public void AddFile()
{
try
{
var file = SourceFiles[CurrentFile];
var srcFile = file.Key;
var destFile = file.Value;
// We can only save files
if (srcFile.IsFile && !srcFile.EntityName.StartsWith(".") && destFile.IsFile)
{
ZipArchiveEntry archiveEntry = Archive.CreateEntry(destFile.Path.Substring(1), compressionLevel);
using (Stream entryStream = archiveEntry.Open())
{
var stream = new MemoryStream(FileLoadHelper.ReadAllBytes(srcFile.Path));
stream.CopyTo(entryStream);
}
}
CurrentFile++;
StepCompleted();
}
catch (Exception e)
{
Response["error"] = e.Message;
Response["success"] = false;
// Finish running the exporter since there was an error
currentStep = totalSteps;
}
}
public override void LoadSourceData()
{
if (FileLoadHelper != null)
{
JsonString = Encoding.UTF8.GetString(FileLoadHelper.ReadAllBytes(SourcePath));
}
StepCompleted();
}
/// <summary>
/// Parses a list of biological sequence data from a file.
/// </summary>
/// <param name="filename">The name of a biological sequence file.</param>
/// <param name="isReadOnly">
/// Flag to indicate whether the resulting QualitativeSequences should be in readonly mode or not.
/// If this flag is set to true then the resulting QualitativeSequences's isReadOnly property
/// will be set to true, otherwise it will be set to false.
/// </param>
/// <returns>The list of parsed IQualitativeSequence objects.</returns>
new public IList <IQualitativeSequence> Parse(string filename, bool isReadOnly)
{
_fileName = filename;
//check DV is requried
if (filename != null)
{
_fileLoadHelper = new FileLoadHelper(filename);
_blockSize = _fileLoadHelper.BlockSize;
_maxNumberOfBlocks = _fileLoadHelper.MaxNumberOfBlocks;
if (_isDataVirtualizationForced)
{
_blockSize = FileLoadHelper.DefaultBlockSize;
}
}
else
{
_blockSize = FileLoadHelper.DefaultFullLoadBlockSize;
_maxNumberOfBlocks = 0;
}
SidecarFileProvider indexedProvider = null;
// Check for sidecar
if (IsDataVirtualizationEnabled)
{
try
{
indexedProvider = SidecarFileProvider.GetProvider(filename);
}
catch (OperationCanceledException)
{
indexedProvider = null;
}
}
if (indexedProvider != null)
{
// Create virtual list and return
return(new VirtualQualitativeSequenceList(indexedProvider, this, indexedProvider.Count)
{
CreateSequenceAsReadOnly = isReadOnly
});
}
else
{
using (BioTextReader bioReader = new BioTextReader(filename))
{
return(Parse(bioReader, isReadOnly));
}
}
}
