Basta instalar os pacotes certos:
sudo apt-get install sfftw-dev
sudo apt-get install libhdf5-dev
Como você pode ver abaixo, estou tendo erros com hdf5.h fftw.h e dfttw.h. Nenhum desses está sendo encontrado e eu especifiquei lá locais, exceto dfttw.h desde que eu não posso encontrar isso em qualquer lugar. Também estou tendo enormes quantidades de erros de versão, mas não consigo encontrar exatamente quais versões são necessárias.
~/Documents/xoopic$ TCL_LIBDIR_PATH=/usr/lib/x86_64-linux-gnu/ TK_LIBDIR_PATH=/usr/lib/x86_64-linux-gnu/ ./configure --with-tclsh=/usr/bin/tclsh8.5 --with-tclconfig=/usr/lib/tcl8.5 --with-tkconfig=/usr/lib/tk8.5 --with-tclhdir=/usr/include/tcl8.5 --with-tkhdir=/usr/include/tcl8.5 --with-sfftw-incdir=/usr/include/sfftw.h --with-hdf5-incdir=/usr/include/hdf5/serial/hdf5.h
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /bin/mkdir -p
checking for gawk... no
checking for mawk... mawk
checking whether make sets $(MAKE)... yes
checking whether to enable maintainer-specific portions of Makefiles... no
checking build system type... x86_64-unknown-linux-gnu
checking host system type... x86_64-unknown-linux-gnu
using HDF5? ... yes
checking for hdf5.h... no
configure: WARNING: hdf5.h not found in /usr/include/hdf5/serial/hdf5.h. Use --with-hdf5-incdir=
grep: /usr/include/hdf5/serial/hdf5.h/H5pubconf.h: Not a directory
Failed to find serial build of HDF5 in obvious location. Setting _SERIAL vars
to be the same as the parallel vars so as not to break the vpdatanal builds.
configure: WARNING: hdf5 not properly installed -- Turning off hdf5.
Using C++ compiler g++
Using C compiler gcc
checking for style of include used by make... GNU
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking dependency style of gcc... gcc3
checking for library containing strerror... none required
checking whether time.h and sys/time.h may both be included... yes
checking for BSD-compatible nm...
install-sh/usr/bin/nm -B
Setting the flags per system and C++ compiler: g++
checking for g++... /usr/bin/g++
Serial C++ compiler is 'g++'
checking g++ version... g++
configure: WARNING: Caution: version is not known to work.
checking for -fsquangle... no
checking how to build libraries... with ar cr
checking for gcc... /usr/bin/gcc
Serial C compiler is 'gcc'
checking for gcc... (cached) gcc
checking whether we are using the GNU C compiler... (cached) yes
checking whether gcc accepts -g... (cached) yes
checking for gcc option to accept ISO C89... (cached) none needed
checking dependency style of gcc... (cached) gcc3
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking dependency style of g++... gcc3
checking how to run the C preprocessor... gcc -E
checking how to run the C++ preprocessor... g++ -E
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking iostream usability... yes
checking iostream presence... yes
checking for iostream... yes
checking strstream usability... yes
checking strstream presence... yes
checking for strstream... yes
checking fstream usability... yes
checking fstream presence... yes
checking for fstream... yes
checking sstream usability... yes
checking sstream presence... yes
checking for sstream... yes
checking for size_t... yes
checking whether struct tm is in sys/time.h or time.h... time.h
Calling config/macros.m4
Calling config/cxx.m4
checking whether c++ compiler supports exception handling... yes
checking whether c++ compiler supports typename... yes
checking whether c++ compiler can explicitly instantiate templates... yes
checking whether c++ compiler supports RTTI... yes
checking whether c++ compiler supports namespaces... yes
checking whether c++ compiler has complex in the namespace std... yes
checking whether c++ compiler has streams in the namespace std... yes
checking whether c++ compiler can overload const type conversions... yes
checking whether c++ compiler knows mutable... yes
checking whether template friends need brackets... yes
checking whether nontype template operators are allowed... no
checking whether static variables can be declared generally... yes
config/cxx.m4 finished
checking whether make sets $(MAKE)... (cached) yes
checking whether ln -s works... yes
checking for ranlib... ranlib
checking what the library suffix is... .a
checking how to install libraries... with ${INSTALL} -m 644
configure: WARNING: x11.m4 is obsolete. Please use AC_PATH_X or AC_PATH_XTRA.
