public void WriteDecimalString()
{
var ds = new DecimalString();
ds.DData_ = Enumerable.Range(1, 15000).Select(i => ((double)i) + 0.005).ToList();
ds.Tag = new Tag("00082130");
byte[] written;
var settings = DICOMWriteSettings.Default();
using (var ms = new MemoryStream())
{
using (var dw = new DICOMBinaryWriter(ms))
{
DICOMElementWriter.Write(dw, DICOMWriteSettings.Default(), ds);
}
written = ms.ToArray();
}
using (var dr = new DICOMBinaryReader(written))
{
var read = DICOMElementReader.ReadElementImplicitLittleEndian(dr) as DecimalString;
CollectionAssert.AreEqual(ds.DData_, read.Data_);
}
}
private static string ReadUIDItem(DICOMBinaryReader dr, string itemName, ItemType iType)
{
AssertItemType(dr, itemName, iType);
dr.Skip(2); // PDU ID and Reserved Null Byte
int length = LengthReader.ReadBigEndian(dr, 2);
return dr.ReadString(length).Trim();
}
public static void SkipItemLittleEndian(DICOMBinaryReader dr, TransferSyntax syntax)
{
int length = LengthReader.ReadLittleEndian(VR.Null, dr.Skip(4));
if (length != -1)
{
dr.Skip(length);
}
else
{
if (syntax == TransferSyntax.EXPLICIT_VR_LITTLE_ENDIAN)
{
while (!IsEndOfSequenceItemLittleEndian(dr))
{
dr.StreamPosition -= 8;
DICOMElementReader.SkipElementExplicitLittleEndian(dr);
}
}
else
{
while (!IsEndOfSequenceItemLittleEndian(dr))
{
dr.StreamPosition -= 8;
DICOMElementReader.SkipElementImplicitLittleEndian(dr);
}
}
}
}
public static int? ReadMaxLength(DICOMBinaryReader dr)
{
AssertItemType(dr, "Maximum Length", ItemType.MAXIMUM_LENGTH);
dr.Skip(2); // PDU ID and Reserved Null Byte
int length = LengthReader.ReadBigEndian(dr, 2);
return LengthReader.ReadBigEndian(dr, 4);
}
public static VR PeekVR(DICOMBinaryReader dr)
{
byte[] vrBytes = dr.Peek(2);
char[] vr = Encoding.UTF8.GetChars(vrBytes);
VR foundVR = VRDictionary.GetVRFromAbbreviation(new string(vr));
return foundVR;
}
/// <summary>
/// Read explicit VR little endian up to transfer syntax element and determines transfer syntax for rest of elements
/// </summary>
/// <param name="dr">the binary reader which is reading the DICOM object</param>
/// <param name="syntax">the transfer syntax of the DICOM file</param>
/// <returns>elements preceeding and including transfer syntax element</returns>
private static List<IDICOMElement> ReadFileMetadata(DICOMBinaryReader dr, out TransferSyntax syntax)
{
List<IDICOMElement> elements = new List<IDICOMElement>();
syntax = TransferSyntax.IMPLICIT_VR_LITTLE_ENDIAN;
while (dr.StreamPosition < dr.StreamLength)
{
long position = dr.StreamPosition;
if (TagReader.ReadLittleEndian(dr).Group == _MetaGroup)
{
dr.StreamPosition = position;
IDICOMElement el = DICOMElementReader.ReadElementExplicitLittleEndian(dr);
if (el.Tag.CompleteID == TagHelper.TRANSFER_SYNTAX_UID.CompleteID)
{
syntax = TransferSyntaxHelper.GetSyntax(el);
}
elements.Add(el);
}
else
{
dr.StreamPosition = position;
break;
}
}
return elements;
}
/// <summary>
/// Read explicit VR little endian up to transfer syntax element and determines transfer syntax for rest of elements
/// </summary>
/// <param name="dr">the binary reader which is reading the DICOM object</param>
/// <param name="syntax">the transfer syntax of the DICOM file</param>
/// <returns>elements preceeding and including transfer syntax element</returns>
public static List<IDICOMElement> ReadFileMetadata(DICOMBinaryReader dr, ref TransferSyntax syntax)
{
var elements = new List<IDICOMElement>();
syntax = syntax != TransferSyntax.IMPLICIT_VR_LITTLE_ENDIAN
? syntax
: TransferSyntax.IMPLICIT_VR_LITTLE_ENDIAN;
while (dr.StreamPosition < dr.StreamLength)
{
long position = dr.StreamPosition;
if (TagReader.ReadLittleEndian(dr).Group == _metaGroup)
{
dr.StreamPosition = position;
