private void ProcessRawDirectory(DirectoryInfo datasetDirectory, DatasetFileInfo datasetFileInfo, out List <FileInfo> primaryDataFiles)
{
primaryDataFiles = new List <FileInfo>();
// Sum up the sizes of all of the files in this directory
datasetFileInfo.FileSizeBytes = 0;
var fileCount = 0;
foreach (var item in datasetDirectory.GetFiles())
{
datasetFileInfo.FileSizeBytes += item.Length;
if (fileCount == 0)
{
// Assign the first file's modification time to .AcqTimeStart and .AcqTimeEnd
// Necessary in case _header.txt is missing
datasetFileInfo.AcqTimeStart = item.LastWriteTime;
datasetFileInfo.AcqTimeEnd = item.LastWriteTime;
}
if (item.Name.ToLower() == "_header.txt")
{
// Assign the file's modification time to .AcqTimeStart and .AcqTimeEnd
// These will get updated below to more precise values
datasetFileInfo.AcqTimeStart = item.LastWriteTime;
datasetFileInfo.AcqTimeEnd = item.LastWriteTime;
}
if (item.Extension.ToLower().Equals(".dat"))
{
primaryDataFiles.Add(item);
}
fileCount += 1;
}
var nativeFileIO = new clsMassLynxNativeIO();
if (nativeFileIO.GetFileInfo(datasetDirectory.FullName, out var headerInfo))
{
ReadMassLynxAcquisitionInfo(datasetDirectory, datasetFileInfo, nativeFileIO, headerInfo);
}
else
{
// Error getting the header info using clsMassLynxNativeIO
// Continue anyway since we've populated some of the values
}
LoadScanDataWithProteoWizard(datasetDirectory, datasetFileInfo, true);
}
public override bool ProcessDataFile(string strDataFilePath, clsDatasetFileInfo datasetFileInfo)
{
// Returns True if success, False if an error
try {
var ioFolderInfo = new DirectoryInfo(strDataFilePath);
datasetFileInfo.FileSystemCreationTime = ioFolderInfo.CreationTime;
datasetFileInfo.FileSystemModificationTime = ioFolderInfo.LastWriteTime;
// The acquisition times will get updated below to more accurate values
datasetFileInfo.AcqTimeStart = datasetFileInfo.FileSystemModificationTime;
datasetFileInfo.AcqTimeEnd = datasetFileInfo.FileSystemModificationTime;
datasetFileInfo.DatasetName = GetDatasetNameViaPath(ioFolderInfo.Name);
datasetFileInfo.FileExtension = ioFolderInfo.Extension;
// Sum up the sizes of all of the files in this folder
datasetFileInfo.FileSizeBytes = 0;
var intFileCount = 0;
foreach (var item in ioFolderInfo.GetFiles())
{
datasetFileInfo.FileSizeBytes += item.Length;
if (intFileCount == 0)
{
// Assign the first file's modification time to .AcqTimeStart and .AcqTimeEnd
// Necessary in case _header.txt is missing
datasetFileInfo.AcqTimeStart = item.LastWriteTime;
datasetFileInfo.AcqTimeEnd = item.LastWriteTime;
}
if (item.Name.ToLower() == "_header.txt")
{
// Assign the file's modification time to .AcqTimeStart and .AcqTimeEnd
// These will get updated below to more precise values
datasetFileInfo.AcqTimeStart = item.LastWriteTime;
datasetFileInfo.AcqTimeEnd = item.LastWriteTime;
}
intFileCount += 1;
}
datasetFileInfo.ScanCount = 0;
var objNativeFileIO = new clsMassLynxNativeIO();
if (objNativeFileIO.GetFileInfo(ioFolderInfo.FullName, out var udtHeaderInfo))
{
var dtNewStartDate = DateTime.Parse(udtHeaderInfo.AcquDate + " " + udtHeaderInfo.AcquTime);
var intFunctionCount = objNativeFileIO.GetFunctionCount(ioFolderInfo.FullName);
