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[SCIRUN-USERS] Linux issue, unresolved:

From: Frank Sainsbury <frank@circ.med.utas.edu.au>
To: scirun-users@sci.utah.edu
Subject: [SCIRUN-USERS] Linux issue, unresolved:
Date: Tue, 22 Mar 2005 10:23:52 +1100 (EST)

Hi All
I tried to compile DataIO support on Fedora Core 1 but fails with error?
(Note works with  --enable-package="Teem BioPSE" )  8-).

../src/configure --with-thirdpar
1.24.1/Linux/gcc-3.3.2-32bit --enable-package="Teem BioPSE DataIO"
--with-hdf5=/usr/local/hdf5

../src/Packages/DataIO/Dataflow/Modules/Readers/HDF5DataReader.cc:1317:
error: invalid
   conversion from `hssize_t*' to `const hsize_t*'

Tail of make output follows:
rm -f lib/libPackages_BioPSE_Dataflow_Modules_DataIO.so
g++ -Wl,-rpath
-Wl,/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/lib
-L/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/lib -Llib
-Wall -O2     -shared  -Llib -Wall -O2     -Wl,-rpath
-Wl,/usr/local/SCIRun/di/lib  -Wl,-rpath -Wl,/usr/local/SCIRun/di/lib -o
lib/libPackages_BioPSE_Dataflow_Modules_DataIO.so -Wl,-soname
-Wl,libPackages_BioPSE_Dataflow_Modules_DataIO.so
Packages/BioPSE/Dataflow/Modules/DataIO/RawToDenseMatrix.o
-lCore_Datatypes -lDataflow_Network -lDataflow_Ports -lCore_Persistent
-lCore_Containers -lCore_Util -lCore_Exceptions -lCore_Thread
-lCore_GuiInterface -lCore_Geom -lCore_Geometry -lCore_GeomInterface
-lCore_TkExtensions -lCore_Malloc  -ltk -ltcl -DHAVE_UNISTD_H=1
-DHAVE_LIMITS_H=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TIME_H=1
-DTIME_WITH_SYS_TIME=1 -DHAVE_PW_GECOS=1 -Wl,-rpath -Wl,/usr/X11R6/lib
-L/usr/X11R6/lib -lGLU -lGL -lpthread -lm -Wl,-rpath -Wl,/usr/X11R6/lib
-L/usr/X11R6/lib -lX11 -lXext -lXaw -lXi -lXt -lXmu  -lm
rm -f Packages/BioPSE/StandAlone/convert/ContinuityToTetVolDouble
g++  -Wl,-rpath
-Wl,/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/lib
-L/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/lib -Llib
-Wall -O2     -Wl,-rpath -Wl,/usr/local/SCIRun/di/lib  -o
Packages/BioPSE/StandAlone/convert/ContinuityToTetVolDouble
Packages/BioPSE/StandAlone/convert/ContinuityToTetVolDouble.o
-lCore_Datatypes -lCore_Containers -lCore_Persistent -lCore_Exceptions
-lCore_Thread -lCore_Geometry -lCore_Math -lCore_Util -lCore_Malloc
-lxerces-c -llapack -lblas -lg2c -lg2c -lm
rm -f Packages/BioPSE/StandAlone/convert/EGItoMat
g++  -Wl,-rpath
-Wl,/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/lib
-L/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/lib -Llib
-Wall -O2     -Wl,-rpath -Wl,/usr/local/SCIRun/di/lib  -o
Packages/BioPSE/StandAlone/convert/EGItoMat
Packages/BioPSE/StandAlone/convert/EGItoMat.o -lCore_Datatypes
-lCore_Containers -lCore_Persistent -lCore_Exceptions -lCore_Thread
-lCore_Geometry -lCore_Math -lCore_Util -lCore_Malloc  -lxerces-c -llapack
-lblas -lg2c -lg2c -lm
rm -f Packages/BioPSE/StandAlone/convert/ElectrodeToCurve
g++  -Wl,-rpath
-Wl,/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/lib
-L/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/lib -Llib
-Wall -O2     -Wl,-rpath -Wl,/usr/local/SCIRun/di/lib  -o
Packages/BioPSE/StandAlone/convert/ElectrodeToCurve
Packages/BioPSE/StandAlone/convert/ElectrodeToCurve.o -lCore_Datatypes
-lCore_Containers -lCore_Persistent -lCore_Exceptions -lCore_Thread
-lCore_Geometry -lCore_Math -lCore_Util -lCore_Malloc  -lxerces-c -llapack
-lblas -lg2c -lg2c -lm
rm -f Packages/BioPSE/StandAlone/convert/TextToCurve
g++  -Wl,-rpath
-Wl,/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/lib
-L/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/lib -Llib
-Wall -O2     -Wl,-rpath -Wl,/usr/local/SCIRun/di/lib  -o
Packages/BioPSE/StandAlone/convert/TextToCurve
Packages/BioPSE/StandAlone/convert/TextToCurve.o -lCore_Datatypes
-lCore_Containers -lCore_Persistent -lCore_Exceptions -lCore_Thread
-lCore_Geometry -lCore_Math -lCore_Util -lCore_Malloc  -lxerces-c -llapack
-lblas -lg2c -lg2c -lm
rm -f lib/libPackages_DataIO_Core_ThirdParty.so
g++ -Wl,-rpath
-Wl,/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/lib
-L/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/lib -Llib
-Wall -O2     -shared  -Llib -Wall -O2     -Wl,-rpath
-Wl,/usr/local/SCIRun/di/lib  -Wl,-rpath -Wl,/usr/local/SCIRun/di/lib -o
lib/libPackages_DataIO_Core_ThirdParty.so -Wl,-soname
-Wl,libPackages_DataIO_Core_ThirdParty.so
Packages/DataIO/Core/ThirdParty/mdsPlusAPI.o
Packages/DataIO/Core/ThirdParty/mdsPlusReader.o -lCore_Persistent