IDICOMElement el = DICOMElementReader.ReadElementExplicitLittleEndian(dr);
Tag uid = TagHelper.TRANSFER_SYNTAX_UID;
if (el.Tag == uid)
{
syntax = TransferSyntaxHelper.GetSyntax(el);
}
elements.Add(el);
}
else
{
dr.StreamPosition = position;
break;
}
}
return elements;
}
public static PresentationContext ReadPresentationCtxRequest(DICOMBinaryReader dr)
{
AssertItemType(dr, "Presentation Context Request", ItemType.PRESENTATION_CONTEXT_REQUEST);
dr.Skip(2); // PDU id Reserved Null Byte
int length = LengthReader.ReadBigEndian(dr, 2);
return ReadPresentationCtxContents(dr.Take(length), true);
}
public static PDVItem ReadPDVItem(DICOMBinaryReader dr)
{
var pi = new PDVItem();
int length = LengthReader.ReadBigEndian(dr, 4);
pi.PresentationContextID = dr.Take(1)[0];
pi.Fragment = ReadPDVFragment(dr, length - 1);
return pi;
}
/// <summary>
/// Reads and returns the next DICOM element starting at the current location in the DICOM binary reader
/// </summary>
/// <param name="dr">the binary reader which is reading the DICOM object</param>
/// <returns>the next DICOM element</returns>
public static IDICOMElement ReadElementExplicitBigEndian(DICOMBinaryReader dr)
{
Tag tag = TagReader.ReadBigEndian(dr);
VR vr = VRReader.Read(dr);
int length = LengthReader.ReadBigEndian(vr, dr);
byte[] data = DataReader.ReadBigEndian(length, dr);
return ElementFactory.GenerateElement(tag, vr, data, TransferSyntax.EXPLICIT_VR_BIG_ENDIAN);
}
/// <summary>
/// Reads and returns all elements in implicit little endian format
/// </summary>
/// <param name="dr">the binary reader which is reading the DICOM object</param>
/// <returns>DICOM elements read</returns>
public static List<IDICOMElement> ReadAllElementsImplicitLittleEndian(DICOMBinaryReader dr)
{
List<IDICOMElement> elements = new List<IDICOMElement>();
while (dr.StreamPosition < dr.StreamLength)
{
elements.Add(ReadElementImplicitLittleEndian(dr));
}
return elements;
}
public static PDVItemFragment ReadPDVFragment(DICOMBinaryReader dr, int length)
{
var pif = new PDVItemFragment();
byte messageHeader = dr.Take(1)[0];
pif.IsCommandObject = messageHeader.GetBit(0);
pif.IsLastItem = messageHeader.GetBit(1);
pif.Data = dr.ReadBytes(length - 1);
return pif;
}
/// <summary>
/// Reads and returns the next DICOM element starting at the current location in the DICOM binary reader
/// </summary>
/// <param name="dr">the binary reader which is reading the DICOM object</param>
/// <returns>the next DICOM element</returns>
public static IDICOMElement ReadElementImplicitLittleEndian(DICOMBinaryReader dr)
{
Tag tag = TagReader.ReadLittleEndian(dr);
VR vr = TagDictionary.GetVRFromTag(tag);
int length = LengthReader.ReadLittleEndian(VR.Null, dr);
byte[] data = DataReader.ReadLittleEndian(length, dr, TransferSyntax.IMPLICIT_VR_LITTLE_ENDIAN);
IDICOMElement el = ElementFactory.GenerateElement(tag, vr, data, TransferSyntax.IMPLICIT_VR_LITTLE_ENDIAN);
return el;
}
public static DICOMObject ReadObject(byte[] objectBytes, TransferSyntax syntax)
{
List<IDICOMElement> elements;
using (DICOMBinaryReader dr = new DICOMBinaryReader(objectBytes))
{
elements = DICOMElementReader.ReadAllElements(dr, syntax);
}
return new DICOMObject(elements);
}
public static AsyncOperations ReadAsyncOperations(DICOMBinaryReader dr)
{
AssertItemType(dr, "Async Operations", ItemType.ASYNCHRONOUS_OPERATIONS_WINDOW);
var ao = new AsyncOperations();
dr.Skip(2); // // PDU ID and Reserved Null Byte
int length = LengthReader.ReadBigEndian(dr, 2);
ao.MaxInvokeOperations = LengthReader.ReadBigEndian(dr, 2);
ao.MaxPerformOperations = LengthReader.ReadBigEndian(dr, 2);
return ao;
}
/// <summary>
/// Reads the length from a series of bytes in a stream. The number of bytes is automatically determined from
/// VR.
