Hello,
I am trying to compile the git version of graph-tool. I have configured it
as follows:
./configure --with-boost=/opt/anaconda/anaconda3 --enable-openmp
This returns a configuration summary as follows:
================================================================================
CONFIGURATION SUMMARY
================================================================================
Using python version: 2.7.14
Python interpreter: /opt/anaconda/anaconda3/bin/python
Installation path:
/opt/anaconda/anaconda3/lib/python2.7/site-packages/graph_tool
C++ compiler (CXX): g++ -std=gnu++14
C++ compiler version: 5.4.0
Prefix: /usr/local
Pkgconfigdir: ${libdir}/pkgconfig
Python CPP flags: -I/opt/anaconda/anaconda3/include/python2.7
Python LD flags: -L/opt/anaconda/anaconda3/lib -lpython2.7
Boost CPP flags: -pthread -I/opt/anaconda/anaconda3/include
Boost LD flags: -lboost_iostreams -lboost_python -lboost_regex
-lboost_context -lboost_coroutine
Numpy CPP flags:
-I/opt/anaconda/anaconda3/lib/python2.7/site-packages/numpy/core/include
Sparsehash CPP flags:
CGAL CPP flags: -I/usr/include
CGAL LD flags: -L/usr/lib -lCGAL -lCGAL_Core -lgmp -lboost_thread
-lpthread
Expat CPP flags: -I/usr/include
Expat LD flags: -L/usr/lib -lexpat
Cairomm CPP flags: -I/usr/include/cairomm-1.0
-I/usr/lib/x86_64-linux-gnu/cairomm-1.0/include -I/usr/include/cairo
-I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include
-I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12
-I/usr/include/sigc++-2.0 -I/usr/lib/x86_64-linux-gnu/sigc++-2.0/include
Cairomm LD flags: -lcairomm-1.0 -lcairo -lsigc-2.0
OpenMP compiler flags: -fopenmp
OpenMP LD flags:
Extra CPPFLAGS: -DNDEBUG
Extra CXXFLAGS: -fopenmp -O3 -fvisibility=default
-fvisibility-inlines-hidden -Wno-deprecated -Wall -Wextra
-ftemplate-backtrace-limit=0
Extra LDFLAGS:
Using OpenMP: yes
Using sparsehash: yes
Using cairo: yes
================================================================================
and the following config.log config.log
<http://main-discussion-list-for-the-graph-tool-project.982480.n3.nabble.com/file/t495975/config.log>
. I then have run
make -j20
This seems to fail with the following output
make -j20
make all-recursive
make[1]: Entering directory '/home/pmj27/graph-tool'
Making all in src
make[2]: Entering directory '/home/pmj27/graph-tool/src'
Making all in graph
make[3]: Entering directory '/home/pmj27/graph-tool/src/graph'
Making all in centrality
make[4]: Entering directory '/home/pmj27/graph-tool/src/graph/centrality'
CXX graph_betweenness.lo
CXX graph_centrality_bind.lo
CXX graph_closeness.lo
CXX graph_eigenvector.lo
CXX graph_hits.lo
CXX graph_eigentrust.lo
CXX graph_pagerank.lo
CXX graph_katz.lo
CXX graph_trust_transitivity.lo
CXXLD libgraph_tool_centrality.la
make[4]: Leaving directory '/home/pmj27/graph-tool/src/graph/centrality'
Making all in clustering
make[4]: Entering directory '/home/pmj27/graph-tool/src/graph/clustering'
CXX graph_clustering.lo
CXX graph_extended_clustering.lo
CXX graph_motifs.lo
CXXLD libgraph_tool_clustering.la
make[4]: Leaving directory '/home/pmj27/graph-tool/src/graph/clustering'
Making all in correlations
make[4]: Entering directory '/home/pmj27/graph-tool/src/graph/correlations'
CXX graph_assortativity.lo
CXX graph_correlations.lo
CXX graph_correlations_imp1.lo
CXX graph_correlations_bind.lo
