NekMesh.cpp File Reference

#include <LibUtilities/BasicConst/GitRevision.h>
#include <LibUtilities/BasicUtils/Timer.h>
#include <boost/algorithm/string.hpp>
#include <boost/asio/ip/host_name.hpp>
#include <boost/format.hpp>
#include <boost/program_options.hpp>
#include <string>
#include <NekMesh/Module/Module.h>

Go to the source code of this file.

Functions
int	main (int argc, char *argv[])

Function Documentation

main()

int main	(	int	argc,
		char *	argv[]
	)

Definition at line 51 of file NekMesh.cpp.

{
    po::options_description desc("Available options");
    po::options_description dep("Deprecated options");
 
    // clang-format off
    desc.add_options()
        ("help,h",         "Produce this help message.")
        ("force-output,f", "Force the output to be written without any checks")
        ("modules-list,l", "Print the list of available modules.")
        ("modules-opt,p",  po::value<string>(),
             "Print options for a module.")
        ("module,m",       po::value<vector<string> >(),
             "Specify modules which are to be used.")
        ("verbose,v",      "Enable verbose output.");
    // clang-format on
 
    po::options_description hidden("Hidden options");
 
    // clang-format off
    hidden.add_options()
        ("input-file",   po::value<vector<string> >(), "Input filename");
    // clang-format on
 
    // Deprecated options: introduced in 5.4.0 to homogenise command-line
    // options to use '-' instead of camelCase or no spaces.
    std::map<std::string, std::string> deprecated = {
        {"forceoutput", "force-output"}};
 
    for (auto &d : deprecated)
    {
        std::string description = "Deprecated: use --" + d.second;
        dep.add_options()(d.first.c_str(), description.c_str());
    }
 
    po::options_description cmdline_options;
    cmdline_options.add(hidden).add(desc).add(dep);
 
    po::positional_options_description p;
    p.add("input-file", -1);
 
    po::variables_map vm;
 
    try
    {
        po::store(po::command_line_parser(argc, argv)
                      .options(cmdline_options)
                      .positional(p)
                      .run(),
                  vm);
        po::notify(vm);
    }
    catch (const std::exception &e)
    {
        cerr << e.what() << endl;
        cerr << desc;
        return 1;
    }
 
    // If NEKTAR_DISABLE_BACKUPS environment variable is set, enable the
    // force-output option.
    if (std::getenv("NEKTAR_DISABLE_BACKUPS") != nullptr)
    {
        vm.insert(std::make_pair("force-output", po::variable_value()));
    }
 
    // Create a logger.
    auto logOutput = std::make_shared<StreamOutput>(std::cout);
    Logger log(logOutput, vm.count("verbose") ? VERBOSE : INFO);
 
    // Deal with deprecated options.
    for (auto &d : deprecated)
    {
        if (vm.count(d.first))
        {
            log(WARNING) << "--" << d.first << " deprecated: use --" << d.second
                         << std::endl;
            vm.emplace(d.second, po::variable_value(vm[d.first]));
        }
    }
 
    // Print available modules.
    if (vm.count("modules-list"))
    {
        GetModuleFactory().PrintAvailableClasses(std::cerr);
        return 1;
    }
 
    if (vm.count("modules-opt"))
    {
        vector<string> tmp1;
        boost::split(tmp1, vm["modules-opt"].as<string>(),
                     boost::is_any_of(":"));
 
        if (tmp1.size() != 2)
        {
            cerr << "ERROR: To specify a module, use one of in, out or proc "
                 << "together with the filename; for example in:vtk." << endl;
            return 1;
        }
 
        if (tmp1[0] != "in" && tmp1[0] != "out" && tmp1[0] != "proc")
        {
            cerr << "ERROR: Invalid module type (in, out, or proc): " << tmp1[0]
                 << endl;
            return 1;
        }
 
        ModuleType t = eInputModule;
 
        if (tmp1[0] == "in")
        {
            t = eInputModule;
        }
        else if (tmp1[0] == "out")
        {
            t = eOutputModule;
        }
        else if (tmp1[0] == "proc")
        {
            t = eProcessModule;
        }
 
        MeshSharedPtr m = std::shared_ptr<Mesh>(new Mesh());
        ModuleSharedPtr mod =
            GetModuleFactory().CreateInstance(ModuleKey(t, tmp1[1]), m);
        cerr << "Options for module " << tmp1[1] << ":" << endl;
        mod->SetLogger(log);
        mod->PrintConfig();
        return 1;
    }
 
    if (vm.count("help") || vm.count("input-file") != 1)
    {
        cerr << "Usage: NekMesh [options] inputfile.ext1 outputfile.ext2"
             << endl;
        cout << desc;
        return 1;
    }
 
    vector<string> inout = vm["input-file"].as<vector<string>>();
 
    if (inout.size() != 2)
    {
        cerr << "ERROR: You must specify an input and output file." << endl;
        return 1;
    }
 
    /*
     * Process list of modules. Each element of the vector of module strings can
     * be in the following form:
     *
     * modname:arg1=a:arg2=b:arg3=c:arg4:arg5=asd
     *
     * where the only required argument is 'modname', specifing the name of the
     * module to load.
     */
 
