Support #1762: gammalib swig compile fails - GammaLib - CTA IRAP Project Gateway

Support #1762

gammalib swig compile fails

Added by Kelley-Hoskins Nathan over 8 years ago. Updated over 8 years ago.

Status:

Closed

Start date:

04/13/2016

Priority:

Normal

Due date:

Assigned To:

Knödlseder Jürgen

% Done:

100%

Category:

Target version:

Duration:

Description

Trying to compile gammalib on a new system, getting some kind of compile error related to swig.

Errors all show up in :

gammalib/app_wrap.cpp: In function ‘swig_module_info* SWIG_Python_GetModule()’:
gammalib/app_wrap.cpp:2452: error: ‘PyCObject_Import’ was not declared in this scope
gammalib/app_wrap.cpp: In function ‘void SWIG_Python_SetModule(swig_module_info*)’:
gammalib/app_wrap.cpp:2521: error: ‘PyCObject_FromVoidPtr’ was not declared in this scope
gammalib/app_wrap.cpp:2512: warning: unused variable ‘swig_empty_runtime_method_table’

Full info below:

$ python --version
Python 3.5.1 :: Continuum Analytics, Inc.
$ swig -version
SWIG Version 1.3.40
$ uname -a
Linux cygnus-6.pace.gatech.edu 2.6.32-431.20.3.el6.x86_64 #1 SMP Fri Jun 6 18:30:54 EDT 2014 x86_64 x86_64 x86_64 GNU/Linux

autogen.sh:

