindex @file{.jpg} image
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@fiindex @file{.ps} image
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@fiindex @file{.pdf} image
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@itemx -image-format @code{string}
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The argument is any valid image format, such as
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bitmap @code{png}, @code{jpg}, @code{gif} or vectorial @code{ps} or @code{pdf}
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image file formats, and that could be handled by the corresponding render.
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The output file is e.g. @file{@emph{basename}.png} when @emph{basename}
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is the name of the mesh, or can be set with the @code{-name} option.
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check for a domain named "boundary"; If this domain
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does not exists, extract the boundary of the geometry
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and append it to the domain list.
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This command is usefull for mesh converted from
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generators, as @code{bamg}, that cannot have more than
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one domain specification per boundary edge.
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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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used for debug purpose.
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AUTHOR: Pierre.Saramito@imag.fr
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DATE: 16 september 2011
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# include "rheolef/geo.h"
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# include "rheolef/iorheo.h"
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# include "rheolef/iofem.h"
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# include "rheolef/rheostream.h"
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using namespace rheolef;
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cerr << "geo: usage:" << endl
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<< "{-|file[.geo[.gz]]}"
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<< "[-if {geo,bamg,vtk}] "
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<< "[-geo|-gmsh|-gnuplot|-mayavi] "
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<< "[-[no]full|-[no]fill|-[no]lattice] "
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<< "[-subdivide int] "
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<< "[-[no]stereo|-[no]full|-[no]cut] "
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<< "[-image-format string] "
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<< "[-add-boundary] "
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<< "[-[no]clean] [-[no]execute] [-[no]verbose] "
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void set_input_format (idiststream& in, std::string input_format)
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if (input_format == "bamg") in.is() >> bamg;
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else if (input_format == "vtk") in.is() >> vtk;
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else if (input_format == "geo") in.is() >> rheo;
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cerr << "geo: invalid input format \""<<input_format<<"\"" << endl;
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void add_boundary (const geo_basic<T,sequential>& omega)
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typedef typename geo_basic<T,sequential>::size_type size_type;
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typedef pair<size_type,size_type> pair_t;
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typedef heap_allocator<size_type> alloc_t;
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typedef geo_element_auto<alloc_t> element_t;
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typedef array<element_t, sequential, alloc_t> e_array_t;
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if (omega.have_domain_indirect ("boundary")) return;
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size_type map_dim = omega.map_dimension();
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if (map_dim == 0) return;
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vector<index_set> ball[4];
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// 1) vertice-to-element map:
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ball[map_dim].resize (omega.n_vertex());
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for (size_type ie = 0, ne = omega.size(map_dim); ie < ne; ie++) {
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const geo_element& K = omega.get_geo_element (map_dim, ie);
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for (size_type iloc = 0, nloc = K.size(); iloc < nloc; iloc++) {
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ball [map_dim][K[iloc]].insert(ie);
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// 2) scan sides, count adjacency and list bdry side indexes
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size_type sub_map_dim = map_dim-1;
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std::list<size_type, alloc_t> iside;
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for (size_type is = 0, ns = omega.size(sub_map_dim); is < ns; is++) {
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const geo_element& S = omega.get_geo_element (sub_map_dim, is);
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index_set adj = ball [map_dim][S[0]];
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for (size_type iloc = 1, nloc = S.size(); iloc < nloc; iloc++) {
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adj.inplace_intersection (ball [map_dim][S[iloc]]);
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if (adj.size() != 1) continue;
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// here S is a boundary side:
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iside.push_back (is);
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// 3) copy sides to a bdry array
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element_t dummy_elt (reference_element::p, 0, alloc);
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e_array_t bdry_tmp (iside.size(), dummy_elt, alloc);
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for (typename std::list<size_type, alloc_t>::const_iterator iter = iside.begin(), last = iside.end();
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iter != last; ++iter, ++ibdr) {
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size_type is = *iter;
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bdry_tmp [ibdr] = omega.get_geo_element (sub_map_dim, is);
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// 4) insert the bdry array into the mesh
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domain_indirect_basic<sequential> bdry (bdry_tmp, omega, ball);
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bdry.set_name ("boundary");
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omega.insert_domain_indirect (bdry);
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int main(int argc, char**argv) {
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environment distributed(argc, argv);
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check_macro (communicator().size() == 1, "geo: command may be used as mono-process only");
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// ----------------------------
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// ----------------------------
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bool do_upgrade = false ;
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bool do_check = false ;
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bool do_add_bdry = false ;
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string name = "output";
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dout.os() << verbose; bool bverbose = true;
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render_type render = no_render;
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geo_basic<Float,sequential> omega;
