private static int GetRowsToSkip(BioscreenFileType fileType)
{
//Note: Row == columns in the souorce file. Basically this skips the time and other columns and points to the OD columns.
int skip = 0;
switch (fileType)
{
case BioscreenFileType.Legacy:
case BioscreenFileType.Generic:
skip = 1;
break;
case BioscreenFileType.CSV:
case BioscreenFileType.CSV2:
skip = 2;
break;
case BioscreenFileType.Other:
break;
default:
throw new ArgumentOutOfRangeException("fileType");
}
return(skip);
}
private static string[] GetHeaders(IEnumerable <string> reader, BioscreenFileType fileType)
{
try
{
switch (fileType)
{
case BioscreenFileType.Legacy:
return(reader.Skip(6).First().Split('\t'));
case BioscreenFileType.CSV:
return(reader.First().SplitXP(",", "\"", true));
case BioscreenFileType.CSV2:
return(reader.Skip(2).First().SplitXP(",", "\"", true));
case BioscreenFileType.Generic:
return(reader.First().Split('\t'));
default:
throw new ArgumentOutOfRangeException("fileType");
}
}
catch (Exception)
{
switch (fileType)
{
case BioscreenFileType.Legacy:
throw new Exception("Could not read the file headers at line 7");
case BioscreenFileType.CSV:
case BioscreenFileType.Generic:
throw new Exception("Could not read the file headers at line 1");
case BioscreenFileType.CSV2:
throw new Exception("Could not read the file headers at line 3");
default:
throw new ArgumentOutOfRangeException("fileType");
}
}
}
private static IEnumerable <string> GetRecords(IEnumerable <string> reader, BioscreenFileType fileType)
{
try
{
switch (fileType)
{
case BioscreenFileType.Legacy:
return(reader.Skip(7));
case BioscreenFileType.CSV:
case BioscreenFileType.Generic:
return(reader.Skip(1));
case BioscreenFileType.CSV2:
return(reader.Skip(3));
default:
throw new ArgumentOutOfRangeException("fileType");
}
}
catch (Exception)
{
switch (fileType)
{
case BioscreenFileType.Legacy:
throw new Exception("Could not read the rest of the file from line 8");
case BioscreenFileType.CSV:
case BioscreenFileType.Generic:
throw new Exception("Could not read the file headers at line 1");
case BioscreenFileType.CSV2:
throw new Exception("Could not read the file headers at line 3");
default:
throw new ArgumentOutOfRangeException("fileType");
}
}
}
private static Queue <Well> GetWellQueue(string[] headers, BioscreenFileType fileType)
{
var wells = new Queue <Well>();
int skip = 0;
//int wellCorrect = 0;
switch (fileType)
{
case BioscreenFileType.Legacy:
case BioscreenFileType.Generic:
skip = 1;
break;
case BioscreenFileType.CSV:
skip = 2;
//wellCorrect = 100;
break;
case BioscreenFileType.CSV2:
skip = 2;
break;
default:
throw new ArgumentOutOfRangeException("fileType");
}
var count = 1;
foreach (string header in headers.Skip(skip))
{
var index = count;
var name = header.Trim();
var well = new Well(index, name);
wells.Enqueue(well);
count++;
}
return(wells);
}
private static string[] GetRowWellMeasurements(string record, BioscreenFileType fileType)
{
switch (fileType)
{
case BioscreenFileType.Legacy:
case BioscreenFileType.Generic:
return(record.Split('\t'));
case BioscreenFileType.CSV:
case BioscreenFileType.CSV2:
var arr = record.SplitXP(",", "\"", true).ToList();
var retArr = arr.Select(s => s.Replace("\"", "").Replace(",", ".")).ToList();
return(retArr.ToArray());
case BioscreenFileType.Other:
break;
default:
throw new ArgumentOutOfRangeException("fileType");
}
return(new string[] {});
}
private static int GetTimeInSeconds(string item, BioscreenFileType fileType)
{
int time;
var succeded = false;
switch (fileType)
{
case BioscreenFileType.Legacy:
//time is given in 10ths of second
succeded = int.TryParse(item, NumberStyles.Number, CultureInfo.InvariantCulture, out time);
time = time / 10;
break;
case BioscreenFileType.CSV:
time = GetCVSSecondsFromTimeSpam(item, ref succeded);
break;
case BioscreenFileType.CSV2:
time = GetCvs2SecondsFromTimeSpam(item, ref succeded);
break;
case BioscreenFileType.Generic:
succeded = int.TryParse(item, NumberStyles.Number, CultureInfo.InvariantCulture, out time);
time = succeded ?
time / 10 :
GetCVSSecondsFromTimeSpam(item, ref succeded);
break;
default:
throw new ArgumentOutOfRangeException("fileType");
}
if (!succeded)
{
throw new Exception("could not convert Time, file must be corrupted! \r\n element: " + item);
}
return(time);
}
private static string GetRunName(IEnumerable <string> reader, BioscreenFileType fileType)
{
switch (fileType)
{
case BioscreenFileType.Legacy:
try
{
var runNameLine = reader.Skip(1).First().Trim();
try
{
var runName = string.Empty;
var nameDelimitor = runNameLine.IndexOf(':');
if (nameDelimitor < runNameLine.Length - 1)
{
runName = runNameLine.Substring(nameDelimitor + 1, runNameLine.Length - nameDelimitor - 1);
}
return(runName.Trim());
}
catch (Exception ex)
{
throw new Exception("Could not parse the Experiment description");
}
}
catch (Exception)
{
throw new Exception("Could not read line 2 of the file");
}
case BioscreenFileType.CSV:
case BioscreenFileType.CSV2:
case BioscreenFileType.Generic:
return("-");
default:
throw new ArgumentOutOfRangeException("fileType");
}
}