/bin/sh ./config.status --recheck
running CONFIG_SHELL=/bin/sh /bin/sh ./configure --prefix=/nv/hp11/nkelleyh3/software/gammalib LDFLAGS=-L/nv/hp11/nkelleyh3/software/cfitsio/lib CPPFLAGS=-I/nv/hp11/nkelleyh3/software/cfitsio --no-create --no-recursion
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... gawk
checking whether make sets $(MAKE)... yes
checking whether make sets $(MAKE)... (cached) yes
checking build system type... /x86_64-unknown-linux-gnu
checking host system type... x86_64-unknown-linux-gnu
checking for Mac OS X >= 10.7... no
checking for Mac OS X >= 10.9... no
checking for Mac OS X >= 10.11... no
checking for g++... g++
checking for C++ compiler default output file name... aa.out
checking whether the C++ compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking for gcc... gcc
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 for --with-universal-archs... 3-way
checking for --enable-universalsdk... no
checking MACHDEP... checking machine type as reported by uname -m... x86_64
checking for the shared library paths environment variable... LD_LIBRARY_PATH
checking whether to enable debugging... no
checking whether to enable profiling... no
checking for inst/Makefile.am... yes
checking for inst/mwl/Makefile.am... yes
checking for inst/cta/Makefile.am... yes
checking for inst/lat/Makefile.am... yes
checking for inst/com/Makefile.am... yes
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 a BSD-compatible install... /usr/bin//install -c
checking for a sed that does not truncate output... /bin/sed
checking for fgrep... /bin/grep -F
checking for ld used by gcc... /usr/bin//ld
checking if the linker (/usr/bin//ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin//nm -B
checking the name lister (/usr/bin//nm -B) interface... BSD nm
checking whether ln -s works... yes
checking the maximum length of command line arguments... 3458764513820540925
checking whether the shell understands some XSI constructs... yes
checking whether the shell understands "+="... yes
checking for /usr/bin//ld option to reload object files... -r
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for ar... ar
checking for strip... strip
checking for ranlib... ranlib
checking command to parse /usr/bin//nm -B output from gcc object... ok
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 for dlfcn.h... yes
checking whether we are using the GNU C++ compiler... (cached) yes
checking whether g++ accepts -g... (cached) yes
checking how to run the C++ preprocessor... g++ -E
checking for objdir... .libs
checking if gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -fPIC -DPIC
checking if gcc PIC flag -fPIC -DPIC works... yes
checking if gcc static flag -static works... yes
checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (/usr/bin//ld -m elf_x86_64) supports shared libraries... yes
checking whether -lc should be explicitly linked in... no
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking whether stripping libraries is possible... yes
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... yes
checking for ld used by g++... /usr/bin//ld -m elf_x86_64
checking if the linker (/usr/bin//ld -m elf_x86_64) is GNU ld... yes
checking whether the g++ linker (/usr/bin//ld -m elf_x86_64) supports shared libraries... yes
checking for g++ option to produce PIC... -fPIC -DPIC
checking if g++ PIC flag -fPIC -DPIC works... yes
checking if g++ static flag -static works... yes
checking if g++ supports -c -o file.o... yes
checking if g++ supports -c -o file.o... (cached) yes
checking whether the g++ linker (/usr/bin//ld -m elf_x86_64) supports shared libraries... yes
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking for size_t... yes
checking for an ANSI C-conforming const... yes
checking for inline... inline
checking whether to enable NaN/Inf checking... yes
checking whether to enable range checking... yes
checking whether to enable small memory option... yes
checking whether to enable console warnings... yes
checking for gcc option to support OpenMP... -fopenmp
checking whether we can dynamically load libgomp... yes
checking whether to enable OpenMP... yes
checking for a Python interpreter with version >= 2.3... python
checking for python... /nv/hp11/nkelleyh3/software/miniconda3/bin/python
checking for python version... 3.5
checking for python platform... linux
checking for python script directory... ${prefix}/lib/python3.5/site-packages
checking for python extension module directory... ${exec_prefix}/lib/python3.5/site-packages
checking for the distutils Python package... yes
checking /nv/hp11/nkelleyh3/software/miniconda3/include/python3.5m/Python.h usability... yes
checking /nv/hp11/nkelleyh3/software/miniconda3/include/python3.5m/Python.h presence... yes
checking for /nv/hp11/nkelleyh3/software/miniconda3/include/python3.5m/Python.h... yes
checking for swig... /usr/bin//swig
checking for pyext/gammalib/app_wrap.cpp... no
checking for pyext/gammalib/app.py... no
checking for pyext/gammalib/base_wrap.cpp... no
checking for pyext/gammalib/base.py... no
checking for pyext/gammalib/fits_wrap.cpp... no
checking for pyext/gammalib/fits.py... no
checking for pyext/gammalib/linalg_wrap.cpp... no
checking for pyext/gammalib/linalg.py... no
checking for pyext/gammalib/model_wrap.cpp... no
checking for pyext/gammalib/model.py... no
checking for pyext/gammalib/numerics_wrap.cpp... no
checking for pyext/gammalib/numerics.py... no
checking for pyext/gammalib/obs_wrap.cpp... no
checking for pyext/gammalib/obs.py... no
checking for pyext/gammalib/opt_wrap.cpp... no
checking for pyext/gammalib/opt.py... no
checking for pyext/gammalib/sky_wrap.cpp... no
checking for pyext/gammalib/sky.py... no
checking for pyext/gammalib/support_wrap.cpp... no
checking for pyext/gammalib/support.py... no
checking for pyext/gammalib/test_wrap.cpp... no
checking for pyext/gammalib/test.py... no
checking for pyext/gammalib/xml_wrap.cpp... no
checking for pyext/gammalib/xml.py... no
checking for pyext/gammalib/xspec_wrap.cpp... no
checking for pyext/gammalib/xspec.py... no
checking for pyext/gammalib/vo_wrap.cpp... no
checking for pyext/gammalib/vo.py... no
checking for pyext/gammalib/mwl_wrap.cpp... no
checking for pyext/gammalib/mwl.py... no
checking for pyext/gammalib/lat_wrap.cpp... no
checking for pyext/gammalib/lat.py... no
checking for pyext/gammalib/cta_wrap.cpp... no
checking for pyext/gammalib/cta.py... no
checking for pyext/gammalib/com_wrap.cpp... no
checking for pyext/gammalib/com.py... no
configure: WARNING: Python wrapper(s) missing. Requires swig for wrapper generation.
checking whether to build GammaLib for code coverage measure... no
checking for initscr in -lncurses... yes
configure: ncurses found
checking for main in -ledit... yes
configure: editline found
checking editline/readline.h usability... yes
checking editline/readline.h presence... yes
checking for editline/readline.h... yes
configure: editline headers found
checking for ffpss in -lcfitsio... yes
configure: cfitsio found
checking fitsio.h usability... yes
checking fitsio.h presence... yes
checking for fitsio.h... yes
configure: cfitsio headers found
checking for doxygen... /usr/bin//doxygen
checking for perl... /usr/bin//perl
configure: creating ./config.status