    MeshSharedPtr mesh = std::shared_ptr<Mesh>(new Mesh());
 
    // Add provenance information to mesh.
    stringstream ss;
    for (int i = 1; i < argc; i++)
    {
        ss << argv[i] << " ";
    }
    mesh->m_metadata["NekMeshCommandLine"] = ss.str();
 
    vector<ModuleSharedPtr> modules;
    vector<string> modcmds;
 
    if (vm.count("module"))
    {
        modcmds = vm["module"].as<vector<string>>();
    }
 
    bool forceOutput = vm.count("force-output");
 
    // Add input and output modules to beginning and end of this vector.
    modcmds.insert(modcmds.begin(), inout[0]);
    modcmds.push_back(inout[1]);
 
    // Keep track of maximum string length for nicer verbose output.
    size_t maxModName = 0;
 
    for (int i = 0; i < modcmds.size(); ++i)
    {
        // First split each command by the colon separator.
        vector<string> tmp1;
        ModuleKey module;
        int offset = 1;
 
        boost::split(tmp1, modcmds[i], boost::is_any_of(":"));
 
        if (i == 0 || i == modcmds.size() - 1)
        {
            module.first = (i == 0 ? eInputModule : eOutputModule);
 
            // If no colon detected, automatically detect mesh type from
            // file extension. Otherwise override and use tmp1[1] as the
            // module to load. This also allows us to pass options to
            // input/output modules. So, for example, to override
            // filename.xml to be read as vtk, you use:
            //
            // filename.xml:vtk:opt1=arg1:opt2=arg2
            if (tmp1.size() == 1)
            {
                int dot    = tmp1[0].find_last_of('.') + 1;
                string ext = tmp1[0].substr(dot, tmp1[0].length() - dot);
 
                if (ext == "gz")
                {
                    string tmp = tmp1[0].substr(0, tmp1[0].length() - 3);
                    dot        = tmp.find_last_of('.') + 1;
                    ext        = tmp.substr(dot, tmp.length() - dot);
                }
 
                module.second = ext;
                tmp1.push_back(string(i == 0 ? "infile=" : "outfile=") +
                               tmp1[0]);
            }
            else
            {
                module.second = tmp1[1];
                tmp1.push_back(string(i == 0 ? "infile=" : "outfile=") +
                               tmp1[0]);
                offset++;
            }
        }
        else
        {
            module.first  = eProcessModule;
            module.second = tmp1[0];
        }
 
        // Create module.
        ModuleSharedPtr mod = GetModuleFactory().CreateInstance(module, mesh);
        mod->SetLogger(log);
        modules.push_back(mod);
 
        // Set options for this module.
        for (int j = offset; j < tmp1.size(); ++j)
        {
            vector<string> tmp2;
            boost::split(tmp2, tmp1[j], boost::is_any_of("="));
 
            if (tmp2.size() == 1)
            {
                mod->RegisterConfig(tmp2[0]);
            }
            else if (tmp2.size() == 2)
            {
                mod->RegisterConfig(tmp2[0], tmp2[1]);
            }
            else
            {
                cerr << "ERROR: Invalid module configuration: format is "
                     << "either :arg or :arg=val" << endl;
                return 1;
            }
        }
 
        if (i == modcmds.size() - 1 && forceOutput)
        {
            mod->RegisterConfig("forceoutput", "true");
        }
 
        // Ensure configuration options have been set.
        mod->SetDefaults();
 
        // Track maximum module name length.
        std::string modName = mod->GetModuleName();
        maxModName          = std::max(maxModName, modName.length());
    }
 
    log.SetPrefixLen(maxModName);
 
    // Run mesh process.
    for (int i = 0; i < modules.size(); ++i)
    {
        Nektar::LibUtilities::Timer t;
        t.Start();
        try
        {
            modules[i]->GetLogger().SetPrefixLen(maxModName);
            modules[i]->Process();
        }
        catch (NekMeshError &e)
        {
            return 1;
        }
        t.Stop();
 
        log.SetPrefix(modules[i]->GetModuleName());
        log(VERBOSE) << "  - Elapsed time: " << t.TimePerTest(1) << "s."
                     << std::endl;
    }
 
    return 0;
}

References Nektar::LibUtilities::NekFactory< tKey, tBase, tParam >::CreateInstance(), Nektar::UnitTests::d(), CellMLToNektar.pycml::description(), Nektar::FieldUtils::eInputModule, Nektar::FieldUtils::eOutputModule, Nektar::FieldUtils::eProcessModule, Nektar::FieldUtils::GetModuleFactory(), tinysimd::log(), CG_Iterations::Mesh, CellMLToNektar.cellml_metadata::p, Nektar::LibUtilities::NekFactory< tKey, tBase, tParam >::PrintAvailableClasses(), CellMLToNektar.translators::run(), Nektar::LibUtilities::Timer::Start(), Nektar::LibUtilities::Timer::Stop(), and Nektar::LibUtilities::Timer::TimePerTest().