checking for X11/Xlib.h... /usr/include/X11/Xlib.h
checking for libX11.a... /usr/lib/x86_64-linux-gnu/libX11.a
checking for libXpm.a... /usr/lib/x86_64-linux-gnu/libXpm.a
checking for libXGC250.a... /usr/local/lib/libXGC250.a
checking for xgrafix.h... /usr/local/include/xgrafix.h
checking for xgscalar.h... /usr/local/include/xgscalar.h
checking for SCALAR in /usr/local/include/xgscalar.h... #define SCALAR double
checking for tclsh... /usr/bin/tclsh8.5
checking for tclConfig.sh... /usr/lib/tcl8.5/tclConfig.sh
checking for tkConfig.sh... /usr/lib/tk8.5/tkConfig.sh
checking for libtcl8.5.a... /usr/lib/x86_64-linux-gnu/
checking for libtk8.5.a... /usr/lib/x86_64-linux-gnu/
checking for up-to-date Tcl version in tcl.h... 8.5
Warning: The Tcl version in /usr/include/tcl8.5/tcl.h is not in the legal Tcl versions list!
tcl_version: NONE
TCL_MAJOR_VERSION: 8
TCL_MINOR_VERSION: 5
checking for up-to-date Tk version in tk.h... 8.5
Warning: The Tk version in /usr/include/tcl8.5/tcl.h is not in the legal Tk versions list!
tk_version: NONE
TK_MAJOR_VERSION: 8
TK_MINOR_VERSION: 5
Checking for fftw...
checking for dfftw.h... no
configure: WARNING: dfftw.h not found in /home/nickallen/include:/usr/local/fftw/include:/loc/fftw/include:/local/fftw/include:/usr/common/usg/include:/usr/include. Set location with --with-dfftw-incdir=
checking for sfftw.h... no
configure: WARNING: sfftw.h not found in /usr/include/sfftw.h. Set location with --with-sfftw-incdir=
Making Makefiles
configure: creating ./config.status
config.status: creating Makefile
config.status: creating otools/Makefile
config.status: creating advisor/Makefile
config.status: creating physics/Makefile
config.status: creating xg/Makefile
config.status: creating config/Makefile
config.status: creating ./config.h
config.status: ./config.h is unchanged
config.status: executing depfiles commands
Eu consertei os problemas relacionados a fftw.h, dfftw.h e hdf5. A única questão que me resta é que não encontra gawk e h5diff. Você sabe se isso afetará de alguma forma?
~/Documents/xoopic$ TCL_LIBDIR_PATH=/usr/lib/x86_64-linux-gnu/ \
> TK_LIBDIR_PATH=/usr/lib/x86_64-linux-gnu/ \
> ./configure \
> --with-tclsh=/usr/bin/tclsh8.5 \
> --with-tclconfig=/usr/lib/tcl8.5 \
> --with-tkconfig=/usr/lib/tk8.5 \
> --with-tclhdir=/usr/include/tcl8.5 \
> --with-tkhdir=/usr/include/tcl8.5 \
> --with-dfftw-incdir=/usr/local/include \
> --with-sfftw-incdir=/usr/include \
> --enable-hdf5 \
> --with-hdf5-incdir=/usr/include/hdf5/serial \
> --with-hdf5-libdir=/usr/lib/x86_64-linux-gnu/hdf5/serial
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /bin/mkdir -p
checking for gawk... no
checking for mawk... mawk
checking whether make sets $(MAKE)... yes
checking whether to enable maintainer-specific portions of Makefiles... no
checking build system type... x86_64-unknown-linux-gnu
checking host system type... x86_64-unknown-linux-gnu
using HDF5? ... yes
checking for hdf5.h... /usr/include/hdf5/serial/hdf5.h
checking for libhdf5.a... /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.a
checking for h5diff... no
Using C++ compiler g++
Using C compiler gcc
checking for style of include used by make... GNU
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking dependency style of gcc... gcc3
checking for library containing strerror... none required
checking whether time.h and sys/time.h may both be included... yes
checking for BSD-compatible nm...
install-sh/usr/bin/nm -B
Setting the flags per system and C++ compiler: g++
checking for g++... /usr/bin/g++
Serial C++ compiler is 'g++'
checking g++ version... g++
configure: WARNING: Caution: version is not known to work.