GammaLib configuration summary
==============================
* FITS I/O support (yes)
* Readline support (yes)
* Ncurses support (yes)
* Make Python binding (yes) use swig for building
* Python (yes)
* Python.h (yes)
- Python wrappers (no)
* swig (yes)
* Multiwavelength interface (yes)
* Fermi-LAT interface (yes)
* CTA interface (yes)
* COMPTEL interface (yes)
* Doxygen (yes) /usr/bin//doxygen
* Perform NaN/Inf checks (yes) (default)
* Perform range checking (yes) (default)
* Optimize memory usage (yes) (default)
* Enable OpenMP (yes) (default)
- Compile in debug code (no) (default)
- Enable code for profiling (no) (default)

Configure:

$ ./configure --prefix=$PWD LDFLAGS=-L$FITSSYS/lib CPPFLAGS=-I$FITSSYS
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... gawk
checking whether make sets $(MAKE)... yes
checking whether make sets $(MAKE)... (cached) yes
checking build system type... x86_64-unknown-linux-gnu
checking host system type... x86_64-unknown-linux-gnu
checking for Mac OS X >= 10.7... no
checking for Mac OS X >= 10.9... no
checking for Mac OS X >= 10.11... no
checking for g++... g++
checking for C++ compiler default output file name... a.out
checking whether the C++ compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking for gcc... gcc
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 for --with-universal-archs... 3-way
checking for --enable-universalsdk... no
checking MACHDEP... checking machine type as reported by uname -m... x86_64
checking for the shared library paths environment variable... LD_LIBRARY_PATH
checking whether to enable debugging... no
checking whether to enable profiling... no
checking for inst/Makefile.am... yes
checking for inst/mwl/Makefile.am... yes
checking for inst/cta/Makefile.am... yes
checking for inst/lat/Makefile.am... yes
checking for inst/com/Makefile.am... yes
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 a BSD-compatible install... /usr/bin//install -c
checking for a sed that does not truncate output... /bin/sed
checking for fgrep... /bin/grep -F
checking for ld used by gcc... /usr/bin//ld
checking if the linker (/usr/bin//ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin//nm -B
checking the name lister (/usr/bin//nm -B) interface... BSD nm
checking whether ln -s works... yes
checking the maximum length of command line arguments... 3458764513820540925
checking whether the shell understands some XSI constructs... yes
checking whether the shell understands "+="... yes
checking for /usr/bin//ld option to reload object files... -r
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for ar... ar
checking for strip... strip
checking for ranlib... ranlib
checking command to parse /usr/bin//nm -B output from gcc object... ok
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 for dlfcn.h... yes
checking whether we are using the GNU C++ compiler... (cached) yes
checking whether g++ accepts -g... (cached) yes
checking how to run the C++ preprocessor... g++ -E
checking for objdir... .libs
checking if gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -fPIC -DPIC
checking if gcc PIC flag -fPIC -DPIC works... yes
checking if gcc static flag -static works... yes
checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (/usr/bin//ld -m elf_x86_64) supports shared libraries... yes
checking whether -lc should be explicitly linked in... no
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking whether stripping libraries is possible... yes
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... yes
checking for ld used by g++... /usr/bin//ld -m elf_x86_64
checking if the linker (/usr/bin//ld -m elf_x86_64) is GNU ld... yes
checking whether the g++ linker (/usr/bin//ld -m elf_x86_64) supports shared libraries... yes
checking for g++ option to produce PIC... -fPIC -DPIC
checking if g++ PIC flag -fPIC -DPIC works... yes
checking if g++ static flag -static works... yes
checking if g++ supports -c -o file.o... yes
checking if g++ supports -c -o file.o... (cached) yes
checking whether the g++ linker (/usr/bin//ld -m elf_x86_64) supports shared libraries... yes
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking for size_t... yes
checking for an ANSI C-conforming const... yes
checking for inline... inline
checking whether to enable NaN/Inf checking... yes
checking whether to enable range checking... yes
checking whether to enable small memory option... yes
checking whether to enable console warnings... yes
checking for gcc option to support OpenMP... -fopenmp
checking whether we can dynamically load libgomp... yes
