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< a href = "network__file_8cpp.html" > Go to the documentation of this file.< / a > < div class = "fragment" > < div class = "line" > < a id = "l00001" name = "l00001" > < / a > < span class = "lineno" > 1< / span > < span class = "preprocessor" > #include " < a class = "code" href = "network__file_8h.html" > gridfire/io/network_file.h< / a > " < / span > < / div >
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< div class = "line" > < a id = "l00004" name = "l00004" > < / a > < span class = "lineno" > 4< / span > < span class = "preprocessor" > #include < vector> < / span > < / div >
< div class = "line" > < a id = "l00005" name = "l00005" > < / a > < span class = "lineno" > 5< / span > < span class = "preprocessor" > #include < algorithm> < / span > < / div >
< div class = "line" > < a id = "l00006" name = "l00006" > < / a > < span class = "lineno" > 6< / span > < span class = "preprocessor" > #include < fstream> < / span > < / div >
< div class = "line" > < a id = "l00007" name = "l00007" > < / a > < span class = "lineno" > 7< / span > < span class = "preprocessor" > #include < stdexcept> < / span > < / div >
< div class = "line" > < a id = "l00008" name = "l00008" > < / a > < span class = "lineno" > 8< / span > < / div >
< div class = "line" > < a id = "l00009" name = "l00009" > < / a > < span class = "lineno" > 9< / span > < span class = "preprocessor" > #include " quill/LogMacros.h" < / span > < / div >
< div class = "line" > < a id = "l00010" name = "l00010" > < / a > < span class = "lineno" > 10< / span > < / div >
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< div class = "line" > < a id = "l00012" name = "l00012" > < / a > < span class = "lineno" > 12< / span > < span class = "keyword" > namespace < / span > {< / div >
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< div class = "line" > < a id = "l00014" name = "l00014" > < / a > < span class = "lineno" > 14< / span > s.erase(< / div >
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< div class = "line" > < a id = "l00016" name = "l00016" > < / a > < span class = "lineno" > 16< / span > std::ranges::find_if(s,< / div >
< div class = "line" > < a id = "l00017" name = "l00017" > < / a > < span class = "lineno" > 17< / span > [](< span class = "keyword" > const< / span > < span class = "keywordtype" > unsigned< / span > < span class = "keywordtype" > char< / span > ch) {< / div >
< div class = "line" > < a id = "l00018" name = "l00018" > < / a > < span class = "lineno" > 18< / span > return !std::isspace(ch);< / div >
< div class = "line" > < a id = "l00019" name = "l00019" > < / a > < span class = "lineno" > 19< / span > })< / div >
< div class = "line" > < a id = "l00020" name = "l00020" > < / a > < span class = "lineno" > 20< / span > );< / div >
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< div class = "line" > < a id = "l00022" name = "l00022" > < / a > < span class = "lineno" > 22< / span > < / div >
< div class = "line" > < a id = "l00023" name = "l00023" > < / a > < span class = "lineno" > 23< / span > < span class = "keyword" > inline< / span > < span class = "keywordtype" > void< / span > rtrim(std::string & s) {< / div >
< div class = "line" > < a id = "l00024" name = "l00024" > < / a > < span class = "lineno" > 24< / span > s.erase(< / div >
< div class = "line" > < a id = "l00025" name = "l00025" > < / a > < span class = "lineno" > 25< / span > std::find_if(< / div >
< div class = "line" > < a id = "l00026" name = "l00026" > < / a > < span class = "lineno" > 26< / span > s.rbegin(),< / div >