/// </summary>
/// <param name="vr">the value representation of the element</param>
/// <param name="dr">the binary stream with a current position on the length parameter</param>
/// <param name="syntax">the transfer syntax of this element</param>
/// <returns></returns>
public static int Read(VR vr, DICOMBinaryReader dr, TransferSyntax syntax)
{
switch (syntax)
{
case TransferSyntax.EXPLICIT_VR_BIG_ENDIAN:
return ReadBigEndian(vr, dr);
default:
return ReadLittleEndian(vr, dr);
}
}
public static VR ReadVR(DICOMBinaryReader dr)
{
char[] vr = dr.ReadChars(2);
VR foundVR = VRDictionary.GetVRFromAbbreviation(new string(vr));
if (foundVR == VR.Null)
{
throw new Exception(ExceptionHelper.VRReadException);
}
return foundVR;
}
public static int ReadIndefiniteLengthLittleEndian(DICOMBinaryReader dr, TransferSyntax syntax)
{
long startingPos = dr.StreamPosition;
while (!IsEndOfSequenceLittleEndian(dr))
{
dr.StreamPosition -= 8;
SequenceItemReader.SkipItemLittleEndian(dr, syntax);
}
return CalculateLength(dr, startingPos)-8;
}
public static DICOMObject ReadObject(byte[] objectBytes, TransferSyntax syntax, out long bytesRead)
{
List<IDICOMElement> elements;
using (var dr = new DICOMBinaryReader(objectBytes))
{
elements = DICOMElementReader.ReadAllElements(dr, syntax);
bytesRead = dr.StreamPosition;
}
return new DICOMObject(elements);
}
public static int ReadIndefiniteLengthBigEndian(DICOMBinaryReader dr)
{
long startingPos = dr.StreamPosition;
while (!IsEndOfSequenceBigEndian(dr))
{
dr.StreamPosition -= 8;
SequenceItemReader.SkipItemBigEndian(dr);
}
return CalculateLength(dr, startingPos)-8;
}
/// <summary>
/// Read the meta data from the DICOM object
/// </summary>
/// <param name="filePath">the path to the DICOM file</param>
/// <returns>a DICOM object containing the metadata elements</returns>
public static DICOMObject ReadFileMetadata(string filePath)
{
TransferSyntax syntax;
List<IDICOMElement> metaElements;
using (DICOMBinaryReader dr = new DICOMBinaryReader(filePath))
{
DICOMPreambleReader.Read(dr);
metaElements= ReadFileMetadata(dr, out syntax);
}
return new DICOMObject(metaElements);
}
/// <summary>
/// Read the meta data from the DICOM object
/// </summary>
/// <param name="filePath">the path to the DICOM file</param>
/// <returns>a DICOM object containing the metadata elements</returns>
public static DICOMObject ReadFileMetadata(string filePath)
{
var syntax = TransferSyntax.IMPLICIT_VR_LITTLE_ENDIAN;
List<IDICOMElement> metaElements;
using (var dr = new DICOMBinaryReader(filePath))
{
DICOMPreambleReader.Read(dr);
metaElements = ReadFileMetadata(dr, ref syntax);
}
return new DICOMObject(metaElements);
}
/// <summary>
/// Reads the data from an element encoded in big endian byte order
/// </summary>
/// <param name="lengthToRead">the length of the data</param>
/// <param name="dr">the binary reader which is reading the DICOM object</param>
/// <returns>the data from this element</returns>
public static byte[] ReadBigEndian(int lengthToRead, DICOMBinaryReader dr)
{
if (lengthToRead != -1)
{
return dr.ReadBytes(lengthToRead);
}
int length = SequenceReader.ReadIndefiniteLengthBigEndian(dr);
byte[] seqBytes = dr.ReadBytes(length);
dr.Skip(8);
return seqBytes;
}
/// <summary>
/// Reads the data from an element encoded in little endian byte order
/// </summary>
/// <param name="lengthToRead">the length of the data</param>
/// <param name="dr">the binary reader which is reading the DICOM object</param>
/// <returns>the data from this element</returns>
public static byte[] ReadLittleEndian(int lengthToRead, DICOMBinaryReader dr, TransferSyntax syntax)
{
if (lengthToRead != -1)
{
return dr.ReadBytes(lengthToRead);
}
int length = SequenceReader.ReadIndefiniteLengthLittleEndian(dr, syntax);
byte[] seqBytes = dr.ReadBytes(length);
dr.Skip(8);
return seqBytes;
}
/// <summary>
/// This method helps read non-compliant files. Sometimes, an supposed implicit is encoded explicitly. We'll check here
/// Returns true if element is actually encoded explicitly (VR is written as starting characters).