checking whether to enable OpenMP... yes
checking for a Python interpreter with version >= 2.3... python
checking for python... /nv/hp11/nkelleyh3/software/miniconda3/bin/python
checking for python version... 3.5
checking for python platform... linux
checking for python script directory... ${prefix}/lib/python3.5/site-packages
checking for python extension module directory... ${exec_prefix}/lib/python3.5/site-packages
checking for the distutils Python package... yes
checking /nv/hp11/nkelleyh3/software/miniconda3/include/python3.5m/Python.h usability... yes
checking /nv/hp11/nkelleyh3/software/miniconda3/include/python3.5m/Python.h presence... yes
checking for /nv/hp11/nkelleyh3/software/miniconda3/include/python3.5m/Python.h... yes
checking for swig... /usr/bin//swig
checking for pyext/gammalib/app_wrap.cpp... no
checking for pyext/gammalib/app.py... no
checking for pyext/gammalib/base_wrap.cpp... no
checking for pyext/gammalib/base.py... no
checking for pyext/gammalib/fits_wrap.cpp... no
checking for pyext/gammalib/fits.py... no
checking for pyext/gammalib/linalg_wrap.cpp... no
checking for pyext/gammalib/linalg.py... no
checking for pyext/gammalib/model_wrap.cpp... no
checking for pyext/gammalib/model.py... no
checking for pyext/gammalib/numerics_wrap.cpp... no
checking for pyext/gammalib/numerics.py... no
checking for pyext/gammalib/obs_wrap.cpp... no
checking for pyext/gammalib/obs.py... no
checking for pyext/gammalib/opt_wrap.cpp... no
checking for pyext/gammalib/opt.py... no
checking for pyext/gammalib/sky_wrap.cpp... no
checking for pyext/gammalib/sky.py... no
checking for pyext/gammalib/support_wrap.cpp... no
checking for pyext/gammalib/support.py... no
checking for pyext/gammalib/test_wrap.cpp... no
checking for pyext/gammalib/test.py... no
checking for pyext/gammalib/xml_wrap.cpp... no
checking for pyext/gammalib/xml.py... no
checking for pyext/gammalib/xspec_wrap.cpp... no
checking for pyext/gammalib/xspec.py... no
checking for pyext/gammalib/vo_wrap.cpp... no
checking for pyext/gammalib/vo.py... no
checking for pyext/gammalib/mwl_wrap.cpp... no
checking for pyext/gammalib/mwl.py... no
checking for pyext/gammalib/lat_wrap.cpp... no
checking for pyext/gammalib/lat.py... no
checking for pyext/gammalib/cta_wrap.cpp... no
checking for pyext/gammalib/cta.py... no
checking for pyext/gammalib/com_wrap.cpp... no
checking for pyext/gammalib/com.py... no
configure: WARNING: Python wrapper(s) missing. Requires swig for wrapper generation.
checking whether to build GammaLib for code coverage measure... no
checking for initscr in -lncurses... yes
configure: ncurses found
checking for main in -ledit... yes
configure: editline found
checking editline/readline.h usability... yes
checking editline/readline.h presence... yes
checking for editline/readline.h... yes
configure: editline headers found
checking for ffpss in -lcfitsio... yes
configure: cfitsio found
checking fitsio.h usability... yes
checking fitsio.h presence... yes
checking for fitsio.h... yes
configure: cfitsio headers found
checking for doxygen... /usr/bin//doxygen
checking for perl... /usr/bin//perl
configure: creating ./config.status
config.status: creating Makefile
config.status: creating src/Makefile
config.status: creating src/base/Makefile
config.status: creating src/support/Makefile
config.status: creating src/linalg/Makefile
config.status: creating src/numerics/Makefile
config.status: creating src/fits/Makefile
config.status: creating src/xml/Makefile
config.status: creating src/vo/Makefile
config.status: creating src/xspec/Makefile
config.status: creating src/sky/Makefile
config.status: creating src/opt/Makefile
config.status: creating src/obs/Makefile
config.status: creating src/model/Makefile
config.status: creating src/app/Makefile
config.status: creating src/test/Makefile
config.status: creating src/gammalib-setup
config.status: WARNING: 'src/gammalib-setup.in' seems to ignore the --datarootdir setting
config.status: creating include/Makefile
config.status: creating test/Makefile
config.status: creating test/test_python.sh
config.status: creating pyext/Makefile
config.status: creating pyext/setup.py
config.status: creating gammalib.pc
config.status: creating testconf.sh
config.status: creating inst/Makefile
config.status: creating inst/mwl/Makefile
config.status: creating inst/cta/Makefile
config.status: creating inst/lat/Makefile
config.status: creating inst/com/Makefile
config.status: creating config.h
config.status: config.h is unchanged
config.status: executing libtool commands

