public ActionResult Create(
[Bind(Include = "Id,Notation,RemoteDb,RemoteId,Description,Matter,MatterId")] CommonSequence commonSequence,
bool localFile,
Language?language,
bool?original,
Translator?translator,
bool?partial,
int?precision)
{
return(CreateTask(() =>
{
var db = new LibiadaWebEntities();
try
{
if (!ModelState.IsValid)
{
throw new Exception("Model state is invalid");
}
Stream sequenceStream;
Nature nature = commonSequence.Notation.GetNature();
if (nature == Nature.Genetic && !localFile)
{
sequenceStream = NcbiHelper.GetFastaFileStream(commonSequence.RemoteId);
}
else
{
sequenceStream = FileHelper.GetFileStream(Request.Files[0]);
}
switch (nature)
{
case Nature.Genetic:
ISequence bioSequence = NcbiHelper.GetFastaSequence(sequenceStream);
var dnaSequenceRepository = new GeneticSequenceRepository(db);
dnaSequenceRepository.Create(commonSequence, bioSequence, partial ?? false);
break;
case Nature.Music:
var musicSequenceRepository = new MusicSequenceRepository(db);
musicSequenceRepository.Create(commonSequence, sequenceStream);
break;
case Nature.Literature:
var literatureSequenceRepository = new LiteratureSequenceRepository(db);
literatureSequenceRepository.Create(commonSequence, sequenceStream, language ?? Language.Russian, original ?? true, translator ?? Translator.NoneOrManual);
break;
case Nature.MeasurementData:
var dataSequenceRepository = new DataSequenceRepository(db);
dataSequenceRepository.Create(commonSequence, sequenceStream, precision ?? 0);
break;
case Nature.Image:
var matterRepository = new MatterRepository(db);
int fileSize = Request.Files[0].ContentLength;
var file = new byte[fileSize];
Request.Files[0].InputStream.Read(file, 0, fileSize);
var matter = new Matter
{
Nature = Nature.Image,
SequenceType = commonSequence.Matter.SequenceType,
Name = commonSequence.Matter.Name,
Source = file,
Group = commonSequence.Matter.Group
};
matterRepository.SaveToDatabase(matter);
break;
default:
throw new InvalidEnumArgumentException(nameof(nature), (int)nature, typeof(Nature));
}
string multisequenceName = db.Multisequence.SingleOrDefault(ms => ms.Id == commonSequence.Matter.MultisequenceId).Name;
var result = new ImportResult(commonSequence, language, original, translator, partial, precision, multisequenceName);
return new Dictionary <string, string> {
{ "data", JsonConvert.SerializeObject(result) }
};
}
catch (Exception)
{
long matterId = commonSequence.MatterId;
if (matterId != 0)
{
List <Matter> orphanMatter = db.Matter
.Include(m => m.Sequence)
.Where(m => m.Id == matterId && m.Sequence.Count == 0)
.ToList();
if (orphanMatter.Count > 0)
{
db.Matter.Remove(orphanMatter[0]);
db.SaveChanges();
}
}
throw;
}
finally
{
Dispose(true);
}
}));
}
public ActionResult Index(long matterId,
Notation notation,
Language?language,
Translator?translator,
PauseTreatment?pauseTreatment,
bool?sequentialTransfer,
int scrambling)
{
Matter matter = Cache.GetInstance().Matters.Single(m => m.Id == matterId);
long sequenceId;
switch (matter.Nature)
{
case Nature.Literature:
sequenceId = db.LiteratureSequence.Single(l => l.MatterId == matterId &&
l.Notation == notation &&
l.Language == language &&
l.Translator == translator).Id;
break;
case Nature.Music:
sequenceId = db.MusicSequence.Single(m => m.MatterId == matterId &&
m.Notation == notation &&
m.PauseTreatment == pauseTreatment &&
m.SequentialTransfer == sequentialTransfer).Id;
break;
default:
sequenceId = db.CommonSequence.Single(c => c.MatterId == matterId && c.Notation == notation).Id;
break;
}
BaseChain chain = sequenceRepository.GetLibiadaBaseChain(sequenceId);
for (int i = 0; i < scrambling; i++)
{
int firstIndex = randomGenerator.Next(chain.Length);
int secondIndex = randomGenerator.Next(chain.Length);
IBaseObject firstElement = chain[firstIndex];
IBaseObject secondElement = chain[secondIndex];
chain[firstIndex] = secondElement;
chain[secondIndex] = firstElement;
}
var resultMatter = new Matter
{
Nature = matter.Nature,
Name = $"{matter.Name} {scrambling} mixes"
};
MatterRepository matterRepository = new MatterRepository(db);
matterRepository.SaveToDatabase(resultMatter);
var result = new CommonSequence
{
Notation = notation,
MatterId = resultMatter.Id
};
long[] alphabet = elementRepository.ToDbElements(chain.Alphabet, notation, false);
switch (matter.Nature)
{
case Nature.Genetic:
DnaSequence dnaSequence = db.DnaSequence.Single(c => c.Id == sequenceId);
dnaSequenceRepository.Create(result, dnaSequence.Partial, alphabet, chain.Building);
break;
case Nature.Music:
musicSequenceRepository.Create(result, alphabet, chain.Building);
break;
case Nature.Literature:
LiteratureSequence sequence = db.LiteratureSequence.Single(c => c.Id == sequenceId);
literatureSequenceRepository.Create(result, sequence.Original, sequence.Language, sequence.Translator, alphabet, chain.Building);
break;
case Nature.MeasurementData:
dataSequenceRepository.Create(result, alphabet, chain.Building);
break;
default:
throw new InvalidEnumArgumentException(nameof(matter.Nature), (int)matter.Nature, typeof(Nature));
}
return(RedirectToAction("Index", "Matters"));
}
public ActionResult Index(HttpPostedFileBase[] files)
{
return(CreateTask(() =>
{
var importResults = new List <MatterImportResult>();
using (var db = new LibiadaWebEntities())
{
Matter[] matters = db.Matter.Where(m => m.Nature == Nature.Image).ToArray();
var matterRepository = new MatterRepository(db);
for (int i = 0; i < Request.Files.Count; i++)
{
var file = Request.Files[i];
string sequenceName = file?.FileName.Substring(0, file.FileName.LastIndexOf('.'));
var importResult = new MatterImportResult()
{
MatterName = sequenceName
};
try
{
if (file == null)
{
throw new FileNotFoundException($"No image file is provided. Iteration: {i}");
}
if (matters.Any(m => m.Name == sequenceName))
{
importResult.Result = "Image already exists";
continue;
}
int fileSize = file.ContentLength;
var fileBytes = new byte[fileSize];
file.InputStream.Read(fileBytes, 0, fileSize);
var matter = new Matter
{
Name = sequenceName,
Group = Group.Picture,
Nature = Nature.Image,
Source = fileBytes,
SequenceType = SequenceType.CompleteImage
};
matterRepository.SaveToDatabase(matter);
importResult.Result = "Successfully imported image and created matter";
importResult.Status = "Success";
importResults.Add(importResult);
}
catch (Exception exception)
{
importResult.Result = $"Failed to import image: {exception.Message}";
while (exception.InnerException != null)
{
importResult.Result += $" {exception.InnerException.Message}";
exception = exception.InnerException;
}
importResult.Status = "Error";
importResults.Add(importResult);
}
}
var result = new Dictionary <string, object> {
{ "result", importResults }
};
return new Dictionary <string, string> {
{ "data", JsonConvert.SerializeObject(result) }
};
}
}));
}