/// </summary>
/// <param name="tag">the read tag</param>
/// <param name="dr">the binary reader which is reading the DICOM object</param>
/// <param name="vr">the determined VR from the tag</param>
/// <returns></returns>
private static bool CheckForExplicitness(Tag tag, DICOMBinaryReader dr, ref VR vr)
{
if (VRReader.PeekVR(dr) != VR.Null)
{
vr = VRReader.ReadVR(dr);
Logging.EvilLogger.Instance.Log($"{tag} was expectd to be implicit LE but is explicit LE. Attempting to read...");
return true;
}
//Implicilty encoded - All is well
return false;
}
/// <summary>
/// Reads the length in big endian byte format from a series of bytes in a stream
/// </summary>
/// <param name="dr">the binary stream with a current position on the length parameter</param>
/// <param name="length">the number of bytes containing the length</param>
/// <returns>the length</returns>
public static int ReadBigEndian(DICOMBinaryReader dr, int length)
{
switch (length)
{
case 2:
return BitConverter.ToInt16(dr.Take(2).Reverse().ToArray(), 0);
case 4:
return BitConverter.ToInt32(dr.Take(4).Reverse().ToArray(), 0);
default:
return 0;
}
}
/// <summary>
/// Reads the length in little endian byte format from a series of bytes in a stream
/// </summary>
/// <param name="dr">the binary stream with a current position on the length parameter</param>
/// <param name="length">the number of bytes containing the length</param>
/// <returns>the length</returns>
public static int ReadLittleEndian(DICOMBinaryReader dr, int length)
{
switch (length)
{
case 2:
return BitConverter.ToUInt16(dr.Take(2), 0);
case 4:
return BitConverter.ToInt32(dr.Take(4), 0);
default:
return 0;
}
}
/// <summary>
/// Reads a DICOM file from a byte array
/// </summary>
/// <param name="fileBytes">the bytes of the DICOM file</param>
/// <returns>a DICOM object containing all elements</returns>
public static DICOMObject Read(byte[] fileBytes, TransferSyntax trySyntax = TransferSyntax.IMPLICIT_VR_LITTLE_ENDIAN)
{
TransferSyntax syntax = trySyntax; //Will keep if metadata doesn't exist
List<IDICOMElement> elements;
using (var dr = new DICOMBinaryReader(fileBytes))
{
DICOMPreambleReader.Read(dr);
List<IDICOMElement> metaElements = ReadFileMetadata(dr, ref syntax);
elements = metaElements.Concat(DICOMElementReader.ReadAllElements(dr, syntax)).ToList();
}
return new DICOMObject(elements);
}
/// <summary>
/// Reads a DICOM file from a byte array
/// </summary>
/// <param name="fileBytes">the bytes of the DICOM file</param>
/// <returns>a DICOM object containing all elements</returns>
public static DICOMObject Read(byte[] fileBytes)
{
TransferSyntax syntax;
List<IDICOMElement> elements;
using (DICOMBinaryReader dr = new DICOMBinaryReader(fileBytes))
{
DICOMPreambleReader.Read(dr);
List<IDICOMElement> metaElements = ReadFileMetadata(dr, out syntax);
elements = metaElements.Union(DICOMElementReader.ReadAllElements(dr, syntax)).ToList();
}
return new DICOMObject(elements);
}
/// <summary>
/// Reads a DICOM file from a path
/// </summary>
/// <param name="stream">the stream to the DICOM file</param>
/// <returns>a DICOM object containing all elements</returns>
public static DICOMObject Read(Stream stream,
TransferSyntax trySyntax = TransferSyntax.IMPLICIT_VR_LITTLE_ENDIAN)
{
TransferSyntax syntax = trySyntax;
List<IDICOMElement> elements;
using (var dr = new DICOMBinaryReader(stream))
{
DICOMPreambleReader.Read(dr);
List<IDICOMElement> metaElements = ReadFileMetadata(dr, ref syntax);
elements = metaElements.Concat(DICOMElementReader.ReadAllElements(dr, syntax)).ToList();
}
return new DICOMObject(elements);
}
/// <summary>
/// Reads the length in big endian byte format from a series of bytes in a stream
/// </summary>
/// <param name="dr">the binary stream with a current position on the length parameter</param>
/// <param name="length">the number of bytes containing the length</param>
/// <returns>the length</returns>