-lCore_Containers -lCore_Util -lCore_Exceptions -lCore_Thread
-lCore_GuiInterface -lCore_Geom -lCore_Datatypes -lCore_Geometry
-lCore_GeomInterface -lCore_TkExtensions -lDataflow_Network
-lDataflow_Ports -lCore_Malloc  -ltk -ltcl -DHAVE_UNISTD_H=1
-DHAVE_LIMITS_H=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TIME_H=1
-DTIME_WITH_SYS_TIME=1 -DHAVE_PW_GECOS=1 -Wl,-rpath -Wl,/usr/X11R6/lib
-L/usr/X11R6/lib -lGLU -lGL -lpthread -lm -Wl,-rpath -Wl,/usr/X11R6/lib
-L/usr/X11R6/lib -lX11 -lXext -lXaw -lXi -lXt -lXmu  -lm -Wl,-rpath
-Wl,/usr/local/hdf5/lib -L/usr/local/hdf5/lib -lhdf5
rm -f Packages/DataIO/Dataflow/Modules/Readers/MDSPlusDataReader.o
g++ -Wall -O2
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/include
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/src/tcl8.3.2/generic
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/src/tk8.3.2/generic
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/src/tk8.3.2/unix
-I../src/include -I../src -I. -I./include -I../src/Packages
-I/usr/X11R6/include
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/include
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/include
-I/usr/include/freetype2  -I/usr/include/freetype2
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/include
-I/usr/include/freetype2
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/include
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/include
-I/usr/include/freetype2
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/include
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/include
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/include
-I/usr/local/hdf5/include  -MD  -c
../src/Packages/DataIO/Dataflow/Modules/Readers/MDSPlusDataReader.cc -o
Packages/DataIO/Dataflow/Modules/Readers/MDSPlusDataReader.o
../src/Packages/DataIO/Dataflow/Modules/Readers/MDSPlusDataReader.cc: In
member
   function `SCIRun::NrrdDataHandle
   DataIO::MDSPlusDataReader::readDataset(std::string&, std::string&,
int&,
   std::string&)':
../src/Packages/DataIO/Dataflow/Modules/Readers/MDSPlusDataReader.cc:967:
warning: control
   reaches end of non-void function
rm -f Packages/DataIO/Dataflow/Modules/Readers/HDF5DataReader.o
g++ -Wall -O2
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/include
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/src/tcl8.3.2/generic
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/src/tk8.3.2/generic
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/src/tk8.3.2/unix
-I../src/include -I../src -I. -I./include -I../src/Packages
-I/usr/X11R6/include
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/include
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/include
-I/usr/include/freetype2  -I/usr/include/freetype2
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/include
-I/usr/include/freetype2
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/include
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/include
-I/usr/include/freetype2
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/include
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/include
-I/usr/local/SCIRun/Thirdparty/1.24.1/Linux/gcc-3.3.2-32bit/include
-I/usr/local/hdf5/include  -MD  -c
../src/Packages/DataIO/Dataflow/Modules/Readers/HDF5DataReader.cc -o
Packages/DataIO/Dataflow/Modules/Readers/HDF5DataReader.o
../src/Packages/DataIO/Dataflow/Modules/Readers/HDF5DataReader.cc: In
member
   function `SCIRun::NrrdDataHandle
   DataIO::HDF5DataReader::readDataset(std::basic_string<char,
   std::char_traits<char>, std::allocator<char> >, std::basic_string<char,
   std::char_traits<char>, std::allocator<char> >, std::basic_string<char,
   std::char_traits<char>, std::allocator<char> >)':
../src/Packages/DataIO/Dataflow/Modules/Readers/HDF5DataReader.cc:1303:
error: invalid
   conversion from `hssize_t*' to `const hsize_t*'
../src/Packages/DataIO/Dataflow/Modules/Readers/HDF5DataReader.cc:1317:
error: invalid
   conversion from `hssize_t*' to `const hsize_t*'
make: *** [Packages/DataIO/Dataflow/Modules/Readers/HDF5DataReader.o]
Error 1

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== Please acknowledge use of SCIRun in your papers and reports:          ==
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===========================================================================

[SCIRUN-USERS] Linux issue, unresolved:, Frank Sainsbury, 03/21/2005

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