if (intFunctionCount > 0)
{
// Sum up the scan count of all of the functions
// Additionally, find the largest EndRT value in all of the functions
float sngEndRT = 0;
for (var intFunctionNumber = 1; intFunctionNumber <= intFunctionCount; intFunctionNumber++)
{
if (objNativeFileIO.GetFunctionInfo(ioFolderInfo.FullName, 1, out clsMassLynxNativeIO.udtMSFunctionInfoType udtFunctionInfo))
{
datasetFileInfo.ScanCount += udtFunctionInfo.ScanCount;
if (udtFunctionInfo.EndRT > sngEndRT)
{
sngEndRT = udtFunctionInfo.EndRT;
}
}
}
if (dtNewStartDate >= MINIMUM_ACCEPTABLE_ACQ_START_TIME)
{
datasetFileInfo.AcqTimeStart = dtNewStartDate;
if (sngEndRT > 0)
{
datasetFileInfo.AcqTimeEnd = datasetFileInfo.AcqTimeStart.Add(MinutesToTimeSpan(sngEndRT));
}
else
{
datasetFileInfo.AcqTimeEnd = datasetFileInfo.AcqTimeStart;
}
}
else
{
// Keep .AcqTimeEnd as the file modification date
// Set .AcqTimeStart based on .AcqEndTime
if (sngEndRT > 0)
{
datasetFileInfo.AcqTimeStart = datasetFileInfo.AcqTimeEnd.Subtract(MinutesToTimeSpan(sngEndRT));
}
else
{
datasetFileInfo.AcqTimeEnd = datasetFileInfo.AcqTimeStart;
}
}
}
else
{
if (dtNewStartDate >= MINIMUM_ACCEPTABLE_ACQ_START_TIME)
{
datasetFileInfo.AcqTimeStart = dtNewStartDate;
}
}
}
else
{
// Error getting the header info using clsMassLynxNativeIO
// Continue anyway since we've populated some of the values
}
return(true);
} catch (Exception) {
return(false);
}
}
/// <summary>
/// Reads the acquisition date and time from the .raw directory
/// Also determines the total number of scans
/// </summary>
/// <param name="datasetDirectory"></param>
/// <param name="datasetFileInfo"></param>
/// <param name="nativeFileIO"></param>
/// <param name="headerInfo"></param>
private void ReadMassLynxAcquisitionInfo(
FileSystemInfo datasetDirectory,
DatasetFileInfo datasetFileInfo,
clsMassLynxNativeIO nativeFileIO,
MSHeaderInfo headerInfo)
{
var newStartDate = DateTime.Parse(headerInfo.AcquDate + " " + headerInfo.AcquTime);
var functionCount = nativeFileIO.GetFunctionCount(datasetDirectory.FullName);
if (functionCount > 0)
{
// Sum up the scan count of all of the functions
// Additionally, find the largest EndRT value in all of the functions
float endRT = 0;
for (var functionNumber = 1; functionNumber <= functionCount; functionNumber++)
{
if (nativeFileIO.GetFunctionInfo(datasetDirectory.FullName, 1, out MassLynxData.MSFunctionInfo functionInfo))
{
datasetFileInfo.ScanCount += functionInfo.ScanCount;
if (functionInfo.EndRT > endRT)
{
endRT = functionInfo.EndRT;
}
}
}
if (newStartDate >= MINIMUM_ACCEPTABLE_ACQ_START_TIME)
{
datasetFileInfo.AcqTimeStart = newStartDate;
if (endRT > 0)
{
datasetFileInfo.AcqTimeEnd = datasetFileInfo.AcqTimeStart.Add(MinutesToTimeSpan(endRT));
}
else
{
datasetFileInfo.AcqTimeEnd = datasetFileInfo.AcqTimeStart;
}
}
else
{
// Keep .AcqTimeEnd as the file modification date
// Set .AcqTimeStart based on .AcqEndTime
if (endRT > 0)
{
datasetFileInfo.AcqTimeStart = datasetFileInfo.AcqTimeEnd.Subtract(MinutesToTimeSpan(endRT));
}
else
{
datasetFileInfo.AcqTimeEnd = datasetFileInfo.AcqTimeStart;
}
}
}
else
{
if (newStartDate >= MINIMUM_ACCEPTABLE_ACQ_START_TIME)
{
datasetFileInfo.AcqTimeStart = newStartDate;
}
}
}