public static int ReadBigEndian(DICOMBinaryReader dr, int length)
{
switch (length)
{
case 2:
return(BitConverter.ToUInt16(dr.Take(2).Reverse().ToArray(), 0));
case 4:
return(BitConverter.ToInt32(dr.Take(4).Reverse().ToArray(), 0));
default:
return(0);
}
}
/// <summary>
/// Reads the length in little endian byte format from a series of bytes in a stream
/// </summary>
/// <param name="dr">the binary stream with a current position on the length parameter</param>
/// <param name="length">the number of bytes containing the length</param>
/// <returns>the length</returns>
public static int ReadLittleEndian(DICOMBinaryReader dr, int length)
{
switch (length)
{
case 2:
return(BitConverter.ToUInt16(dr.Take(2), 0));
case 4:
return(BitConverter.ToInt32(dr.Take(4), 0));
default:
return(0);
}
}
/// <summary>
/// Reads a DICOM file from a path
/// </summary>
/// <param name="filePath">the path to the DICOM file</param>
/// <returns>a DICOM object containing all elements</returns>
public static DICOMObject Read(string filePath,
TransferSyntax trySyntax = TransferSyntax.IMPLICIT_VR_LITTLE_ENDIAN)
{
var syntax = trySyntax;
List <IDICOMElement> elements;
using (var dr = new DICOMBinaryReader(filePath))
{
DICOMPreambleReader.Read(dr);
var metaElements = ReadFileMetadata(dr, ref syntax);
elements = metaElements.Concat(DICOMElementReader.ReadAllElements(dr, syntax)).ToList();
}
return(new DICOMObject(elements));
}
/// <summary>
/// Reads the data from an element encoded in little endian byte order
/// </summary>
/// <param name="lengthToRead">the length of the data</param>
/// <param name="dr">the binary reader which is reading the DICOM object</param>
/// <returns>the data from this element</returns>
public static byte[] ReadLittleEndian(int lengthToRead, DICOMBinaryReader dr, TransferSyntax syntax)
{
if (lengthToRead != -1)
{
return(dr.ReadBytes(lengthToRead));
}
else
{
int length = SequenceReader.ReadIndefiniteLengthLittleEndian(dr, syntax);
byte[] seqBytes = dr.ReadBytes(length);
dr.Skip(8);
return(seqBytes);
}
}
/// <summary>
/// Reads the data from an element encoded in big endian byte order
/// </summary>
/// <param name="lengthToRead">the length of the data</param>
/// <param name="dr">the binary reader which is reading the DICOM object</param>
/// <returns>the data from this element</returns>
public static byte[] ReadBigEndian(int lengthToRead, DICOMBinaryReader dr)
{
if (lengthToRead != -1)
{
return(dr.ReadBytes(lengthToRead));
}
else
{
int length = SequenceReader.ReadIndefiniteLengthBigEndian(dr);
byte[] seqBytes = dr.ReadBytes(length);
dr.Skip(8);
return(seqBytes);
}
}
/// <summary>
/// Reads a DICOM file from a byte array
/// </summary>
/// <param name="fileBytes">the bytes of the DICOM file</param>
/// <returns>a DICOM object containing all elements</returns>
public static DICOMObject Read(byte[] fileBytes,
TransferSyntax trySyntax = TransferSyntax.IMPLICIT_VR_LITTLE_ENDIAN)
{
TransferSyntax syntax = trySyntax; //Will keep if metadata doesn't exist
List <IDICOMElement> elements;
using (var dr = new DICOMBinaryReader(fileBytes))
{
DICOMPreambleReader.Read(dr);
List <IDICOMElement> metaElements = ReadFileMetadata(dr, ref syntax);
elements = metaElements.Concat(DICOMElementReader.ReadAllElements(dr, syntax)).ToList();
}
return(new DICOMObject(elements));
}
public static void SkipElementImplicitLittleEndian(DICOMBinaryReader dr)
{
var tag = TagReader.ReadLittleEndian(dr);
var length = LengthReader.ReadLittleEndian(VR.Null, dr);
if (length != -1)
{
dr.Skip(length);
}
else
{
dr.Skip(SequenceReader.ReadIndefiniteLengthLittleEndian(dr, TransferSyntax.IMPLICIT_VR_LITTLE_ENDIAN));
dr.Skip(8);
}
}
/// <summary>
/// Asynchronously reads a DICOM file from a path
/// </summary>
/// <param name="filePath">the path to the DICOM file</param>
/// <returns>a DICOM object containing all elements</returns>
public static async Task <DICOMObject> ReadAsync(string filePath,