checking for -fsquangle... no
checking how to build libraries... with ar cr
checking for gcc... /usr/bin/gcc
Serial C compiler is 'gcc'
checking for gcc... (cached) gcc
checking whether we are using the GNU C compiler... (cached) yes
checking whether gcc accepts -g... (cached) yes
checking for gcc option to accept ISO C89... (cached) none needed
checking dependency style of gcc... (cached) gcc3
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking dependency style of g++... gcc3
checking how to run the C preprocessor... gcc -E
checking how to run the C++ preprocessor... g++ -E
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking iostream usability... yes
checking iostream presence... yes
checking for iostream... yes
checking strstream usability... yes
checking strstream presence... yes
checking for strstream... yes
checking fstream usability... yes
checking fstream presence... yes
checking for fstream... yes
checking sstream usability... yes
checking sstream presence... yes
checking for sstream... yes
checking for size_t... yes
checking whether struct tm is in sys/time.h or time.h... time.h
Calling config/macros.m4
Calling config/cxx.m4
checking whether c++ compiler supports exception handling... yes
checking whether c++ compiler supports typename... yes
checking whether c++ compiler can explicitly instantiate templates... yes
checking whether c++ compiler supports RTTI... yes
checking whether c++ compiler supports namespaces... yes
checking whether c++ compiler has complex in the namespace std... yes
checking whether c++ compiler has streams in the namespace std... yes
checking whether c++ compiler can overload const type conversions... yes
checking whether c++ compiler knows mutable... yes
checking whether template friends need brackets... yes
checking whether nontype template operators are allowed... no
checking whether static variables can be declared generally... yes
config/cxx.m4 finished
checking whether make sets $(MAKE)... (cached) yes
checking whether ln -s works... yes
checking for ranlib... ranlib
checking what the library suffix is... .a
checking how to install libraries... with ${INSTALL} -m 644
configure: WARNING: x11.m4 is obsolete. Please use AC_PATH_X or AC_PATH_XTRA.
checking for X11/Xlib.h... /usr/include/X11/Xlib.h
checking for libX11.a... /usr/lib/x86_64-linux-gnu/libX11.a
checking for libXpm.a... /usr/lib/x86_64-linux-gnu/libXpm.a
checking for libXGC250.a... /usr/local/lib/libXGC250.a
checking for xgrafix.h... /usr/local/include/xgrafix.h
checking for xgscalar.h... /usr/local/include/xgscalar.h
checking for SCALAR in /usr/local/include/xgscalar.h... #define SCALAR double
checking for tclsh... /usr/bin/tclsh8.5
checking for tclConfig.sh... /usr/lib/tcl8.5/tclConfig.sh
checking for tkConfig.sh... /usr/lib/tk8.5/tkConfig.sh
checking for libtcl8.5.a... /usr/lib/x86_64-linux-gnu/
checking for libtk8.5.a... /usr/lib/x86_64-linux-gnu/
checking for up-to-date Tcl version in tcl.h... 8.5
Warning: The Tcl version in /usr/include/tcl8.5/tcl.h is not in the legal Tcl versions list!
tcl_version: NONE
TCL_MAJOR_VERSION: 8
TCL_MINOR_VERSION: 5
checking for up-to-date Tk version in tk.h... 8.5
Warning: The Tk version in /usr/include/tcl8.5/tcl.h is not in the legal Tk versions list!
tk_version: NONE
TK_MAJOR_VERSION: 8
TK_MINOR_VERSION: 5
Checking for fftw...
checking for dfftw.h... /usr/local/include/dfftw.h
checking for libdfftw.a... /usr/local/lib/libdfftw.a
checking for sfftw.h... /usr/include/sfftw.h
checking for libsfftw.a... /usr/lib/libsfftw.a
Making Makefiles
configure: creating ./config.status
config.status: creating Makefile
config.status: creating otools/Makefile
config.status: creating advisor/Makefile
config.status: creating physics/Makefile
config.status: creating xg/Makefile
config.status: creating config/Makefile
config.status: creating ./config.h
config.status: ./config.h is unchanged
config.status: executing depfiles commands
Depois de consertar o problema do h5diff, mudei para o make, o que resultou em muitos outros problemas com o hdf5.
~/Documents/xoopic$ make
make all-recursive
make[1]: Entering directory '/home/nickallen/Documents/xoopic'
Making all in otools
make[2]: Entering directory '/home/nickallen/Documents/xoopic/otools'
g++ -DHAVE_CONFIG_H -I. -I../. -I../advisor -I../physics -I../otools -I../otools -I../config -I/usr/local/include -I/usr/local/include -I/usr/include/hdf5/serial -Wall -Wno-unused -g -O2 -pipe -g -O2 -pipe -DUNIX -DSCALAR_DOUBLE -c -o dumpHDF5.o dumpHDF5.cpp
dumpHDF5.cpp: In member function ‘void dumpHDF5::readSimple(std::string, double*, int&)’:
