internal override void AppendCodeStringStmt(StringBuilder res, PythonAst ast, CodeFormattingOptions format)
{
format.ReflowComment(res, this.GetPreceedingWhiteSpace(ast));
res.Append("raise");
if (ExceptType != null)
{
ExceptType.AppendCodeString(res, ast, format);
}
if (this.IsAltForm(ast))
{
res.Append(this.GetSecondWhiteSpace(ast));
res.Append("from");
Cause.AppendCodeString(res, ast, format);
}
else
{
if (Value != null)
{
res.Append(this.GetSecondWhiteSpace(ast));
res.Append(',');
Value.AppendCodeString(res, ast, format);
if (Traceback != null)
{
res.Append(this.GetThirdWhiteSpace(ast));
res.Append(',');
Traceback.AppendCodeString(res, ast, format);
}
}
}
}
public override void Walk(PythonWalker walker)
{
if (walker.Walk(this))
{
ExceptType?.Walk(walker);
Value?.Walk(walker);
Traceback?.Walk(walker);
Cause?.Walk(walker);
}
walker.PostWalk(this);
}
public static void RunTheCode(string seq1File, string seq2File, int matchWeight, int misMatchWeight, int indlWeight)
{
ScoringParameterDto scoringParameter = new ScoringParameterDto(matchWeight, misMatchWeight, indlWeight);
var seq1 = LoadProteinDatabase.GetProteins(seq1File);
var seq2 = LoadProteinDatabase.GetProteins(seq2File);
SequencesDto sequences = new SequencesDto(seq1[0].Seq, seq2[0].Seq);
EvaluateDto evaluation = GridEvaluateFunction.Evaluate(scoringParameter, sequences);
ResultsDto results = Traceback.Trace(evaluation, sequences);
WriteAlignment.Write(results, scoringParameter);
}
static unsafe void Serialize(ref SerializationContext context, ref Traceback input)
{
var buffer = new byte[8 + input.Frames.Count * 4];
fixed(uint *pFrames = &input.Frames.Array[input.Frames.Offset])
fixed(byte *pBuffer = buffer)
{
*(UInt32 *)(pBuffer + 0) = input.ID;
*(int *)(pBuffer + 4) = input.Frames.Count;
Squared.Data.Mangler.Internal.Native.memmove(
pBuffer + 8, (byte *)pFrames, new UIntPtr((uint)(input.Frames.Count * 4))
);
}
context.SetResult(buffer);
}
public override async Task WalkAsync(PythonWalkerAsync walker, CancellationToken cancellationToken = default)
{
if (await walker.WalkAsync(this, cancellationToken))
{
if (ExceptType != null)
{
await ExceptType.WalkAsync(walker, cancellationToken);
}
if (Value != null)
{
await Value.WalkAsync(walker, cancellationToken);
}
if (Traceback != null)
{
await Traceback.WalkAsync(walker, cancellationToken);
}
if (Cause != null)
{
await Cause.WalkAsync(walker, cancellationToken);
}
}
await walker.PostWalkAsync(this, cancellationToken);
}
static unsafe void Deserialize(ref DeserializationContext context, out Traceback output)
{
if (context.SourceLength < 8)
{
throw new InvalidDataException();
}
var id = *(UInt32 *)(context.Source + 0);
var count = *(int *)(context.Source + 4);
if (context.SourceLength < 8 + (count * 4))
{
throw new InvalidDataException();
}
var array = ImmutableArrayPool <UInt32> .Allocate(count);
fixed(uint *pFrames = array.Array)
Squared.Data.Mangler.Internal.Native.memmove(
(byte *)(&pFrames[array.Offset]), context.Source + 8, new UIntPtr((uint)(count * 4))
);
output = new Traceback(id, array);
}
public HeapSnapshot(int index, DateTime when, string filename, string text)
{
MemoryStatistics memory = new MemoryStatistics();
bool scanningForStart = true, scanningForMemory = false;
Heap scanningHeap = null;
var regexes = new Regexes();
int groupModule = regexes.SnapshotModule.GroupNumberFromName("module");
int groupModuleOffset = regexes.SnapshotModule.GroupNumberFromName("offset");
int groupModuleSize = regexes.SnapshotModule.GroupNumberFromName("size");
int groupHeaderId = regexes.HeapHeader.GroupNumberFromName("id");
int groupAllocOffset = regexes.Allocation.GroupNumberFromName("offset");
int groupAllocSize = regexes.Allocation.GroupNumberFromName("size");
int groupAllocOverhead = regexes.Allocation.GroupNumberFromName("overhead");
int groupAllocId = regexes.Allocation.GroupNumberFromName("id");
Match m;
// Instead of allocating a tiny new UInt32[] for every traceback we read in,
// we store groups of tracebacks into fixed-size buffers so that the GC has
// less work to do when performing collections. Tracebacks are read-only after
// being constructed, and all the tracebacks from a snapshot have the same
// lifetime, so this works out well.
