误差oro.dicom readDICOMFile R中

我想读从超声设备导出的DICOM文件：我获得以下错误误差oro.dicom readDICOMFile R中

library(oro.dicom) 
readDICOMFile('testdcm.dcm')

：

Error in parsePixelData(fraw[(bstart + dcm$data.seek):fsize], hdr, endian, :
Number of bytes in PixelData not specified; guess = 1

与readDICOMFile('testdcm.dcm', debug = TRUE)完整的输出如下：

First 128 bytes of DICOM header = 
[1] 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 
[30] 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 
[59] 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 
[88] 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 
[117] 00 00 00 00 00 00 00 00 00 00 00 00 
# DICM = TRUE 
# 0002 0000 GroupLength UL UL 4 218 
# 0002 0001 FileMetaInformationVersion OB OB 2  
# 0002 0002 MediaStorageSOPClassUID UI UI 28 1.2.840.10008.5.1.4.1.1.6.1 
# 0002 0003 MediaStorageSOPInstanceUID UI UI 48 1.2.250.1.204.5.8373721313.2016112214594330207.0  
# 0002 0010 TransferSyntaxUID UI UI 22 1.2.840.10008.1.2.4.70 
# 0002 0012 ImplementationClassUID UI UI 34 1.2.250.1.204.0.1.20120820.0.3.6.1 
# 0002 0013 ImplementationVersionName SH SH 14 SSI_DCMTK_361 
# 0002 0016 SourceApplicationEntityTitle AE AE 10 XXXXXX 
# 0008 0005 SpecificCharacterSet CS CS 10 ISO_IR 100 
# 0008 0008 ImageType CS CS 16 ORIGINAL PRIMARY  
# 0008 0012 InstanceCreationDate DA DA 8 20161122  
# 0008 0013 InstanceCreationTime TM TM 6 155942 
# 0008 0014 InstanceCreatorUID UI UI 30 1.2.250.1.204.5.8373721313.13 
# 0008 0016 SOPClassUID UI UI 28 1.2.840.10008.5.1.4.1.1.6.1 
# 0008 0018 SOPInstanceUID UI UI 48 1.2.250.1.204.5.8373721313.2016112214594330207.0  
# 0008 0020 StudyDate DA DA 8 20161122  
# 0008 0021 SeriesDate DA DA 8 20161122  
# 0008 0022 AcquisitionDate DA DA 8 20161122  
# 0008 0023 ContentDate DA DA 8 20161122  
# 0008 002A AcquisitionDatetime DT DT 14 20161122155943 
# 0008 0030 StudyTime TM TM 6 155942 
# 0008 0031 SeriesTime TM TM 6 155943 
# 0008 0032 AcquisitionTime TM TM 6 155943 
# 0008 0033 ContentTime TM TM 6 155942 
# 0008 0050 AccessionNumber SH SH 0  
# 0008 0060 Modality CS CS 2 US 
# 0008 0070 Manufacturer LO LO 22 XXXXX 
# 0008 0080 InstitutionName LO LO 20 XXXXX 
# 0008 0081 InstitutionAddress ST ST 0  
# 0008 0090 ReferringPhysiciansName PN PN 0  
# 0008 1010 StationName SH SH 10 aixplorer 
# 0008 1030 StudyDescription LO LO 0  
# 0008 103E SeriesDescription LO LO 6 Muscle 
# 0008 1040 InstitutionalDepartmentName LO LO 58 XXXXX 
# 0008 1048 PhysiciansOfRecord PN PN 0  
# 0008 1050 PerformingPhysiciansName PN PN 0  
# 0008 1070 OperatorsName PN PN 0  
# 0008 1090 ManufacturersModelName LO LO 10 Aixplorer 
# 0008 1111 ReferencedPerformedProcedureStepSequence SQ SQ 94 Sequence  
# FFFE E000 Item UN UN 0  (0008,1111) 
# 0008 1150 ReferencedSOPClassUID UI UI 24 1.2.840.10008.3.1.2.3.3 (0008,1111) 
# 0008 1155 ReferencedSOPInstanceUID UI UI 46 1.2.250.1.204.5.8373721313.2016112214594323292 (0008,1111) 
# 0008 2111 DerivationDescription ST ST 90 Lossless JPEG compression, selection value 1, point transform 0, compression ratio 4.13087 
# 0008 2112 SourceImageSequence SQ SQ 176 Sequence  
# FFFE E000 Item UN UN 0  (0008,2112) 
# 0008 1150 ReferencedSOPClassUID UI UI 28 1.2.840.10008.5.1.4.1.1.6.1 (0008,2112) 
# 0008 1155 ReferencedSOPInstanceUID UI UI 46 1.2.250.1.204.5.8373721313.2016112214594330207 (0008,2112) 
# 0040 A170 PurposeOfReferenceCodeSequence SQ SQ 66 Sequence  (0008,2112) 
# FFFE E000 