application.h

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#pragma once
#include "interop/model/run_metrics.h"


enum exit_codes
{
    SUCCESS,
    INVALID_ARGUMENTS,
    BAD_FORMAT,
    UNEXPECTED_EXCEPTION,
    EMPTY_INTEROP,
    MISSING_RUNINFO_XML,
    MALFORMED_XML
};

inline int read_run_metrics(const char* filename,
                            illumina::interop::model::metrics::run_metrics& metrics,
                            const size_t thread_count,
                            const bool check_empty=true)
{
    using namespace illumina::interop;
    using namespace illumina::interop::model;
    try
    {
        metrics.read(filename, thread_count);
    }
    catch(const xml::xml_file_not_found_exception& ex)
    {
        std::cerr << ex.what() << std::endl;
        return MISSING_RUNINFO_XML;
    }
    catch(const xml::xml_parse_exception& ex)
    {
        std::cerr << ex.what() << std::endl;
        return MALFORMED_XML;
    }
    catch(const io::bad_format_exception& ex)
    {
        std::cerr << ex.what() << std::endl;
        return BAD_FORMAT;
    }
    catch(const model::invalid_run_info_cycle_exception& ex)
    {
        std::cerr << ex.what() << std::endl;
    }
    catch(const std::exception& ex)
    {
        std::cerr << ex.what() << std::endl;
        return UNEXPECTED_EXCEPTION;
    }
    if(check_empty && metrics.empty())
    {
        std::cerr << "No InterOp files found" << std::endl;
        return EMPTY_INTEROP;
    }
    return SUCCESS;
}
inline int read_run_metrics(const char* filename,
                            illumina::interop::model::metrics::run_metrics& metrics,
                            const std::vector<unsigned char>& valid_to_load,
                            const size_t thread_count,
                            const bool check_empty=true)
{
// @ [Reading a subset of run metrics in C++]
    using namespace illumina::interop;
    using namespace illumina::interop::model;
    try
    {
        metrics.clear();
        metrics.read(filename, valid_to_load, thread_count);
    }
    catch(const xml::xml_file_not_found_exception& ex)
    {
        std::cerr << ex.what() << std::endl;
        return MISSING_RUNINFO_XML;
    }
    catch(const xml::xml_parse_exception& ex)
    {
        std::cerr << ex.what() << std::endl;
        return MALFORMED_XML;
    }
    catch(const io::bad_format_exception& ex)
    {
        std::cerr << ex.what() << std::endl;
        return BAD_FORMAT;
    }
    catch(const model::invalid_run_info_cycle_exception& ex)
    {
        std::cerr << ex.what() << std::endl;
    }
    catch(const std::exception& ex)
    {
        std::cerr << ex.what() << std::endl;
        return UNEXPECTED_EXCEPTION;
    }
    if(check_empty && metrics.empty())
    {
        std::cerr << "No InterOp files found" << std::endl;
        return EMPTY_INTEROP;
    }
// @ [Reading a subset of run metrics in C++]
    return SUCCESS;
}