dumpHDF5.cpp:126:46: error: too few arguments to function ‘hid_t H5Dopen2(hid_t, const char*, hid_t)’
datasetId = H5Dopen(fileId,dataPath.c_str());
^
In file included from /usr/include/hdf5/serial/hdf5.h:27:0,
from dumpHDF5.h:20,
from dumpHDF5.cpp:12:
/usr/include/hdf5/serial/H5Dpublic.h:123:14: note: declared here
H5_DLL hid_t H5Dopen2(hid_t file_id, const char *name, hid_t dapl_id);
^
dumpHDF5.cpp: In member function ‘void dumpHDF5::writeSimple(std::string, double*, int, int*)’:
dumpHDF5.cpp:161:84: error: too few arguments to function ‘hid_t H5Dcreate2(hid_t, const char*, hid_t, hid_t, hid_t, hid_t, hid_t)’
datasetId = H5Dcreate(fileId, dataPath.c_str(), h5Scalar, dataspaceId, H5P_DEFAULT);
^
In file included from /usr/include/hdf5/serial/hdf5.h:27:0,
from dumpHDF5.h:20,
from dumpHDF5.cpp:12:
/usr/include/hdf5/serial/H5Dpublic.h:119:14: note: declared here
H5_DLL hid_t H5Dcreate2(hid_t loc_id, const char *name, hid_t type_id,
^
Makefile:484: recipe for target 'dumpHDF5.o' failed
make[2]: *** [dumpHDF5.o] Error 1
make[2]: Leaving directory '/home/nickallen/Documents/xoopic/otools'
Makefile:389: recipe for target 'all-recursive' failed
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory '/home/nickallen/Documents/xoopic'
Makefile:327: recipe for target 'all' failed
make: *** [all] Er
ror 2
Basta instalar os pacotes certos:
sudo apt-get install sfftw-dev
sudo apt-get install libhdf5-dev
sudo apt-get install apt-file sudo apt-file update apt-file search -x /hdf5.h$
deve render
libflann-dev: /usr/include/flann/io/hdf5.h libhdf5-dev: /usr/include/hdf5/serial/hdf5.h libhdf5-mpich-dev: /usr/include/hdf5/mpich/hdf5.h libhdf5-openmpi-dev: /usr/include/hdf5/openmpi/hdf5.h libopencv-flann-dev: /usr/include/opencv2/flann/hdf5.h
Eu não tenho ideia de qual deles você quer, mas libhdf5-dev parece uma boa aposta.
Repita conforme necessário.
Nota: o problema subjacente é provável que a configuração do software que você está tentando construir seja baseada em uma versão desatualizada do sistema GNU autotools. A maneira correta de consertar é provavelmente modificar os scripts e gerar novamente um script ./configure mais apropriado: se eu entendi o processo corretamente, autoreconf deve ajudar com isso, mas parece causar mais problemas do que conserta. O seguinte é realmente um truque, na melhor das hipóteses.
Até onde eu sei, os prefixos s e d de fftw denotam precisão simples e dupla.
Pelo menos nas versões atuais do Ubuntu, enquanto os cabeçalhos e bibliotecas de desenvolvimento de precisão única são empacotados como sfftw-dev , o pacote de desenvolvimento de precisão dupla (padrão) é chamado fftw-dev e os arquivos de cabeçalho e bibliotecas correspondentes também falta o prefixo d .
Eu acho que uma solução aceitável é simplesmente vincular simbolicamente os arquivos ausentes, por exemplo (você não precisa usar / usr / local aqui - eu só acho que faz uma distinção mais limpa):
sudo ln -s /usr/include/fftw.h /usr/local/include/dfftw.h
sudo ln -s /usr/include/rfftw.h /usr/local/include/drfftw.h
e
sudo ln -s /usr/lib/libfftw.a /usr/local/lib/libdfftw.a
sudo ln -s /usr/lib/libfftw.so /usr/local/lib/libdfftw.so
sudo ln -s /usr/lib/librfftw.a /usr/local/lib/libdrfftw.a
sudo ln -s /usr/lib/librfftw.so /usr/local/lib/libdrfftw.so
e depois seguindo o exemplo acima,
TCL_LIBDIR_PATH=/usr/lib/x86_64-linux-gnu/ TK_LIBDIR_PATH=/usr/lib/x86_64-linux-gnu/ ./configure \
--with-tclsh=/usr/bin/tclsh8.5 \
--with-tclconfig=/usr/lib/tcl8.5 \
--with-tkconfig=/usr/lib/tk8.5 \
--with-tclhdir=/usr/include/tcl8.5 \
--with-tkhdir=/usr/include/tcl8.5 \
--with-sfftw-incdir=/usr/include \
--with-dfftw-incdir=/usr/local/include \
--with-hdf5-libdir=/usr/lib/x86_64-linux-gnu
Pelo menos, eu consegui construir o binário xoopic no Ubuntu 14.04 de 64 bits dessa maneira - embora eu tenha testado apenas usando ./xoopic --help , já que não estou familiarizado com o uso adequado do programa.
Não acho que a falha em encontrar gawk deva ser um problema, pois parece estar feliz com mawk ; no entanto, você pode instalar gawk do repositório, se desejar - o IIRC definirá a si mesmo como o padrão de todo o sistema awk , embora você possa facilmente defini-lo de volta para mawk via update-alternatives .
Eu também não tinha h5diff quando fiz a compilação aparentemente bem-sucedida, mas você pode obtê-lo instalando hdf5-tools . Descobri que ainda era necessário adicionar uma definição de variável de shell H5DIFF=/usr/bin/h5diff à linha de comando ./configure para obter o script para encontrá-lo.