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Update to 2.0.18

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Drop upstreamed patches
Add -DGDCM_USE_SYSTEM_CHARLS=ON
epel9
Orion Poplawski 13 years ago
parent e084ac6607
commit 24032edaf0
8 changed files with 10 additions and 342 deletions
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34
FindCharLS.cmake
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@ -1,34 +0,0 @@
FIND_PATH(CHARLS_INCLUDE_DIR CharLS/interface.h
/usr/local/include
/usr/include
)
FIND_LIBRARY(CHARLS_LIBRARY
NAMES CharLS
PATHS /usr/lib /usr/local/lib /usr/lib64 /usr/local/lib64
)
IF (CHARLS_LIBRARY AND CHARLS_INCLUDE_DIR)
SET(CHARLS_LIBRARIES ${CHARLS_LIBRARY})
SET(CHARLS_INCLUDE_DIRS ${CHARLS_INCLUDE_DIR})
SET(CHARLS_FOUND "YES")
ELSE (CHARLS_LIBRARY AND CHARLS_INCLUDE_DIR)
SET(CHARLS_FOUND "NO")
ENDIF (CHARLS_LIBRARY AND CHARLS_INCLUDE_DIR)
IF (CHARLS_FOUND)
IF (NOT CHARLS_FIND_QUIETLY)
MESSAGE(STATUS "Found CHARLS: ${CHARLS_LIBRARIES}")
ENDIF (NOT CHARLS_FIND_QUIETLY)
ELSE (CHARLS_FOUND)
IF (CHARLS_FIND_REQUIRED)
MESSAGE(FATAL_ERROR "Could not find CHARLS library")
ENDIF (CHARLS_FIND_REQUIRED)
ENDIF (CHARLS_FOUND)
MARK_AS_ADVANCED(
CHARLS_LIBRARIES
CHARLS_INCLUDE_DIR
)

58
gdcm-2.0.16-JlsParameters.patch
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@ -1,58 +0,0 @@
diff --git a/Source/MediaStorageAndFileFormat/gdcmJPEGLSCodec.cxx b/Source/MediaStorageAndFileFormat/gdcmJPEGLSCodec.cxx
index 4d38bef..48a52ac 100644
--- a/Source/MediaStorageAndFileFormat/gdcmJPEGLSCodec.cxx
+++ b/Source/MediaStorageAndFileFormat/gdcmJPEGLSCodec.cxx
@@ -72,7 +72,7 @@ bool JPEGLSCodec::GetHeaderInfo(std::istream &is, TransferSyntax &ts)
is.seekg(0, std::ios::beg);
is.read( dummy_buffer, buf_size);
- JlsParamaters metadata;
+ JlsParameters metadata;
if (JpegLsReadHeader(dummy_buffer, buf_size, &metadata) != OK)
{
return false;
@@ -160,7 +160,7 @@ bool JPEGLSCodec::Decode(DataElement const &in, DataElement &out)
sf->GetBuffer(buffer, totalLen);
//is.write(buffer, totalLen);
- JlsParamaters metadata;
+ JlsParameters metadata;
if (JpegLsReadHeader(buffer, totalLen, &metadata) != OK)
{
return false;
@@ -172,7 +172,7 @@ bool JPEGLSCodec::Decode(DataElement const &in, DataElement &out)
const BYTE* pbyteCompressed = (const BYTE*)buffer;
int cbyteCompressed = totalLen;
- JlsParamaters params = {0};
+ JlsParameters params = {0};
JpegLsReadHeader(pbyteCompressed, cbyteCompressed, &params);
std::vector<BYTE> rgbyteCompressed;
@@ -216,7 +216,7 @@ bool JPEGLSCodec::Decode(DataElement const &in, DataElement &out)
// what if 0xd9 is never found ?