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dout.os() << lattice;
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dout.os() << setorigin (point(0,0,0));
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dout.os() << setnormal (point(1,0,0));
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string input_format = "geo";
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// ----------------------------
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// scan the command line
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// ----------------------------
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for (int i = 1; i < argc; i++) {
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if (strcmp (argv[i], "-clean") == 0) dout.os() << clean;
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else if (strcmp (argv[i], "-noclean") == 0) dout.os() << noclean;
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else if (strcmp (argv[i], "-execute") == 0) dout.os() << execute;
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else if (strcmp (argv[i], "-noexecute") == 0) dout.os() << noexecute;
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else if (strcmp (argv[i], "-verbose") == 0) { bverbose = true; dout.os() << verbose; }
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else if (strcmp (argv[i], "-noverbose") == 0) { bverbose = false; dout.os() << noverbose; }
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else if (strcmp (argv[i], "-add-boundary") == 0) { do_add_bdry = true; }
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else if (strcmp (argv[i], "-I") == 0) {
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if (i == argc-1) { cerr << "geo -I: option argument missing" << endl; usage(); }
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append_dir_to_rheo_path (argv[++i]);
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else if (argv [i][0] == '-' && argv [i][1] == 'I') { append_dir_to_rheo_path (argv[i]+2); }
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// output file option:
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else if (strcmp (argv[i], "-geo") == 0) { dout.os() << rheo; render = file_render; }
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else if (strcmp (argv[i], "-gmsh") == 0) { dout.os() << gmsh; render = gmsh_render; }
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else if (strcmp (argv[i], "-gnuplot") == 0) { dout.os() << gnuplot; render = gnuplot_render; }
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else if (strcmp (argv[i], "-mayavi") == 0) { dout.os() << mayavi; render = mayavi_render; }
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else if (strcmp (argv[i], "-full") == 0) { dout.os() << full; }
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else if (strcmp (argv[i], "-nofull") == 0) { dout.os() << nofull; }
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else if (strcmp (argv[i], "-fill") == 0) { dout.os() << fill; }
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else if (strcmp (argv[i], "-nofill") == 0) { dout.os() << nofill; }
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else if (strcmp (argv[i], "-stereo") == 0) { dout.os() << stereo << mayavi; render = mayavi_render; }
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else if (strcmp (argv[i], "-nostereo") == 0) { dout.os() << nostereo; }
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else if (strcmp (argv[i], "-cut") == 0) { dout.os() << cut; }
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else if (strcmp (argv[i], "-nocut") == 0) { dout.os() << nocut; }
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else if (strcmp (argv[i], "-lattice") == 0) { dout.os() << lattice; }
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else if (strcmp (argv[i], "-nolattice") == 0) { dout.os() << nolattice; }
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else if (strcmp (argv[i], "-subdivide") == 0) {
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if (i == argc-1) { cerr << "geo -subdivide: option argument missing" << endl; usage(); }
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size_t nsub = atoi(argv[++i]);
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dout.os() << setsubdivide (nsub);
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else if (strcmp (argv[i], "-image-format") == 0) {
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if (i == argc-1) { cerr << "geo -image-format: option argument missing" << endl; usage(); }
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string format = argv[++i];
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if (format == "jpeg") format = "jpg";
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if (format == "postscript") format = "ps";
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dout.os() << setimage_format(format);
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else if (strcmp (argv[i], "-upgrade") == 0) { do_upgrade = true; dout.os() << rheo; render = file_render; }
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else if (strcmp (argv[i], "-check") == 0) { do_check = true; }
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else if (strcmp (argv[i], "-name") == 0) {
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if (i == argc-1) { cerr << "geo -name: option argument missing" << endl; usage(); }
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else if (strcmp (argv[i], "-if") == 0 ||
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strcmp (argv[i], "-input-format") == 0) {
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if (i == argc-1) { cerr << "geo "<<argv[i]<<": option argument missing" << endl; usage(); }
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input_format = argv[++i];
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else if (strcmp (argv[i], "-") == 0) {
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filename = "-"; // geo on stdin
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else if (argv[i][0] != '-') {
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filename = argv[i]; // input on file
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// ----------------------------
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// ----------------------------
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if (filename == "") {
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cerr << "geo: no input file specified" << endl;
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} else if (filename == "-") {
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if (do_upgrade) cin >> upgrade;
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if (name != "output") thename = name;
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cin >> setbasename(thename);
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set_input_format (din, input_format);
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dout.os() << setbasename(name) << reader_on_stdin;
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string suffix = input_format;
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if (name == "output") {
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name = get_basename(delete_suffix (delete_suffix (filename, "gz"), suffix));
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ips.open (filename, suffix);
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check_macro(ips.good(), "\"" << filename << "[."<<suffix<<"[.gz]]\" not found.");
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if (do_upgrade) ips.is() >> upgrade;
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std::string root_name = delete_suffix (delete_suffix(filename, "gz"), suffix);
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std::string name = get_basename (root_name);
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ips.is() >> setbasename(name);
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set_input_format (ips, input_format);
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dout.os() << setbasename(name);
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add_boundary (omega);
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check_macro (omega.check(bverbose), "geo check failed");
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if (render == no_render) { dout.os() << gnuplot; }
added
removed
nfem/pbin/geo.cc