TransferSyntax trySyntax = TransferSyntax.IMPLICIT_VR_LITTLE_ENDIAN)
{
return(await Task.Run(() =>
{
TransferSyntax syntax = trySyntax;
List <IDICOMElement> elements;
using (var dr = new DICOMBinaryReader(filePath))
{
DICOMPreambleReader.Read(dr);
List <IDICOMElement> metaElements = ReadFileMetadata(dr, ref syntax);
elements = metaElements.Concat(DICOMElementReader.ReadAllElements(dr, syntax)).ToList();
}
return new DICOMObject(elements);
}));
}
public static void SkipElementExplicitBigEndian(DICOMBinaryReader dr)
{
var tag = TagReader.ReadBigEndian(dr);
var vr = VRReader.ReadVR(dr);
var length = LengthReader.ReadBigEndian(vr, dr);
if (length != -1)
{
dr.Skip(length);
}
else
{
dr.Skip(SequenceReader.ReadIndefiniteLengthBigEndian(dr));
dr.Skip(8);
}
}
public static void SkipElementExplicitLittleEndian(DICOMBinaryReader dr)
{
Tag tag = TagReader.ReadLittleEndian(dr);
VR vr = VRReader.ReadVR(dr);
int length = LengthReader.ReadLittleEndian(vr, dr);
if (length != -1)
{
dr.Skip(length);
}
else
{
dr.Skip(SequenceReader.ReadIndefiniteLengthLittleEndian(dr, TransferSyntax.EXPLICIT_VR_LITTLE_ENDIAN));
dr.Skip(8);
}
}
public static DICOMObject ReadBigEndian(DICOMBinaryReader dr, TransferSyntax syntax)
{
DICOMObject d;
int length = LengthReader.ReadLittleEndian(VR.Null, dr.Skip(4));
if (LengthReader.IsIndefinite(length))
{
d = ReadIndefiniteBigEndian(dr, syntax);
}
else
{
d = DICOMObjectReader.ReadObject(dr.ReadBytes(length), syntax);
}
return(d);
}
public static void SkipItemBigEndian(DICOMBinaryReader dr)
{
var length = LengthReader.ReadBigEndian(VR.Null, dr.Skip(4));
if (length != -1)
{
dr.Skip(length);
}
else
{
while (!IsEndOfSequenceItemBigEndian(dr) && dr.StreamLength != dr.StreamPosition)
{
dr.StreamPosition -= 8;
DICOMElementReader.SkipElementExplicitBigEndian(dr);
}
}
}
/// <summary>
/// Reads and returns the next DICOM element starting at the current location in the DICOM binary reader
/// </summary>
/// <param name="dr">the binary reader which is reading the DICOM object</param>
/// <returns>the next DICOM element</returns>
public static IDICOMElement ReadElementImplicitLittleEndian(DICOMBinaryReader dr)
{
Tag tag = TagReader.ReadLittleEndian(dr);
VR vr = TagDictionary.GetVRFromTag(tag);
if (CheckForExplicitness(tag, dr, ref vr))
{
return(ReadElementExplicitLittleEndian(tag, vr, dr));
}
else
{
int length = LengthReader.ReadLittleEndian(VR.Null, dr);
byte[] data = DataReader.ReadLittleEndian(length, dr, TransferSyntax.IMPLICIT_VR_LITTLE_ENDIAN);
IDICOMElement el = ElementFactory.GenerateElement(tag, vr, data, TransferSyntax.IMPLICIT_VR_LITTLE_ENDIAN);
return(el);
}
}
private static DICOMObject ReadIndefiniteLittleEndian(DICOMBinaryReader dr, TransferSyntax syntax, StringEncoding enc)
{
var elements = new List <IDICOMElement>();
while (!IsEndOfSequenceItemLittleEndian(dr) && dr.StreamLength != dr.StreamPosition)
{
dr.StreamPosition -= 8;
if (syntax == TransferSyntax.EXPLICIT_VR_LITTLE_ENDIAN)
{
elements.Add(DICOMElementReader.ReadElementExplicitLittleEndian(dr, enc));
}
else
{
elements.Add(DICOMElementReader.ReadElementImplicitLittleEndian(dr, enc));
}
}
return(new DICOMObject(elements));
}
public static DICOMObject ReadLittleEndian(DICOMBinaryReader dr, TransferSyntax syntax)
{
DICOMObject d;
//Skip tag
dr.Skip(4);
int length = LengthReader.ReadLittleEndian(VR.Null, dr);
if (LengthReader.IsIndefinite(length))
{
d = ReadIndefiniteLittleEndian(dr, syntax);
}
else
{
}
return(null);
}
public static DICOMObject ReadBigEndian(DICOMBinaryReader dr, TransferSyntax syntax, StringEncoding enc)
{
DICOMObject d;
//Skip tag
dr.Skip(4);
var length = LengthReader.ReadBigEndian(VR.Null, dr);
if (LengthReader.IsIndefinite(length))
{
d = ReadIndefiniteBigEndian(dr, syntax, enc);
}
else
{
d = DICOMObjectReader.ReadObject(dr.ReadBytes(length), syntax);
}
return(d);
}
/// <summary>
/// Reads the first 132 bits of a file to check if it contains the DICOM preamble.