Now type 'make'

Then the make:

$ make -j 2 make all-recursive make[1]: Entering directory `/nv/hp11/nkelleyh3/software/gammalib' Making all in include make[2]: Entering directory `/nv/hp11/nkelleyh3/software/gammalib/include' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/nv/hp11/nkelleyh3/software/gammalib/include' Making all in inst make[2]: Entering directory `/nv/hp11/nkelleyh3/software/gammalib/inst' Making all in mwl make[3]: Entering directory `/nv/hp11/nkelleyh3/software/gammalib/inst/mwl' /bin/sh ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/mwl/include -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c -o src/GMWLException.lo src/GMWLException.cpp /bin/sh ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/mwl/include -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c -o src/GMWLObservation.lo src/GMWLObservation.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/mwl/include -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GMWLException.cpp -fPIC -DPIC -o src/.libs/GMWLException.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/mwl/include -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GMWLObservation.cpp -fPIC -DPIC -o src/.libs/GMWLObservation.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/mwl/include -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GMWLException.cpp -o src/GMWLException.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/mwl/include -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GMWLObservation.cpp -o src/GMWLObservation.o >/dev/null 2>&1 /bin/sh ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/mwl/include -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c -o src/GMWLSpectrum.lo src/GMWLSpectrum.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/mwl/include -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GMWLSpectrum.cpp -fPIC -DPIC -o src/.libs/GMWLSpectrum.o /bin/sh ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/mwl/include -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c -o src/GMWLDatum.lo src/GMWLDatum.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/mwl/include -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GMWLDatum.cpp -fPIC -DPIC -o src/.libs/GMWLDatum.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/mwl/include -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GMWLDatum.cpp -o src/GMWLDatum.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/mwl/include -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GMWLSpectrum.cpp -o src/GMWLSpectrum.o >/dev/null 2>&1 /bin/sh ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/mwl/include -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c -o src/GMWLInstDir.lo src/GMWLInstDir.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/mwl/include -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GMWLInstDir.cpp -fPIC -DPIC -o src/.libs/GMWLInstDir.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. 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compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/cta/include -I../../inst/cta/src -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GCTAPointing.cpp -o src/GCTAPointing.o >/dev/null 2>&1 /bin/sh ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/cta/include -I../../inst/cta/src -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c -o src/GCTAModelCubeBackground.lo src/GCTAModelCubeBackground.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/cta/include -I../../inst/cta/src -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GCTAModelCubeBackground.cpp -fPIC -DPIC -o src/.libs/GCTAModelCubeBackground.o /bin/sh ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/cta/include -I../../inst/cta/src -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c -o src/GCTAModelIrfBackground.lo src/GCTAModelIrfBackground.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/cta/include -I../../inst/cta/src -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GCTAModelIrfBackground.cpp -fPIC -DPIC -o src/.libs/GCTAModelIrfBackground.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/cta/include -I../../inst/cta/src -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GCTAModelCubeBackground.cpp -o src/GCTAModelCubeBackground.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/cta/include -I../../inst/cta/src -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GCTAModelIrfBackground.cpp -o src/GCTAModelIrfBackground.o >/dev/null 2>&1 /bin/sh ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/cta/include -I../../inst/cta/src -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c -o src/GCTAModelAeffBackground.lo src/GCTAModelAeffBackground.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/cta/include -I../../inst/cta/src -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GCTAModelAeffBackground.cpp -fPIC -DPIC -o src/.libs/GCTAModelAeffBackground.o /bin/sh ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/cta/include -I../../inst/cta/src -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c -o src/GCTAModelRadialRegistry.lo src/GCTAModelRadialRegistry.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/cta/include -I../../inst/cta/src -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GCTAModelRadialRegistry.cpp -fPIC -DPIC -o src/.libs/GCTAModelRadialRegistry.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/cta/include -I../../inst/cta/src -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GCTAModelRadialRegistry.cpp -o src/GCTAModelRadialRegistry.o >/dev/null 2>&1 libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/cta/include -I../../inst/cta/src -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GCTAModelAeffBackground.cpp -o src/GCTAModelAeffBackground.o >/dev/null 2>&1 /bin/sh ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/cta/include -I../../inst/cta/src -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c -o src/GCTAModelRadial.lo src/GCTAModelRadial.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/cta/include -I../../inst/cta/src -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GCTAModelRadial.cpp -fPIC -DPIC -o src/.libs/GCTAModelRadial.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/cta/include -I../../inst/cta/src -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GCTAModelRadial.cpp -o src/GCTAModelRadial.o >/dev/null 2>&1 /bin/sh ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/cta/include -I../../inst/cta/src -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c -o src/GCTAModelRadialGauss.lo src/GCTAModelRadialGauss.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/cta/include -I../../inst/cta/src -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GCTAModelRadialGauss.cpp -fPIC -DPIC -o src/.libs/GCTAModelRadialGauss.o libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/cta/include -I../../inst/cta/src -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GCTAModelRadialGauss.cpp -o src/GCTAModelRadialGauss.o >/dev/null 2>&1 /bin/sh ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/cta/include -I../../inst/cta/src -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c -o src/GCTAModelRadialPolynom.lo src/GCTAModelRadialPolynom.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I../../include -I../../src -I../../src/support -I../../inst/cta/include -I../../inst/cta/src -I/nv/hp11/nkelleyh3/software/cfitsio -g -O2 -fopenmp -c src/GCTAModelRadialPolynom