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< div class = "line" > < a id = "l00028" name = "l00028" > < / a > < span class = "lineno" > 28< / span > [](< span class = "keyword" > const< / span > < span class = "keywordtype" > unsigned< / span > < span class = "keywordtype" > char< / span > ch) {< / div >
< div class = "line" > < a id = "l00029" name = "l00029" > < / a > < span class = "lineno" > 29< / span > return !std::isspace(ch);< / div >
< div class = "line" > < a id = "l00030" name = "l00030" > < / a > < span class = "lineno" > 30< / span > }).base(),< / div >
< div class = "line" > < a id = "l00031" name = "l00031" > < / a > < span class = "lineno" > 31< / span > s.end()< / div >
< div class = "line" > < a id = "l00032" name = "l00032" > < / a > < span class = "lineno" > 32< / span > );< / div >
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< div class = "line" > < a id = "l00035" name = "l00035" > < / a > < span class = "lineno" > 35< / span > < span class = "keyword" > inline< / span > < span class = "keywordtype" > void< / span > trim(std::string & s) {< / div >
< div class = "line" > < a id = "l00036" name = "l00036" > < / a > < span class = "lineno" > 36< / span > ltrim(s);< / div >
< div class = "line" > < a id = "l00037" name = "l00037" > < / a > < span class = "lineno" > 37< / span > rtrim(s);< / div >
< div class = "line" > < a id = "l00038" name = "l00038" > < / a > < span class = "lineno" > 38< / span > }< / div >
< div class = "line" > < a id = "l00039" name = "l00039" > < / a > < span class = "lineno" > 39< / span > < / div >
< div class = "line" > < a id = "l00040" name = "l00040" > < / a > < span class = "lineno" > 40< / span > < / div >
< div class = "line" > < a id = "l00041" name = "l00041" > < / a > < span class = "lineno" > 41< / span > }< / div >
< div class = "line" > < a id = "l00042" name = "l00042" > < / a > < span class = "lineno" > < a class = "line" href = "classgridfire_1_1io_1_1_simple_reaction_list_file_parser.html#afc8ed91e8c98205c505e3d9f0cff1993" > 42< / a > < / span > < a class = "code hl_function" href = "classgridfire_1_1io_1_1_simple_reaction_list_file_parser.html#afc8ed91e8c98205c505e3d9f0cff1993" > SimpleReactionListFileParser::SimpleReactionListFileParser< / a > () {}< / div >
< div class = "line" > < a id = "l00043" name = "l00043" > < / a > < span class = "lineno" > 43< / span > < / div >
< div class = "foldopen" id = "foldopen00044" data-start = "{" data-end = "}" >
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< div class = "line" > < a id = "l00044" name = "l00044" > < / a > < span class = "lineno" > < a class = "line" href = "classgridfire_1_1io_1_1_simple_reaction_list_file_parser.html#a4df01e3a93e1291d2cde0458545325f8" > 44< / a > < / span > < a class = "code hl_typedef" href = "namespacegridfire_1_1io.html#abcbdcbd13cfa8c9fbe1b48e8ee2cc352" > ParsedNetworkData< / a > < a class = "code hl_function" href = "classgridfire_1_1io_1_1_simple_reaction_list_file_parser.html#a4df01e3a93e1291d2cde0458545325f8" > SimpleReactionListFileParser::parse< / a > (< span class = "keyword" > const< / span > std::string& filename)< span class = "keyword" > const < / span > {< / div >
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< div class = "line" > < a id = "l00045" name = "l00045" > < / a > < span class = "lineno" > 45< / span > LOG_TRACE_L1(< a class = "code hl_variable" href = "classgridfire_1_1io_1_1_simple_reaction_list_file_parser.html#acef7eafe3cbea159259f69c88d309b66" > m_logger< / a > , < span class = "stringliteral" > " Parsing simple reaction list file: {}" < / span > , filename);< / div >
< div class = "line" > < a id = "l00046" name = "l00046" > < / a > < span class = "lineno" > 46< / span > < / div >
< div class = "line" > < a id = "l00047" name = "l00047" > < / a > < span class = "lineno" > 47< / span > std::ifstream file(filename);< / div >
