bool operator() (const string& rawpath) const
{
return bal::to_lower_copy(BFS_STRING(bfs::path(rawpath).extension())) == ".wiff";
}
bool operator() (const string& rawpath) const
{
return bfs::is_directory(rawpath) &&
bal::to_lower_copy(BFS_STRING(bfs::path(rawpath).extension())) == ".raw";
}
// TODO: Make this a public function? It's copied and modified from Serializer_mzXML.cpp;
// instead of returning basename, it returns the full file or directory name.
string translate_SourceFileTypeToRunID(const SourceFile& sf, CVID sourceFileType)
{
string nameExtension = bal::to_lower_copy(bfs::extension(sf.name));
string locationExtension = bal::to_lower_copy(bfs::extension(sf.location));
string result; // MSVC10 is happier with a copy before return?
switch (sourceFileType)
{
// location="file://path/to" name="source.RAW"
case MS_Thermo_RAW_file:
if (nameExtension == ".raw")
return sf.name;
return "";
// sane: location="file://path/to/source.raw" name="_FUNC001.DAT"
// insane: location="file://path/to" name="source.raw"
case MS_Waters_raw_file:
if (nameExtension == ".dat" && locationExtension == ".raw")
return result=BFS_STRING(bfs::path(sf.location).filename());
else if (nameExtension == ".raw")
return sf.name;
return "";
// location="file://path/to/source.d" name="Analysis.yep"
case MS_Bruker_Agilent_YEP_file:
if (nameExtension == ".yep" && locationExtension == ".d")
return result=BFS_STRING(bfs::path(sf.location).filename());
return "";
// location="file://path/to/source.d" name="Analysis.baf"
case MS_Bruker_BAF_file:
if (nameExtension == ".baf" && locationExtension == ".d")
return result=BFS_STRING(bfs::path(sf.location).filename());
return "";
// location="file://path/to/source.d/AcqData" name="msprofile.bin"
case MS_Agilent_MassHunter_file:
if (nameExtension == ".bin" && bfs::path(sf.location).filename() == "AcqData")
return result=BFS_STRING(bfs::path(sf.location).parent_path().filename());
return "";
// location="file://path/to" name="source.mzXML"
// location="file://path/to" name="source.mz.xml"
// location="file://path/to" name="source.d" (ambiguous)
case MS_ISB_mzXML_file:
if (nameExtension == ".mzxml" || nameExtension == ".d")
return sf.name;
else if (bal::iends_with(sf.name, ".mz.xml"))
return sf.name.substr(0, sf.name.length()-7);
return "";
// location="file://path/to" name="source.mzData"
// location="file://path/to" name="source.mz.data" ???
case MS_PSI_mzData_file:
if (nameExtension == ".mzdata")
return sf.name;
return "";
// location="file://path/to" name="source.mgf"
case MS_Mascot_MGF_file:
if (nameExtension == ".mgf")
return sf.name;
return "";
// location="file://path/to" name="source.wiff"
case MS_ABI_WIFF_file:
if (nameExtension == ".wiff")
return sf.name;
return "";
// location="file://path/to/source/maldi-spot/1/1SRef" name="fid"
// location="file://path/to/source/1/1SRef" name="fid"
case MS_Bruker_FID_file:
return (bfs::path(sf.location) / sf.name).string().substr(7);
// location="file://path/to/source" name="spectrum-id.t2d"
// location="file://path/to/source/MS" name="spectrum-id.t2d"
// location="file://path/to/source/MSMS" name="spectrum-id.t2d"
case MS_AB_SCIEX_TOF_TOF_T2D_file:
return (bfs::path(sf.location) / sf.name).string().substr(7);
default:
return "";
}
}