Recurrence

No recurrence.

History

#1 Updated by Kelley-Hoskins Nathan over 8 years ago

The make text got cut off, heres the part where the error shows up:


...

make  all-am
make[3]: Entering directory `/nv/hp11/nkelleyh3/software/gammalib/pyext'
/nv/hp11/nkelleyh3/software/miniconda3/bin/python setup.py build_ext
Python extension module building:
Link cfitsio into Python module.
Link readline into Python module.
Include multi-wavelength interface in gammalib Python module.
Include CTA instrument interface in gammalib Python module.
Include Fermi/LAT instrument interface in gammalib Python module.
Include COMPTEL instrument interface in gammalib Python module.
running build_ext
building '_app' extension
creating build
creating build/temp.linux-x86_64-3.5
creating build/temp.linux-x86_64-3.5/gammalib
gcc -pthread -Wsign-compare -Wunreachable-code -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I../include -I/nv/hp11/nkelleyh3/software/cfitsio -I../inst/mwl/include -I../inst/cta/include -I../inst/lat/include -I../inst/com/include -I/nv/hp11/nkelleyh3/software/miniconda3/include/python3.5m -c gammalib/app_wrap.cpp -o build/temp.linux-x86_64-3.5/gammalib/app_wrap.o -fopenmp
cc1plus: warning: command line option "-Wstrict-prototypes" is valid for Ada/C/ObjC but not for C++
gammalib/app_wrap.cpp: In function ‘swig_module_info* SWIG_Python_GetModule()’:
gammalib/app_wrap.cpp:2452: error: ‘PyCObject_Import’ was not declared in this scope
gammalib/app_wrap.cpp: In function ‘void SWIG_Python_SetModule(swig_module_info*)’:
gammalib/app_wrap.cpp:2521: error: ‘PyCObject_FromVoidPtr’ was not declared in this scope
gammalib/app_wrap.cpp:2512: warning: unused variable ‘swig_empty_runtime_method_table’
gammalib/app_wrap.cpp: In function ‘swig_type_info* SWIG_Python_TypeQuery(const char*)’:
gammalib/app_wrap.cpp:2544: error: ‘PyCObject_AsVoidPtr’ was not declared in this scope
gammalib/app_wrap.cpp:2549: error: ‘PyCObject_FromVoidPtr’ was not declared in this scope
gammalib/app_wrap.cpp: In function ‘PyObject* _wrap_new_GLog__SWIG_1(PyObject*, PyObject*)’:
gammalib/app_wrap.cpp:6121: error: ‘PyString_Check’ was not declared in this scope
gammalib/app_wrap.cpp:6122: error: ‘PyString_AsString’ was not declared in this scope
gammalib/app_wrap.cpp:6126: error: ‘PyString_AsString’ was not declared in this scope
gammalib/app_wrap.cpp: In function ‘PyObject* _wrap_new_GLog__SWIG_2(PyObject*, PyObject*)’:
gammalib/app_wrap.cpp:6175: error: ‘PyString_Check’ was not declared in this scope
gammalib/app_wrap.cpp:6176: error: ‘PyString_AsString’ was not declared in this scope
gammalib/app_wrap.cpp:6180: error: ‘PyString_AsString’ was not declared in this scope
gammalib/app_wrap.cpp: In function ‘PyObject* _wrap_new_GLog(PyObject*, PyObject*)’:
gammalib/app_wrap.cpp:6276: error: ‘PyString_Check’ was not declared in this scope
gammalib/app_wrap.cpp:6295: error: ‘PyString_Check’ was not declared in this scope
gammalib/app_wrap.cpp: In function ‘PyObject* _wrap_GLog_open__SWIG_0(PyObject*, PyObject*)’:
gammalib/app_wrap.cpp:6489: error: ‘PyString_Check’ was not declared in this scope
gammalib/app_wrap.cpp:6490: error: ‘PyString_AsString’ was not declared in this scope
gammalib/app_wrap.cpp:6494: error: ‘PyString_AsString’ was not declared in this scope
gammalib/app_wrap.cpp: In function ‘PyObject* _wrap_GLog_open__SWIG_1(PyObject*, PyObject*)’:
gammalib/app_wrap.cpp:6551: error: ‘PyString_Check’ was not declared in this scope
gammalib/app_wrap.cpp:6552: error: ‘PyString_AsString’ was not declared in this scope