assert( totalLen > 0 && pbyteCompressed[totalLen-1] == 0xd9 );
- JlsParamaters metadata;
+ JlsParameters metadata;
if (JpegLsReadHeader(mybuffer, totalLen, &metadata) != OK)
{
return false;
@@ -228,7 +228,7 @@ bool JPEGLSCodec::Decode(DataElement const &in, DataElement &out)
int cbyteCompressed = totalLen;
- JlsParamaters params = {0};
+ JlsParameters params = {0};
JpegLsReadHeader(pbyteCompressed, cbyteCompressed, &params);
std::vector<BYTE> rgbyteCompressed;
@@ -293,7 +293,7 @@ bool JPEGLSCodec::Code(DataElement const &in, DataElement &out)
{
const char *inputdata = input + dim * image_len; //bv->GetPointer();
- JlsParamaters params = {};
+ JlsParameters params = {};
/*
The fields in JlsCustomParameters do not control lossy/lossless. They
provide the possiblity to tune the JPEG-LS internals for better compression

22
gdcm-2.0.16-fix-decode.patch
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@ -1,22 +0,0 @@
diff --git a/Source/MediaStorageAndFileFormat/gdcmJPEGLSCodec.cxx b/Source/MediaStorageAndFileFormat/gdcmJPEGLSCodec.cxx
index d51832f..4d38bef 100644
--- a/Source/MediaStorageAndFileFormat/gdcmJPEGLSCodec.cxx
+++ b/Source/MediaStorageAndFileFormat/gdcmJPEGLSCodec.cxx
@@ -181,7 +181,7 @@ bool JPEGLSCodec::Decode(DataElement const &in, DataElement &out)
std::vector<BYTE> rgbyteOut;
rgbyteOut.resize(params.height *params.width * ((params.bitspersample + 7) / 8) * params.components);
- JLS_ERROR result = JpegLsDecode(&rgbyteOut[0], rgbyteOut.size(), pbyteCompressed, cbyteCompressed);
+ JLS_ERROR result = JpegLsDecode(&rgbyteOut[0], rgbyteOut.size(), pbyteCompressed, cbyteCompressed, &params);
ASSERT(result == OK);
delete[] buffer;
@@ -237,7 +237,7 @@ bool JPEGLSCodec::Decode(DataElement const &in, DataElement &out)
std::vector<BYTE> rgbyteOut;
rgbyteOut.resize(params.height *params.width * ((params.bitspersample + 7) / 8) * params.components);
- JLS_ERROR result = JpegLsDecode(&rgbyteOut[0], rgbyteOut.size(), pbyteCompressed, cbyteCompressed);
+ JLS_ERROR result = JpegLsDecode(&rgbyteOut[0], rgbyteOut.size(), pbyteCompressed, cbyteCompressed, &params);
ASSERT(result == OK);
bool r = true;

12
gdcm-2.0.16-fix_ptrdiff.patch
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@ -1,12 +0,0 @@
diff --git a/gdcm-2.0.16/Wrapping/Python/gdcmswig.i b/gdcm-2.0.16/Wrapping/Python/gdcmswig.i
index 6a5a5c7..26c8ba5 100644
--- a/gdcm-2.0.16/Wrapping/Python/gdcmswig.i
+++ b/gdcm-2.0.16/Wrapping/Python/gdcmswig.i
@@ -27,6 +27,7 @@
// "There is no option to suppress all SWIG warning messages."
#pragma SWIG nowarn=302,303,312,362,383,389,401,503,504,509,510,514,516
%{
+#include <cstddef> // ptrdiff_t
#include "gdcmTypes.h"
#include "gdcmASN1.h"
#include "gdcmSmartPointer.h"

13
gdcm-2.0.16-remove-stdafx.patch
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@ -1,13 +0,0 @@
diff --git a/Source/MediaStorageAndFileFormat/gdcmJPEGLSCodec.cxx b/Source/MediaStorageAndFileFormat/gdcmJPEGLSCodec.cxx
index aae07ed..3f1fa8b 100644
--- a/Source/MediaStorageAndFileFormat/gdcmJPEGLSCodec.cxx
+++ b/Source/MediaStorageAndFileFormat/gdcmJPEGLSCodec.cxx
@@ -19,7 +19,7 @@
// CharLS includes
#ifdef GDCM_USE_SYSTEM_EXPAT
-#include "CharLS/stdafx.h" // sigh...
+//#include "CharLS/stdafx.h" // sigh...