CXX graph_correlations_combined.lo
CXX graph_avg_correlations.lo
CXX graph_avg_correlations_imp1.lo
CXX graph_avg_correlations_combined.lo
In file included from
/opt/anaconda/anaconda3/include/boost/multi_array.hpp:26:0,
from ../../../src/graph/histogram.hh:26,
from graph_correlations.hh:27,
from graph_avg_correlations.hh:21,
from graph_avg_correlations_combined.cc:26:
/opt/anaconda/anaconda3/include/boost/multi_array/base.hpp: In member
function ‘boost::multi_array<T, NumDims, Allocator>& boost::multi_array<T,
NumDims, Allocator>::resize(const
boost::detail::multi_array::extent_gen<NumDims>&) [with T = double; long
unsigned int NumDims = 1ul; Allocator = std::allocator<double>]’:
/opt/anaconda/anaconda3/include/boost/multi_array/base.hpp:416:31: warning:
‘new_strides.boost::array<long int, 1ul>::elems[0ul]’ may be used
uninitialized in this function [-Wmaybe-uninitialized]
boost::array<index,NDims> new_strides;
^
/opt/anaconda/anaconda3/include/boost/multi_array/base.hpp: In member
function ‘boost::multi_array<T, NumDims, Allocator>& boost::multi_array<T,
NumDims, Allocator>::resize(const
boost::detail::multi_array::extent_gen<NumDims>&) [with T = int; long
unsigned int NumDims = 1ul; Allocator = std::allocator<int>]’:
/opt/anaconda/anaconda3/include/boost/multi_array/base.hpp:416:31: warning:
‘new_strides.boost::array<long int, 1ul>::elems[0ul]’ may be used
uninitialized in this function [-Wmaybe-uninitialized]
In file included from
/opt/anaconda/anaconda3/include/boost/multi_array.hpp:26:0,
from ../../../src/graph/histogram.hh:26,
from graph_correlations.hh:27,
from graph_avg_correlations.hh:21,
from graph_avg_correlations.cc:26:
/opt/anaconda/anaconda3/include/boost/multi_array/base.hpp: In member
function ‘boost::multi_array<T, NumDims, Allocator>& boost::multi_array<T,
NumDims, Allocator>::resize(const
boost::detail::multi_array::extent_gen<NumDims>&) [with T = double; long
unsigned int NumDims = 1ul; Allocator = std::allocator<double>]’:
/opt/anaconda/anaconda3/include/boost/multi_array/base.hpp:416:31: warning:
‘new_strides.boost::array<long int, 1ul>::elems[0ul]’ may be used
uninitialized in this function [-Wmaybe-uninitialized]
boost::array<index,NDims> new_strides;
^
/opt/anaconda/anaconda3/include/boost/multi_array/base.hpp: In member
function ‘boost::multi_array<T, NumDims, Allocator>& boost::multi_array<T,
NumDims, Allocator>::resize(const
boost::detail::multi_array::extent_gen<NumDims>&) [with T = int; long
unsigned int NumDims = 1ul; Allocator = std::allocator<int>]’:
/opt/anaconda/anaconda3/include/boost/multi_array/base.hpp:416:31: warning:
‘new_strides.boost::array<long int, 1ul>::elems[0ul]’ may be used
uninitialized in this function [-Wmaybe-uninitialized]
In file included from
/opt/anaconda/anaconda3/include/boost/multi_array.hpp:26:0,
from ../../../src/graph/histogram.hh:26,
from graph_avg_correlations_imp1.cc:21:
/opt/anaconda/anaconda3/include/boost/multi_array/base.hpp: In member
function ‘boost::multi_array<T, NumDims, Allocator>& boost::multi_array<T,
NumDims, Allocator>::resize(const
boost::detail::multi_array::extent_gen<NumDims>&) [with T = double; long
unsigned int NumDims = 1ul; Allocator = std::allocator<double>]’:
/opt/anaconda/anaconda3/include/boost/multi_array/base.hpp:416:31: warning:
‘new_strides.boost::array<long int, 1ul>::elems[0ul]’ may be used
uninitialized in this function [-Wmaybe-uninitialized]
boost::array<index,NDims> new_strides;
^
/opt/anaconda/anaconda3/include/boost/multi_array/base.hpp: In member
function ‘boost::multi_array<T, NumDims, Allocator>& boost::multi_array<T,
NumDims, Allocator>::resize(const
boost::detail::multi_array::extent_gen<NumDims>&) [with T = long double;
long unsigned int NumDims = 1ul; Allocator = std::allocator<long double>]’:
/opt/anaconda/anaconda3/include/boost/multi_array/base.hpp:416:31: warning:
‘new_strides.boost::array<long int, 1ul>::elems[0ul]’ may be used
uninitialized in this function [-Wmaybe-uninitialized]
/opt/anaconda/anaconda3/include/boost/multi_array/base.hpp: In member
function ‘boost::multi_array<T, NumDims, Allocator>& boost::multi_array<T,
NumDims, Allocator>::resize(const
boost::detail::multi_array::extent_gen<NumDims>&) [with T = long double;
long unsigned int NumDims = 1ul; Allocator = std::allocator<long double>]’:
/opt/anaconda/anaconda3/include/boost/multi_array/base.hpp:416:31: warning:
‘new_strides.boost::array<long int, 1ul>::elems[0ul]’ may be used
uninitialized in this function [-Wmaybe-uninitialized]
/opt/anaconda/anaconda3/include/boost/multi_array/base.hpp: In member
function ‘boost::multi_array<T, NumDims, Allocator>& boost::multi_array<T,
NumDims, Allocator>::resize(const
boost::detail::multi_array::extent_gen<NumDims>&) [with T = long double;
long unsigned int NumDims = 1ul; Allocator = std::allocator<long double>]’:
/opt/anaconda/anaconda3/include/boost/multi_array/base.hpp:416:31: warning:
‘new_strides.boost::array<long int, 1ul>::elems[0ul]’ may be used
uninitialized in this function [-Wmaybe-uninitialized]
CXXLD libgraph_tool_correlations.la
make[4]: Leaving directory '/home/pmj27/graph-tool/src/graph/correlations'
Making all in draw
make[4]: Entering directory '/home/pmj27/graph-tool/src/graph/draw'
CXX graph_cairo_draw.lo
CXX graph_tree_cts.lo
CXX pycairo_aux.lo
In file included from pycairo_aux.cc:20:0:
pycairo_aux.cc: In function ‘PyObject*
gt_PycairoContext_FromContext(cairo_t*, PyTypeObject*, PyObject*)’:
/opt/anaconda/anaconda3/include/pycairo/pycairo.h:171:39: error:
‘Pycairo_CAPI’ was not declared in this scope
#define PycairoContext_FromContext (Pycairo_CAPI->Context_FromContext)
^
pycairo_aux.cc:26:12: note: in expansion of macro
‘PycairoContext_FromContext’
return PycairoContext_FromContext(ctx, type, base);
^
Makefile:575: recipe for target 'pycairo_aux.lo' failed
make[4]: *** [pycairo_aux.lo] Error 1
make[4]: *** Waiting for unfinished jobs....
make[4]: Leaving directory '/home/pmj27/graph-tool/src/graph/draw'
Makefile:753: recipe for target 'all-recursive' failed
make[3]: *** [all-recursive] Error 1
make[3]: Leaving directory '/home/pmj27/graph-tool/src/graph'
Makefile:423: recipe for target 'all-recursive' failed
make[2]: *** [all-recursive] Error 1
make[2]: Leaving directory '/home/pmj27/graph-tool/src'
Makefile:595: recipe for target 'all-recursive' failed
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory '/home/pmj27/graph-tool'
Makefile:482: recipe for target 'all' failed
make: *** [all] Error 2
Could somebody help me identify where I am going wrong? I am running Ubuntu
16.04 and python2.7 (Anaconda).
Best,
Philipp
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