gammalib/app_wrap.cpp:6556: error: ‘PyString_AsString’ was not declared in this scope
gammalib/app_wrap.cpp: In function ‘PyObject* _wrap_GLog_open(PyObject*, PyObject*)’:
gammalib/app_wrap.cpp:6607: error: ‘PyString_Check’ was not declared in this scope
gammalib/app_wrap.cpp:6631: error: ‘PyString_Check’ was not declared in this scope
gammalib/app_wrap.cpp: In function ‘PyObject* _wrap_new_GApplicationPars__SWIG_1(PyObject*, PyObject*)’:
gammalib/app_wrap.cpp:8784: error: ‘PyString_Check’ was not declared in this scope
gammalib/app_wrap.cpp:8785: error: ‘PyString_AsString’ was not declared in this scope
gammalib/app_wrap.cpp:8789: error: ‘PyString_AsString’ was not declared in this scope
gammalib/app_wrap.cpp: In function ‘PyObject* _wrap_new_GApplicationPars__SWIG_2(PyObject*, PyObject*)’:
gammalib/app_wrap.cpp:8836: error: ‘PyString_Check’ was not declared in this scope
gammalib/app_wrap.cpp:8837: error: ‘PyString_AsString’ was not declared in this scope
gammalib/app_wrap.cpp:8841: error: ‘PyString_AsString’ was not declared in this scope
gammalib/app_wrap.cpp: In function ‘PyObject* _wrap_new_GApplicationPars(PyObject*, PyObject*)’:
gammalib/app_wrap.cpp:8945: error: ‘PyString_Check’ was not declared in this scope
gammalib/app_wrap.cpp:8964: error: ‘PyString_Check’ was not declared in this scope
gammalib/app_wrap.cpp: In function ‘PyObject* _wrap_GApplicationPars_load__SWIG_0(PyObject*, PyObject*)’:
gammalib/app_wrap.cpp:9810: error: ‘PyString_Check’ was not declared in this scope
gammalib/app_wrap.cpp:9811: error: ‘PyString_AsString’ was not declared in this scope
gammalib/app_wrap.cpp:9815: error: ‘PyString_AsString’ was not declared in this scope
gammalib/app_wrap.cpp: In function ‘PyObject* _wrap_GApplicationPars_load__SWIG_1(PyObject*, PyObject*)’:
gammalib/app_wrap.cpp:9870: error: ‘PyString_Check’ was not declared in this scope
gammalib/app_wrap.cpp:9871: error: ‘PyString_AsString’ was not declared in this scope
gammalib/app_wrap.cpp:9875: error: ‘PyString_AsString’ was not declared in this scope
gammalib/app_wrap.cpp: In function ‘PyObject* _wrap_GApplicationPars_load(PyObject*, PyObject*)’:
gammalib/app_wrap.cpp:9934: error: ‘PyString_Check’ was not declared in this scope
gammalib/app_wrap.cpp:9958: error: ‘PyString_Check’ was not declared in this scope
gammalib/app_wrap.cpp: In function ‘PyObject* _wrap_GApplicationPars_save(PyObject*, PyObject*)’:
gammalib/app_wrap.cpp:10006: error: ‘PyString_Check’ was not declared in this scope
gammalib/app_wrap.cpp:10007: error: ‘PyString_AsString’ was not declared in this scope
gammalib/app_wrap.cpp:10011: error: ‘PyString_AsString’ was not declared in this scope
gammalib/app_wrap.cpp: In function ‘PyObject* _wrap_GApplicationPar_filename__SWIG_0(PyObject*, PyObject*)’:
gammalib/app_wrap.cpp:11028: error: ‘PyString_Check’ was not declared in this scope
gammalib/app_wrap.cpp:11029: error: ‘PyString_AsString’ was not declared in this scope
gammalib/app_wrap.cpp:11033: error: ‘PyString_AsString’ was not declared in this scope
gammalib/app_wrap.cpp: In function ‘PyObject* _wrap_GApplicationPar_filename(PyObject*, PyObject*)’:
gammalib/app_wrap.cpp:11606: error: ‘PyString_Check’ was not declared in this scope
error: command 'gcc' failed with exit status 1
make[3]: *** [build] Error 1
make[3]: Leaving directory `/nv/hp11/nkelleyh3/software/gammalib/pyext'
make[2]: *** [all] Error 2
make[2]: Leaving directory `/nv/hp11/nkelleyh3/software/gammalib/pyext'
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory `/nv/hp11/nkelleyh3/software/gammalib'
make: *** [all] Error 2