#include "CharLS/interface.h"
#include "CharLS/util.h"
#include "CharLS/defaulttraits.h"

83
gdcm-2.0.17-use_openjpeg_1x.patch
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@ -1,83 +0,0 @@
diff --git a/CMakeLists.txt b/CMakeLists.txt
index 93a2a24..7076a45 100644
--- a/CMakeLists.txt
+++ b/CMakeLists.txt
@@ -305,7 +305,7 @@ IF(GDCM_USE_SYSTEM_OPENJPEG)
# For some reason I cannot specify the version I want.
# FIND_PACKAGE(OpenJPEG 2.0 REQUIRED)
# oh well we should handle both 1.0 and 2.0 anyway...
- #FIND_PACKAGE(OpenJPEG REQUIRED)
+ FIND_PACKAGE(OpenJPEG REQUIRED)
SET(GDCM_OPENJPEG_LIBRARIES ${OPENJPEG_LIBRARIES})
ELSE(GDCM_USE_SYSTEM_OPENJPEG)
SET(GDCM_OPENJPEG_LIBRARIES gdcmopenjpeg)
@@ -758,6 +758,11 @@ IF(EXISTS "${CMAKE_ROOT}/Modules/CPack.cmake")
set(CPACK_COMPONENT_GROUP_DEVELOPMENT_DESCRIPTION
"All of the tools you'll ever need to develop software using GDCM")
+ if(CMAKE_VERSION VERSION_EQUAL 2.8.3)
+ # The following is needed for CMake 2.8.3 and above to preserve backward compat
+ set(CPACK_MONOLITHIC_INSTALL 1)
+ endif(CMAKE_VERSION VERSION_EQUAL 2.8.3)
+
# It doesn't make sense to install the headers without the libraries
# (because you could never use the headers!), so make the headers component
# depend on the libraries component.
diff --git a/Source/Common/gdcmConfigure.h.in b/Source/Common/gdcmConfigure.h.in
index a203235..534845a 100644
--- a/Source/Common/gdcmConfigure.h.in
+++ b/Source/Common/gdcmConfigure.h.in
@@ -63,8 +63,7 @@
#ifndef GDCM_USE_SYSTEM_OPENJPEG
#define OPENJPEG_MAJOR_VERSION 2
#else
-//#define OPENJPEG_MAJOR_VERSION @OPENJPEG_MAJOR_VERSION@
-#define OPENJPEG_MAJOR_VERSION 2
+#define OPENJPEG_MAJOR_VERSION @OPENJPEG_MAJOR_VERSION@
#endif //GDCM_USE_SYSTEM_OPENJPEG
#ifndef OPENJPEG_MAJOR_VERSION
diff --git a/Source/Common/gdcmCryptographicMessageSyntax.cxx b/Source/Common/gdcmCryptographicMessageSyntax.cxx
index ec48f40..054d72a 100644
--- a/Source/Common/gdcmCryptographicMessageSyntax.cxx
+++ b/Source/Common/gdcmCryptographicMessageSyntax.cxx
@@ -102,8 +102,8 @@ public:
::X509 *ret = sk_X509_value(recips, i);
return ret;
}
- void SetPrivateKey(::EVP_PKEY* pkey) {
- this->pkey = pkey;
+ void SetPrivateKey(::EVP_PKEY* thepkey) {
+ this->pkey = thepkey;
}
::EVP_PKEY* GetPrivateKey() const {
return pkey;
diff --git a/Source/MediaStorageAndFileFormat/gdcmJPEG2000Codec.cxx b/Source/MediaStorageAndFileFormat/gdcmJPEG2000Codec.cxx
index 4c6d95b..3b6c1b6 100644
--- a/Source/MediaStorageAndFileFormat/gdcmJPEG2000Codec.cxx
+++ b/Source/MediaStorageAndFileFormat/gdcmJPEG2000Codec.cxx