var frameBuffer = new UInt32[FrameBufferSize];
int frameBufferCount = 0;
var lr = new LineReader(text);
LineReader.Line line;
while (lr.ReadLine(out line))
{
if (scanningHeap != null)
{
if (line.StartsWith("*-") && line.Contains("End of data for heap"))
{
scanningHeap.Allocations.TrimExcess();
scanningHeap = null;
}
else if (regexes.Allocation.TryMatch(ref line, out m))
{
var tracebackId = UInt32.Parse(m.Groups[groupAllocId].Value, NumberStyles.HexNumber);
Traceback traceback;
if (!Tracebacks.TryGetValue(tracebackId, out traceback))
{
// If the frame buffer could fill up while we're building our traceback,
// let's allocate a new one.
if (frameBufferCount >= frameBuffer.Length - MaxTracebackLength)
{
frameBuffer = new UInt32[frameBuffer.Length];
frameBufferCount = 0;
}
int firstFrame = frameBufferCount;
// This is only valid if every allocation is followed by an empty line
while (lr.ReadLine(out line))
{
if (line.StartsWith("\t"))
{
frameBuffer[frameBufferCount++] = UInt32.Parse(
line.ToString(), NumberStyles.HexNumber | NumberStyles.AllowLeadingWhite
);
}
else
{
lr.Rewind(ref line);
break;
}
}
Tracebacks.Add(traceback = new Traceback(
tracebackId, new ArraySegment <UInt32>(frameBuffer, firstFrame, frameBufferCount - firstFrame)
));
}
scanningHeap.Allocations.Add(new Allocation(
UInt32.Parse(m.Groups[groupAllocOffset].Value, NumberStyles.HexNumber),
UInt32.Parse(m.Groups[groupAllocSize].Value, NumberStyles.HexNumber),
UInt32.Parse(m.Groups[groupAllocOverhead].Value, NumberStyles.HexNumber),
traceback.ID
));
}
}
else if (scanningForMemory)
{
if (regexes.HeapHeader.TryMatch(ref line, out m))
{
scanningHeap = new Heap(index, UInt32.Parse(m.Groups[groupHeaderId].Value, NumberStyles.HexNumber));
Heaps.Add(scanningHeap);
}
else if (line.StartsWith("// Memory="))
{
memory = new MemoryStatistics(line.ToString());
scanningForMemory = false;
break;
}
else
{
continue;
}
}
else if (scanningForStart)
{
if (line.Contains("Loaded modules"))
{
scanningForStart = false;
}
else if (line.Contains("Start of data for heap"))
{
break;
}
else
{
continue;
}
}
else
{
if (!regexes.SnapshotModule.TryMatch(ref line, out m))
{
if (line.Contains("Process modules enumerated"))
{
scanningForMemory = true;
}
else
{
continue;
}
}
else
{
var modulePath = Path.GetFullPath(m.Groups[groupModule].Value).ToLowerInvariant();
Modules.Add(new Module(
modulePath,
UInt32.Parse(m.Groups[groupModuleOffset].Value, System.Globalization.NumberStyles.HexNumber),
UInt32.Parse(m.Groups[groupModuleSize].Value, System.Globalization.NumberStyles.HexNumber)
));
}
}
}
foreach (var heap in Heaps)
{
heap.Allocations.Sort(
(lhs, rhs) => lhs.Address.CompareTo(rhs.Address)
);
heap.ComputeStatistics();
}
Info = new HeapSnapshotInfo(index, when, filename, memory, this);
}