< div class = "line" > < a id = "l00048" name = "l00048" > < / a > < span class = "lineno" > 48< / span > < span class = "keywordflow" > if< / span > (!file.is_open()) {< / div >
< div class = "line" > < a id = "l00049" name = "l00049" > < / a > < span class = "lineno" > 49< / span > LOG_ERROR(< a class = "code hl_variable" href = "classgridfire_1_1io_1_1_simple_reaction_list_file_parser.html#acef7eafe3cbea159259f69c88d309b66" > m_logger< / a > , < span class = "stringliteral" > " Failed to open file: {}" < / span > , filename);< / div >
< div class = "line" > < a id = "l00050" name = "l00050" > < / a > < span class = "lineno" > 50< / span > < a class = "code hl_variable" href = "classgridfire_1_1io_1_1_simple_reaction_list_file_parser.html#acef7eafe3cbea159259f69c88d309b66" > m_logger< / a > -> flush_log();< / div >
< div class = "line" > < a id = "l00051" name = "l00051" > < / a > < span class = "lineno" > 51< / span > < span class = "keywordflow" > throw< / span > std::runtime_error(< span class = "stringliteral" > " Could not open file: " < / span > + filename);< / div >
< div class = "line" > < a id = "l00052" name = "l00052" > < / a > < span class = "lineno" > 52< / span > }< / div >
< div class = "line" > < a id = "l00053" name = "l00053" > < / a > < span class = "lineno" > 53< / span > < / div >
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< div class = "line" > < a id = "l00054" name = "l00054" > < / a > < span class = "lineno" > 54< / span > < a class = "code hl_typedef" href = "namespacegridfire_1_1io.html#abcbdcbd13cfa8c9fbe1b48e8ee2cc352" > ParsedNetworkData< / a > parsed;< / div >
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< div class = "line" > < a id = "l00055" name = "l00055" > < / a > < span class = "lineno" > 55< / span > std::string line;< / div >
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< div class = "line" > < a id = "l00056" name = "l00056" > < / a > < span class = "lineno" > 56< / span > < span class = "keywordflow" > while< / span > (std::getline(file, line)) {< / div >
< div class = "line" > < a id = "l00057" name = "l00057" > < / a > < span class = "lineno" > 57< / span > LOG_TRACE_L3(< a class = "code hl_variable" href = "classgridfire_1_1io_1_1_simple_reaction_list_file_parser.html#acef7eafe3cbea159259f69c88d309b66" > m_logger< / a > , < span class = "stringliteral" > " Parsing reaction list file {}, line: {}" < / span > , filename, line);< / div >
< div class = "line" > < a id = "l00058" name = "l00058" > < / a > < span class = "lineno" > 58< / span > < / div >
< div class = "line" > < a id = "l00059" name = "l00059" > < / a > < span class = "lineno" > 59< / span > < span class = "keyword" > const< / span > < span class = "keywordtype" > size_t< / span > comment_pos = line.find(< span class = "charliteral" > ' #' < / span > );< / div >
< div class = "line" > < a id = "l00060" name = "l00060" > < / a > < span class = "lineno" > 60< / span > < span class = "keywordflow" > if< / span > (comment_pos != std::string::npos) {< / div >
< div class = "line" > < a id = "l00061" name = "l00061" > < / a > < span class = "lineno" > 61< / span > line = line.substr(0, comment_pos);< / div >
< div class = "line" > < a id = "l00062" name = "l00062" > < / a > < span class = "lineno" > 62< / span > }< / div >
< div class = "line" > < a id = "l00063" name = "l00063" > < / a > < span class = "lineno" > 63< / span > < / div >
< div class = "line" > < a id = "l00064" name = "l00064" > < / a > < span class = "lineno" > 64< / span > trim(line);< / div >
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< div class = "line" > < a id = "l00065" name = "l00065" > < / a > < span class = "lineno" > 65< / span > < / div >