@@ -446,6 +446,7 @@ bool JPEG2000Codec::Decode(std::istream &is, std::ostream &os)
return false;
}
+ int reversible;
#if OPENJPEG_MAJOR_VERSION == 1
/* catch events using our callbacks and give a local context */
opj_set_event_mgr((opj_common_ptr)dinfo, &event_mgr, NULL);
@@ -484,7 +485,6 @@ bool JPEG2000Codec::Decode(std::istream &is, std::ostream &os)
/* setup the decoder decoding parameters using user parameters */
opj_setup_decoder(dinfo, &parameters);
bool bResult;
- int reversible;
OPJ_INT32 l_tile_x0,l_tile_y0;
OPJ_UINT32 l_tile_width,l_tile_height,l_nb_tiles_x,l_nb_tiles_y;
bResult = opj_read_header(
@@ -586,7 +586,7 @@ bool JPEG2000Codec::Decode(std::istream &is, std::ostream &os)
unsigned long len = Dimensions[0]*Dimensions[1] * (PF.GetBitsAllocated() / 8) * image->numcomps;
char *raw = new char[len];
//assert( len == fsrc->len );
- for (unsigned int compno = 0; compno < image->numcomps; compno++)
+ for (unsigned int compno = 0; compno < (unsigned int)image->numcomps; compno++)
{
opj_image_comp_t *comp = &image->comps[compno];

102
gdcm-2.0.17-use_system_charls
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@ -1,102 +0,0 @@
diff --git a/CMakeLists.txt b/CMakeLists.txt
index 75bc60f..29f5802 100644
--- a/CMakeLists.txt
+++ b/CMakeLists.txt
@@ -271,6 +271,12 @@ ENDIF(UNIX)
OPTION(GDCM_USE_SYSTEM_EXPAT "Use system expat" OFF)
OPTION(GDCM_USE_SYSTEM_LJPEG "Use system ljpeg (ijg lib)" OFF)
OPTION(GDCM_USE_SYSTEM_OPENJPEG "Use system openjpeg (1.x)" OFF)
+
+IF(GDCM_USE_JPEGLS)
+ OPTION(GDCM_USE_SYSTEM_JPEGLS "Use system JPEGLS (CharLS)" OFF)
+ MARK_AS_ADVANCED(GDCM_USE_SYSTEM_JPEGLS)
+ENDIF(GDCM_USE_JPEGLS)
+
MARK_AS_ADVANCED(GDCM_USE_SYSTEM_ZLIB GDCM_USE_SYSTEM_UUID GDCM_USE_SYSTEM_EXPAT GDCM_USE_SYSTEM_OPENSSL)
MARK_AS_ADVANCED(GDCM_USE_SYSTEM_OPENJPEG GDCM_USE_SYSTEM_LJPEG)
OPTION(GDCM_USE_SYSTEM_POPPLER "Use system poppler (pdf)" OFF)
@@ -305,6 +311,13 @@ ELSE(GDCM_USE_SYSTEM_OPENJPEG)
SET(GDCM_OPENJPEG_LIBRARIES gdcmopenjpeg)
ENDIF(GDCM_USE_SYSTEM_OPENJPEG)
+IF(GDCM_USE_SYSTEM_JPEGLS)
+ FIND_PACKAGE(CharLS REQUIRED)
+ SET(GDCM_CHARLS_LIBRARIES ${CHARLS_LIBRARIES})
+ELSE(GDCM_USE_SYSTEM_JPEGLS)
+ SET(GDCM_CHARLS_LIBRARIES gdcmcharls)
+ENDIF(GDCM_USE_SYSTEM_JPEGLS)
+
# Very advanced user option:
# This will cause building of the broken JPEG library released by the Standford PVRG group:
OPTION(GDCM_USE_PVRG "Use pvrg lib, only turn it on if you know what you are doing." OFF)
diff --git a/Source/MediaStorageAndFileFormat/CMakeLists.txt b/Source/MediaStorageAndFileFormat/CMakeLists.txt