Item UN UN 0  (0008,2112) (0040,A170) 
# 0008 0100 CodeValue SH SH 6 121320 (0008,2112) (0040,A170) 
# 0008 0102 CodingSchemeDesignator SH SH 4 DCM (0008,2112) (0040,A170) 
# 0008 0104 CodeMeaning LO LO 24 Uncompressed predecessor  (0008,2112) (0040,A170) 
# 0010 0010 PatientsName PN PN 6 20WFV8 
# 0010 0020 PatientID LO LO 20 Aixplorer_217522782 
# 0010 0021 IssuerOfPatientID LO LO 0  
# 0010 0030 PatientsBirthDate DA DA 0  
# 0010 0032 PatientsBirthTime TM TM 0  
# 0010 0040 PatientsSex CS CS 0  
# 0010 1010 PatientsAge AS AS 0  
# 0010 1020 PatientsSize DS DS 0  
# 0010 1030 PatientsWeight DS DS 0  
# 0010 2160 EthnicGroup SH SH 0  
# 0010 21B0 AdditionalPatientHistory LT LT 0  
# 0010 4000 PatientComments LT LT 0  
# 0012 0062 PatientIdentityRemoved CS CS 2 NO 
# 0018 1000 DeviceSerialNumber LO LO 8 SIH1313 
# 0018 1020 SoftwareVersions LO LO 12 11.1.1.1404 
# 0018 1030 ProtocolName LO LO 10 Free Form 
# 0018 5010 TransducerData LO LO 18 SL15-4 MSK Muscle 
# 0018 5100 PatientPosition CS CS 0  
# 0018 6011 SequenceOfUltrasoundRegions SQ SQ 140 Sequence  
# FFFE E000 Item UN UN 0  (0018,6011) 
# 0018 6012 RegionSpatialFormat US US 2 1 (0018,6011) 
# 0018 6014 RegionDataType US US 2 1 (0018,6011) 
# 0018 6016 RegionFlags UL UL 4 2 (0018,6011) 
# 0018 6018 RegionLocationMInX0 UL UL 4 336 (0018,6011) 
# 0018 601A RegionLocationMInY0 UL UL 4 151 (0018,6011) 
# 0018 601C RegionLocationMaxX1 UL UL 4 1064  (0018,6011) 
# 0018 601E RegionLocationMaxY1 UL UL 4 959 (0018,6011) 
# 0018 6024 PhysicalUnitsXDirection US US 2 3 (0018,6011) 
# 0018 6026 PhysicalUnitsYDirection US US 2 3 (0018,6011) 
# 0018 602C PhysicalDeltaX FD FD 8 0.00703188 (0018,6011) 
# 0018 602E PhysicalDeltaY FD FD 8 0.00703188 (0018,6011) 
# 0020 000D StudyInstanceUID UI UI 46 1.2.250.1.204.5.8373721313.2016112214594315435 
# 0020 000E SeriesInstanceUID UI UI 48 1.2.250.1.204.5.8373721313.2016112214594331065.1  
# 0020 0010 StudyID SH SH 14 20161122155942 
# 0020 0011 SeriesNumber IS IS 2 1 
# 0020 0012 AcquisitionNumber IS IS 2 1 
# 0020 0013 InstanceNumber IS IS 2 1 
# 0020 0020 PatientOrientation CS CS 0  
# 0020 0060 Laterality CS CS 0  
# 0028 0002 SamplesperPixel US US 2 3 
# 0028 0004 PhotometricInterpretation CS CS 4 RGB 
# 0028 0006 PlanarConfiguration US US 2 0 
# 0028 0010 Rows US US 2 1080  
# 0028 0011 Columns US US 2 1440  
# 0028 0014 UltrasoundColorDataPresent US US 2 1 
# 0028 0100 BitsAllocated US US 2 8 
# 0028 0101 BitsStored US US 2 8 
# 0028 0102 HighBit US US 2 7 
# 0028 0103 PixelRepresentation US US 2 0 
# 0028 0301 BurnedInAnnotation CS CS 4 YES 
# 0028 2110 LossyImageCompression CS CS 2 00 
# 0038 0010 AdmissionID LO LO 0  
# 0040 0243 PerformedLocation SH SH 6 echo1 
# 0040 0244 PerformedProcedureStepStartDate DA DA 8 20161122  
# 0040 0245 PerformedProcedureStepStartTime TM TM 6 155942 
# 0040 0253 PerformedProcedureStepID SH SH 14 20161122145943 
# 0040 0254 PerformedProcedureStepDescription LO LO 0  
# 0040 0275 RequestAttributesSequence SQ SQ 86 Sequence  
# FFFE E000 Item UN UN 0  (0040,0275) 
# 0008 0050 AccessionNumber SH SH 0  (0040,0275) 
# 0020 000D StudyInstanceUID UI UI 46 1.2.250.1.204.5.8373721313.2016112214594315435 (0040,0275) 
# 0032 1060 RequestedProcedureDescription LO LO 0  (0040,0275) 
# 0040 0007 ScheduledProcedureStepDescription LO LO 0  (0040,0275) 
# 7FE0 0010 PixelData OB OB -1 PixelData 
##### Reading PixelData (7FE0,0010) #####