/// </summary>
/// <param name="dr">a stream containing the bits of the file</param>
/// <returns>a boolean indicating whether or not the DICOM preamble was in the file</returns>
public static bool Read(DICOMBinaryReader dr)
{
if (dr.StreamLength > 132)
{
var nullPreamble = dr.Take(128);
if (nullPreamble.Any(b => b != 0x00))
{
_logger.LogWarning("Missing 128 byte null byte preamble.");
}
//READ D I C M
var dcm = dr.Take(4);
if (dcm[0] != 'D' || dcm[1] != 'I' || dcm[2] != 'C' || dcm[3] != 'M')
{
_logger.LogWarning("Missing characters D I C M in bits 128-131.");
dr.StreamPosition -= 132; //Rewind
return(false);
}
}
return(true);
}
/// <summary>
/// Reads the first 132 bits of a file to check if it contains the DICOM preamble.
/// </summary>
/// <param name="dr">a stream containing the bits of the file</param>
/// <returns>a boolean indicating whether or not the DICOM preamble was in the file</returns>
public static bool Read(DICOMBinaryReader dr)
{
if (dr.StreamLength > 132)
{
byte[] nullPreamble = dr.Take(128);
if (nullPreamble.Any(b => b != 0x00))
{
L.Instance.Log("Missing 128 byte null byte preamble.", LogPriority.WARNING);
}
//READ D I C M
byte[] dcm = dr.Take(4);
if (dcm[0] != 'D' || dcm[1] != 'I' || dcm[2] != 'C' || dcm[3] != 'M')
{
L.Instance.Log("Missing characters D I C M in bits 128-131.", LogPriority.WARNING);
dr.StreamPosition -= 132; //Rewind
return(false);
}
}
return(true);
}
public static int PeekBigEndian(VR vr, DICOMBinaryReader dr)
{
var bytes = new byte[0];
switch (VRDictionary.GetEncodingFromVR(vr))
{
case VREncoding.Implicit:
bytes = dr.Peek(4);
break;
case VREncoding.ExplicitLong:
bytes = dr.Peek(6).Skip(2).Take(4).ToArray();
break;
case VREncoding.ExplicitShort:
bytes = dr.Peek(2);
break;
}
return(ReadBigEndian(bytes));;
}
public static List <IDICOMElement> ReadAllElements(DICOMBinaryReader dr, TransferSyntax syntax, StringEncoding enc)
{
List <IDICOMElement> elements;
switch (syntax)
{
case TransferSyntax.IMPLICIT_VR_LITTLE_ENDIAN:
elements = ReadAllElementsImplicitLittleEndian(dr, enc);
break;
case TransferSyntax.EXPLICIT_VR_BIG_ENDIAN:
elements = ReadAllElementsExplicitBigEndian(dr, enc);
break;
default:
elements = ReadAllElementsExplicitLittleEndian(dr, enc);
break;
}
return(elements);
}
/// <summary>
/// Reads the length in big endian byte format from a series of bytes in a stream. The number of bytes is automatically
/// determined from
/// VR.