index 290a5b7..3eee74c 100644
--- a/Source/MediaStorageAndFileFormat/CMakeLists.txt
+++ b/Source/MediaStorageAndFileFormat/CMakeLists.txt
@@ -141,7 +141,7 @@ ADD_LIBRARY(gdcmMSFF ${MSFF_SRCS})
TARGET_LINK_LIBRARIES(gdcmMSFF gdcmIOD gdcmDSED gdcmDICT ${GDCM_LJPEG_LIBRARIES} ${GDCM_OPENJPEG_LIBRARIES})
SET_TARGET_PROPERTIES(gdcmMSFF PROPERTIES ${GDCM_LIBRARY_PROPERTIES} LINK_INTERFACE_LIBRARIES "gdcmDSED;gdcmDICT;gdcmIOD")
IF(GDCM_USE_JPEGLS)
- TARGET_LINK_LIBRARIES(gdcmMSFF gdcmcharls)
+ TARGET_LINK_LIBRARIES(gdcmMSFF ${GDCM_CHARLS_LIBRARIES})
ENDIF(GDCM_USE_JPEGLS)
IF(CMAKE_COMPILER_IS_GNUCXX AND MINGW)
diff --git a/Source/MediaStorageAndFileFormat/gdcmJPEGLSCodec.cxx b/Source/MediaStorageAndFileFormat/gdcmJPEGLSCodec.cxx
index fda51bc..aae07ed 100644
--- a/Source/MediaStorageAndFileFormat/gdcmJPEGLSCodec.cxx
+++ b/Source/MediaStorageAndFileFormat/gdcmJPEGLSCodec.cxx
@@ -18,6 +18,16 @@
#include "gdcmDataElement.h"
// CharLS includes
+#ifdef GDCM_USE_SYSTEM_EXPAT
+#include "CharLS/stdafx.h" // sigh...
+#include "CharLS/interface.h"
+#include "CharLS/util.h"
+#include "CharLS/defaulttraits.h"
+#include "CharLS/losslesstraits.h"
+#include "CharLS/colortransform.h"
+#include "CharLS/streams.h"
+#include "CharLS/processline.h"
+#else
#include "gdcmcharls/stdafx.h" // sigh...
#include "gdcmcharls/interface.h"
#include "gdcmcharls/util.h"
@@ -26,7 +36,7 @@
#include "gdcmcharls/colortransform.h"
#include "gdcmcharls/streams.h"
#include "gdcmcharls/processline.h"
-
+#endif
namespace gdcm
{
diff --git a/Utilities/CMakeLists.txt b/Utilities/CMakeLists.txt
index 8ade58c..8b417aa 100644
--- a/Utilities/CMakeLists.txt
+++ b/Utilities/CMakeLists.txt
@@ -33,14 +33,17 @@ IF(NOT GDCM_USE_SYSTEM_OPENJPEG)
ENDIF(NOT GDCM_USE_SYSTEM_OPENJPEG)
# Do jpegls (JPEG-LS aka near lossless implementation)
+
APPEND_COPYRIGHT(${CMAKE_CURRENT_SOURCE_DIR}/gdcmcharls/License.txt)
IF(GDCM_USE_JPEGLS)
- SET(CHARLS_NAMESPACE "GDCMCHARLS")
- SET(CHARLS_INSTALL_NO_LIBRARIES ${GDCM_INSTALL_NO_LIBRARIES})
- SET(CHARLS_INSTALL_BIN_DIR ${GDCM_INSTALL_BIN_DIR})
- SET(CHARLS_INSTALL_LIB_DIR ${GDCM_INSTALL_LIB_DIR})
- SET(CHARLS_INSTALL_INCLUDE_DIR ${GDCM_INSTALL_INCLUDE_DIR}/gdcmcharls)
- SUBDIRS(gdcmcharls)
+ IF(NOT GDCM_USE_SYSTEM_JPEGLS)
+ SET(CHARLS_NAMESPACE "GDCMCHARLS")
+ SET(CHARLS_INSTALL_NO_LIBRARIES ${GDCM_INSTALL_NO_LIBRARIES})
+ SET(CHARLS_INSTALL_BIN_DIR ${GDCM_INSTALL_BIN_DIR})
+ SET(CHARLS_INSTALL_LIB_DIR ${GDCM_INSTALL_LIB_DIR})
+ SET(CHARLS_INSTALL_INCLUDE_DIR ${GDCM_INSTALL_INCLUDE_DIR})