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< div class = "line" > < a id = "l00066" name = "l00066" > < / a > < span class = "lineno" > 66< / span > < span class = "keywordflow" > if< / span > (line.empty()) {< / div >
< div class = "line" > < a id = "l00067" name = "l00067" > < / a > < span class = "lineno" > 67< / span > < span class = "keywordflow" > continue< / span > ; < span class = "comment" > // Skip empty lines< / span > < / div >
< div class = "line" > < a id = "l00068" name = "l00068" > < / a > < span class = "lineno" > 68< / span > }< / div >
< div class = "line" > < a id = "l00069" name = "l00069" > < / a > < span class = "lineno" > 69< / span > parsed.push_back(line);< / div >
< div class = "line" > < a id = "l00070" name = "l00070" > < / a > < span class = "lineno" > 70< / span > }< / div >
< div class = "line" > < a id = "l00071" name = "l00071" > < / a > < span class = "lineno" > 71< / span > LOG_TRACE_L1(< a class = "code hl_variable" href = "classgridfire_1_1io_1_1_simple_reaction_list_file_parser.html#acef7eafe3cbea159259f69c88d309b66" > m_logger< / a > , < span class = "stringliteral" > " Parsed {} reactions from file: {}" < / span > , parsed.size(), filename);< / div >
< div class = "line" > < a id = "l00072" name = "l00072" > < / a > < span class = "lineno" > 72< / span > < span class = "keywordflow" > return< / span > parsed;< / div >
< div class = "line" > < a id = "l00073" name = "l00073" > < / a > < span class = "lineno" > 73< / span > }< / div >
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< / div >
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< div class = "line" > < a id = "l00074" name = "l00074" > < / a > < span class = "lineno" > 74< / span > < / div >
< div class = "line" > < a id = "l00075" name = "l00075" > < / a > < span class = "lineno" > 75< / span > }< / div >
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< div class = "ttc" id = "aclassgridfire_1_1io_1_1_simple_reaction_list_file_parser_html_a4df01e3a93e1291d2cde0458545325f8" > < div class = "ttname" > < a href = "classgridfire_1_1io_1_1_simple_reaction_list_file_parser.html#a4df01e3a93e1291d2cde0458545325f8" > gridfire::io::SimpleReactionListFileParser::parse< / a > < / div > < div class = "ttdeci" > ParsedNetworkData parse(const std::string & filename) const override< / div > < div class = "ttdoc" > Parses a simple reaction list file.< / div > < div class = "ttdef" > < b > Definition< / b > < a href = "#l00044" > network_file.cpp:44< / a > < / div > < / div >
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< div class = "ttc" id = "aclassgridfire_1_1io_1_1_simple_reaction_list_file_parser_html_acef7eafe3cbea159259f69c88d309b66" > < div class = "ttname" > < a href = "classgridfire_1_1io_1_1_simple_reaction_list_file_parser.html#acef7eafe3cbea159259f69c88d309b66" > gridfire::io::SimpleReactionListFileParser::m_logger< / a > < / div > < div class = "ttdeci" > quill::Logger * m_logger< / div > < div class = "ttdef" > < b > Definition< / b > < a href = "network__file_8h_source.html#l00107" > network_file.h:107< / a > < / div > < / div >
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< div class = "ttc" id = "aclassgridfire_1_1io_1_1_simple_reaction_list_file_parser_html_afc8ed91e8c98205c505e3d9f0cff1993" > < div class = "ttname" > < a href = "classgridfire_1_1io_1_1_simple_reaction_list_file_parser.html#afc8ed91e8c98205c505e3d9f0cff1993" > gridfire::io::SimpleReactionListFileParser::SimpleReactionListFileParser< / a > < / div > < div class = "ttdeci" > SimpleReactionListFileParser()< / div > < div class = "ttdoc" > Constructs a SimpleReactionListFileParser.< / div > < div class = "ttdef" > < b > Definition< / b > < a href = "#l00042" > network_file.cpp:42< / a > < / div > < / div >
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