/// </summary>
/// <param name="vr">the value representation of the element</param>
/// <param name="dr">the binary stream with a current position on the length parameter</param>
/// <returns></returns>
public static int ReadBigEndian(VR vr, DICOMBinaryReader dr)
{
byte[] bytes = null;
switch (VRDictionary.GetEncodingFromVR(vr))
{
case VREncoding.Implicit:
bytes = dr.ReadBytes(4);
break;
case VREncoding.ExplicitLong:
bytes = dr.Skip(2).ReadBytes(4);
break;
case VREncoding.ExplicitShort:
bytes = dr.ReadBytes(2);
break;
}
return(ReadBigEndian(bytes));
}
/// <summary>
/// Reads the first 132 bits of a file to check if it contains the DICOM preamble.
/// </summary>
/// <param name="dr">a stream containing the bits of the file</param>
/// <returns>a boolean indicating whether or not the DICOM preamble was in the file</returns>
public static bool Read(DICOMBinaryReader dr)
{
byte[] preamble = new byte[132];
try
{
dr.ReadBytes(preamble, 0, 132);
}
catch (Exception)
{
throw new Exception("Could not read 128 null bit preamble. Perhaps file is too short");
}
if (preamble[128] != 'D' || preamble[129] != 'I' || preamble[130] != 'C' || preamble[131] != 'M')
{
Console.WriteLine("Missing characters D I C M in bits 128-131. Technically not a valid DICOM file. Will try to read anyway.");
dr.Reset();
return(false);
}
else
{
return(true);
}
}
public static List <DICOMObject> ReadItems(byte[] data, TransferSyntax syntax)
{
var objects = new List <DICOMObject>();
using (var dr = new DICOMBinaryReader(data))
{
while (dr.StreamPosition < dr.StreamLength)
{
switch (syntax)
{
case TransferSyntax.EXPLICIT_VR_BIG_ENDIAN:
objects.Add(SequenceItemReader.ReadBigEndian(dr, syntax));
break;
default:
objects.Add(SequenceItemReader.ReadLittleEndian(dr, syntax));
break;
}
}
}
return(objects);
}
/// <summary>
/// Reads the length in little endian byte format from a series of bytes in a stream. The number of bytes is
/// automatically determined from
/// VR.
/// </summary>
/// <param name="vr">the value representation of the element</param>
/// <param name="dr">the binary stream with a current position on the length parameter</param>
/// <returns></returns>
public static int ReadLittleEndian(VR vr, DICOMBinaryReader dr)
{
int length = 0;
switch (VRDictionary.GetEncodingFromVR(vr))
{
case VREncoding.Implicit:
byte[] byteLength = dr.ReadBytes(4);
length = BitConverter.ToInt32(byteLength, 0);
break;
case VREncoding.ExplicitLong:
byteLength = dr.Skip(2).ReadBytes(4);
length = BitConverter.ToInt32(byteLength, 0);
break;
case VREncoding.ExplicitShort:
byteLength = dr.ReadBytes(2);
length = BitConverter.ToUInt16(byteLength, 0);
break;
}
return(length);
}
public static int PeekLittleEndian(VR vr, DICOMBinaryReader dr)
{
var length = 0;
switch (VRDictionary.GetEncodingFromVR(vr))
{
case VREncoding.Implicit:
var byteLength = dr.Peek(4);
length = BitConverter.ToInt32(byteLength, 0);
break;
case VREncoding.ExplicitLong:
byteLength = dr.Peek(6).Skip(2).Take(4).ToArray();
length = BitConverter.ToInt32(byteLength, 0);
break;
case VREncoding.ExplicitShort:
byteLength = dr.Peek(2);
length = BitConverter.ToUInt16(byteLength, 0);
break;
}
return(length);
}
public static DICOMObject ReadObject(DICOMBinaryReader dr, TransferSyntax syntax)
{
List <IDICOMElement> elements = DICOMElementReader.ReadAllElements(dr, syntax);
return(new DICOMObject(elements));
}
private static bool IsEndOfSequenceItemLittleEndian(DICOMBinaryReader dr)
{
byte[] bytes = dr.ReadBytes(8);
return(ByteHelper.AreEqual(bytes, _endOfSequenceItem_LE));
}
private static bool IsEndOfSequenceItemBigEndian(DICOMBinaryReader dr)
{
var bytes = dr.ReadBytes(8);
return(ByteHelper.AreEqual(bytes, _endOfSequenceItem_BE));
}
public static Tag ReadBigEndian(DICOMBinaryReader dr)
{
byte[] tag = dr.ReadBytes(4);
return(CreateTag(tag));
}
public static Tag ReadLittleEndian(DICOMBinaryReader dr)
{
byte[] tag = dr.ReadBytes(4);
tag = new[] { tag[1], tag[0], tag[3], tag[2] };
return(CreateTag(tag));
}