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|
#-----------------------------------------------------------------------------
# We need to test the reading of all dicom images in the gdcmData directory
# First parse this directory and extract all images
set(GDCM_DATA_IMAGE_FILENAMES_GLOB_EXPR
"${GDCM_DATA_ROOT}/*.acr"
"${GDCM_DATA_ROOT}/*.nema"
"${GDCM_DATA_ROOT}/*.dcm"
)
set(GDCM_DATA_DICOMDIR_FILENAMES_GLOB_EXPR
# Those files do not have any extension, special regex:
"${GDCM_DATA_ROOT}/dicomdir*"
)
# Case sensitive system:
if(UNIX)
set(GDCM_DATA_IMAGE_FILENAMES_GLOB_EXPR
${GDCM_DATA_IMAGE_FILENAMES_GLOB_EXPR}
"${GDCM_DATA_ROOT}/*.DCM"
)
set(GDCM_DATA_DICOMDIR_FILENAMES_GLOB_EXPR
${GDCM_DATA_DICOMDIR_FILENAMES_GLOB_EXPR}
"${GDCM_DATA_ROOT}/DICOMDIR*"
)
endif()
# GLOB expression !
file(GLOB GDCM_DATA_IMAGE_FILENAMES_GLOB
${GDCM_DATA_IMAGE_FILENAMES_GLOB_EXPR}
)
# Same for DICOMDIR:
file(GLOB GDCM_DATA_DICOMDIR_FILENAMES_GLOB
${GDCM_DATA_DICOMDIR_FILENAMES_GLOB_EXPR}
)
set(GDCM_DATA_FILENAMES_GLOB
${GDCM_DATA_IMAGE_FILENAMES_GLOB}
${GDCM_DATA_DICOMDIR_FILENAMES_GLOB}
)
# List of images that are technically difficult to read
# Hopefully we will soon be able to read them
set(BLACK_LIST_READER
# grrrrrr do not handle swapping correctly (implicit dataset are such a pain)
LIBIDO-16-ACR_NEMA-Volume.dcm
# Papyrus:
PET-cardio-Multiframe-Papyrus.dcm
# No way to read this image:
ELSCINT1_LOSSLESS_RICE.dcm
# SignedShortLossless has never really been supported anyway:
SignedShortLosslessBug.dcm
# Would need to process ALL Pixel Data element when decompressing:
PET-GE-dicomwrite-PixelDataSQUNv3.dcm
# Toshiba US Private Data Storage 1.2.392.200036.9116.7.8.1.1.1
TOSHIBA_MDW_HEADER.dcm
# TODO, nasty:
PhilipsLosslessRice.dcm
# This file is incorrect
IM-0001-0066.dcm
# Problem with RLE
SIEMENS_GBS_III-16-ACR_NEMA_1.acr
SIEMENS_GBS_III-16-ACR_NEMA_1-ULis2Bytes.dcm
# TestImageChangeTransferSyntax1
MR-MONO2-12-angio-an1.acr
# Openjpeg / Part 2:
lena512_rot90.j2k.dcm
# Remove this one for now:
LengthOfItemLarger.dcm
# https://github.com/team-charls/charls/issues/16
JPEG_LS_InvalidEscapeSequence_COM_padding.dcm
# MITRA_CORNELL
MITRA_CORNELL.dcm
# FIXME
PET-GE-dicomwrite-PixelDataSQUN.dcm
)
if(NOT GDCM_USE_PVRG)
set(BLACK_LIST_READER
# The following should really fails according to JPEG spec, IJG is failing and even when forcing
# decompression using IJG output is different from PVRG...
# Apparently pvrg likes it this way...
# PHILIPS_Gyroscan-12-Jpeg_Extended_Process_2_4.dcm
${BLACK_LIST_READER}
PHILIPS_Gyroscan-12-Jpeg_Extended_Process_2_4.dcm
)
endif()
if(GDCM_WORDS_BIGENDIAN)
set(BLACK_LIST_READER
${BLACK_LIST_READER}
MR_Philips_Intera_PrivateSequenceExplicitVR_in_SQ_2001_e05f_item_wrong_lgt_use_NOSHADOWSEQ.dcm
MR_Philips_Intera_SwitchIndianess_noLgtSQItem_in_trueLgtSeq.dcm
PHILIPS_Intera-16-MONO2-Uncompress.dcm
SIEMENS_MAGNETOM-12-MONO2-GDCM12-VRUN.dcm
PICKER-16-MONO2-No_DicomV3_Preamble.dcm
)
endif()
if(NOT GDCM_SUPPORT_BROKEN_IMPLEMENTATION)
set(BLACK_LIST_READER
${BLACK_LIST_READER}
GE_GENESIS-16-MONO2-WrongLengthItem.dcm # can't read odd length
PHILIPS_GDCM12xBug2.dcm # odd length
KODAK-12-MONO1-Odd_Terminated_Sequence.dcmq # odd length
PrivateGEImplicitVRBigEndianTransferSyntax16Bits.dcm # odd length
PHILIPS_Gyroscan-8-MONO2-Odd_Sequence.dcm # odd length
BugGDCM2_UndefItemWrongVL.dcm # odd length
THERALYS-12-MONO2-Uncompressed-Even_Length_Tag.dcm
CT-SIEMENS-MissingPixelDataInIconSQ.dcm # odd length
00191113.dcm
MR_Philips_Intera_PrivateSequenceImplicitVR.dcm
PICKER-16-MONO2-Nested_icon.dcm
PHILIPS_GDCM12xBug.dcm # odd length
MR_Philips-Intera_BreaksNOSHADOW.dcm
NM_Kakadu44_SOTmarkerincons.dcm
MARCONI_MxTWin-12-MONO2-JpegLossless-ZeroLengthSQ.dcm
)
endif()
set(GDCM_DATA_FILENAMES)
set(GDCM_BLACK_LIST_READER_DATA_FILENAMES)
foreach(filename ${GDCM_DATA_FILENAMES_GLOB})
get_filename_component(filename_name ${filename} NAME)
string(REGEX MATCH ${filename_name} bad_dicom ${BLACK_LIST_READER})
if(NOT bad_dicom)
set(GDCM_DATA_FILENAMES "${GDCM_DATA_FILENAMES}\n\"${filename}\",")
else()
set(GDCM_BLACK_LIST_READER_DATA_FILENAMES "${GDCM_BLACK_LIST_READER_DATA_FILENAMES}\n\"${filename}\",")
endif()
endforeach()
# Populate GDCM_DATA_FILENAMES:
configure_file(
"${CMAKE_CURRENT_SOURCE_DIR}/gdcmDataFileNames.cxx.in"
"${CMAKE_CURRENT_BINARY_DIR}/gdcmDataFileNames.cxx"
)
|