+ SUBDIRS(gdcmcharls)
+ ENDIF(NOT GDCM_USE_SYSTEM_JPEGLS)
ENDIF(GDCM_USE_JPEGLS)
# Do md5

28
gdcm.spec
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@ -5,27 +5,20 @@
}
Name: gdcm
Version: 2.0.17
Release: 9%{?dist}
Version: 2.0.18
Release: 1%{?dist}
Summary: Grassroots DiCoM is a C++ library to parse DICOM medical files
Group: Development/Libraries
License: BSD
URL: http://sourceforge.net/apps/mediawiki/gdcm/index.php?title=Main_Page
Source0: http://sourceforge.net/projects/gdcm/files/gdcm%202.x/GDCM%202.0.17/gdcm-2.0.17.tar.bz2
Source0: http://sourceforge.net/projects/gdcm/files/gdcm%202.x/GDCM%20%{version}/gdcm-%{version}.tar.bz2
#Source1: http://downloads.sourceforge.net/project/gdcm/gdcmData/gdcmData/gdcmData.tar.bz2
Source2: FindCharLS.cmake
# There is a bug in doxygen preventing compilation on:
ExcludeArch: ppc ppc64
Patch1: gdcm-2.0.14-inplacebuild.patch
Patch2: gdcm-2.0.14-usecopyright.patch
Patch3: gdcm-2.0.16-fix_ptrdiff.patch
Patch4: gdcm-2.0.16-fix-decode.patch
Patch5: gdcm-2.0.16-JlsParameters.patch
Patch6: gdcm-2.0.17-install2libarch.patch
Patch7: gdcm-2.0.17-use_openjpeg_1x.patch
Patch8: gdcm-2.0.17-use_system_charls
Patch9: gdcm-2.0.16-remove-stdafx.patch
Patch10: gdcm-2.0.17-no_versioned_dir.patch
BuildRequires: cmake >= 2.6.0
@ -84,13 +77,7 @@ used this library with python
%setup -q
%patch1
%patch2
%patch3 -p 2
%patch4 -p 1
%patch5 -p 1
%patch6 -p 1
%patch7 -p 1
%patch8 -p 1
%patch9 -p 1
%patch10 -p 1
# Remove bundled utilities (we use Fedora's ones)
@ -108,7 +95,6 @@ rm -rf Utilities/pvrg
rm -rf Utilities/rle
rm -rf Utilities/wxWidgets
cp %{SOURCE2} CMake/
%build
%cmake -DCMAKE_VERBOSE_MAKEFILE=ON \
@ -123,6 +109,7 @@ cp %{SOURCE2} CMake/
-DGDCM_BUILD_APPLICATIONS:BOOL=ON \
-DCMAKE_BUILD_TYPE:STRING="Release" \
-DGDCM_USE_VTK:BOOL=ON \
-DGDCM_USE_SYSTEM_CHARLS=ON \
-DGDCM_USE_SYSTEM_EXPAT=ON \
-DGDCM_USE_SYSTEM_OPENJPEG=ON \
-DGDCM_USE_SYSTEM_ZLIB=ON \
@ -131,7 +118,7 @@ cp %{SOURCE2} CMake/
-DGDCM_USE_SYSTEM_OPENSSL=ON \
-DGDCM_USE_JPEGLS=ON \
-DGDCM_USE_SYSTEM_JPEGLS=ON \
-DGDCM_USE_SYSTEM_POPPLER=ON .
-DGDCM_USE_SYSTEM_POPPLER=ON .
#Cannot build wrap_java:
# -DGDCM_VTK_JAVA_JAR:PATH=/usr/share/java/vtk.jar no found!
@ -184,6 +171,11 @@ ctest .
%{python_sitelib}/*
%changelog
* Tue Nov 01 2011 Orion Poplawski <orion@cora.nwra.com> - 2.0.18-1
- Update to 2.0.18
- Drop upstreamed patches
- Add -DGDCM_USE_SYSTEM_CHARLS=ON
* Fri Oct 28 2011 Rex Dieter <rdieter@fedoraproject.org> - 2.0.17-9
- rebuild(poppler)

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