以前曾有类似的问题报告过Error in Reading DICOM File: Number of bytes in PixelData not specified但未提供经过验证的答案。

的.DCM文件可以在这里下载： https://github.com/dambach/stackoverflowfiles/blob/master/testdcm.dcm

任何想法？

来源

2017-03-17 dambach

[读取DICOM文件时出错：未指定PixelData中的字节数]的可能重复（http://stackoverflow.com/questions/38061167/error-in-reading-dic-dic-file-number-of-bytes- in-pixeldata-not-specified） – malat

许多JPEG类型的图像没有DICOM元素中指示的像素长度。相反，它们使用序列分隔符进行排序。超声波JPEG封装图像数据集尤其如此。

我相信你的图书馆可能没有编码来处理这种情况。

我个人建议尝试其他图书馆，他们都可以在“工业强度”使用，在PACS，VNA的方式，查看工作站等

的Java（Scala的作品太）：dcm4che
C/C++：DCMTK
C＃：FO-DICOM
的JavaScript：基石

我不能Python的劝你， PHP或Ruby。但是dcmtk和dcm4che提供了一套很好的命令行工具来将像素提取到JPEG文件tec中。如果性能不是问题的话，我会将这些打包成系统调用并直接调用它们。

我已经使用了所有这些，并且像素格式得到很好的支持。你应该能够谷歌以上，并能够找到各自的主页。

来源

2017-03-18 04:56:34

R中可以使用这些库吗？ – dambach

从来没有使用R，所以我不能特别评论。虽然这不是最优的，但总是非常可靠的是，只需从R或其他任何地方以命令行的形式调用dcmtk，然后将输出传回到进程中。有些工具可将DICOM数据转换为DICOM JSON格式，因此一旦以这种形式进行处理，您就可以轻松地以熟悉的JSON处理它们。 –

误差oro.dicom readDICOMFile R中

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