#2 Updated by Knödlseder Jürgen over 8 years ago

Your swig is too old or your Python too new.

If you want Python 3 support you should install a more modern swig version.

#3 Updated by Mayer Michael over 8 years ago

Related to #1748? Looks like Gernot had the same problem and was able to resolve it.

#4 Updated by Kelley-Hoskins Nathan over 8 years ago

Status changed from New to Resolved

I updated my swig, and it seems to work fine now. Thanks for the help.

#5 Updated by Knödlseder Jürgen over 8 years ago

Status changed from Resolved to Closed
Assigned To set to Knödlseder Jürgen
% Done changed from 0 to 100

For Python 3 you need at least swig 2.0.4 (see https://cta-jenkins.irap.omp.eu/job/gammalib-swig/).

#6 Updated by Mayer Michael over 8 years ago

Maybe an entry in the documentation could prevent this in the future?

#7 Updated by Knödlseder Jürgen over 8 years ago

Agree. But recall that swig is only needed by developers. Users using the regular releases should not bother about this.

Created an issue for that: #1763.

#8 Updated by Knödlseder Jürgen over 8 years ago

Related to Action #1763: Add swig version requirement to user documentation added

#9 Updated by Knödlseder Jürgen over 8 years ago

Related to deleted (Action #1763: Add swig version requirement to user documentation)

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GammaLib

Issues

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