Dear Samuel,
Could you please provide your exact version of GCC, Boost and sparsehash?
Please also provide us, in attachements, the complete output of the
./configure script, the full contents of the config.log file, and the
entire output (not truncated) of the make command?
Best,
Tiago
Am 11.11.21 um 00:28 schrieb Samuel Fusato:
Hello everyone,
I apologize if this is not the right place to post this issue. I am
trying to install graph-tool on a RHEL7 within a virtualenv (I have
Jupyterhub running on it).
================================================================================
CONFIGURATION SUMMARY
================================================================================
Using python version: 3.6.3
Python interpreter: /jupyter/bin/python
Installation path: /jupyter/lib/python3.6/site-packages/graph_tool
C++ compiler (CXX): g++ -std=gnu++17
C++ compiler version: 7
Prefix: /root/.local
Pkgconfigdir: ${libdir}/pkgconfig
Python CPP flags: -I/jupyter/lib/python3.6/site-packages/cairo/include
-I/opt/rh/rh-python36/root/usr/include/python3.6m
Python LD flags: -L/opt/rh/rh-python36/root/usr/lib64 -lpython3.6m
Boost CPP flags: -pthread -I/usr/include
Boost LD flags: -L/usr/lib64 -lboost_iostreams-mt -lboost_python36
-lboost_regex-mt -lboost_context-mt
Numpy CPP flags: -I/jupyter/lib/python3.6/site-packages/numpy/core/include
Sparsehash CPP flags:
CGAL CPP flags: -I/usr/include
CGAL LD flags:
Expat CPP flags:
Expat LD flags: -lexpat
Cairomm CPP flags: -I/usr/include/cairomm-1.0
-I/usr/lib64/cairomm-1.0/include -I/usr/include/cairo
-I/usr/include/sigc++-2.0 -I/usr/lib64/sigc++-2.0/include
-I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include
-I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15
-I/usr/include/uuid -I/usr/include/libdrm
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
================================================================================
However, when trying to install it, I receive the following errors (I
truncated the output by adding the ellipsis):
(...)
blockmodel/graph_blockmodel_emat.hh:126:12: error:
‘graph_tool::EHash<boost::adj_list<long unsigned int> >::ehash_t {aka
class gt_hash_map<long unsigned int,
boost::detail::adj_edge_descriptor<long unsigned int>, std::hash<long
unsigned int>, std::equal_to<long unsigned int>,
std::allocator<std::pair<const long unsigned int,
boost::detail::adj_edge_descriptor<long unsigned int> > > >}’ has no
member named ‘min_load_factor’; did you mean ‘max_load_factor’?
_h.min_load_factor(.25);
~~~^~~~~~~~~~~~~~~
max_load_factor
(...)
blockmodel/graph_blockmodel_gibbs.cc:55:49: required from here
blockmodel/graph_blockmodel_emat.hh:126:12: error:
‘graph_tool::EHash<boost::undirected_adaptor<boost::adj_list<long
unsigned int> > >::ehash_t {aka class gt_hash_map<long unsigned int,
boost::detail::adj_edge_descriptor<long unsigned int>, std::hash<long
unsigned int>, std::equal_to<long unsigned int>,
std::allocator<std::pair<const long unsigned int,
boost::detail::adj_edge_descriptor<long unsigned int> > > >}’ has no
member named ‘min_load_factor’; did you mean ‘max_load_factor’?
_h.min_load_factor(.25);
~~~^~~~~~~~~~~~~~~
max_load_factor
In file included from blockmodel/graph_blockmodel_util.hh:25:0,
from blockmodel/graph_blockmodel_gibbs.cc:23:
blockmodel/graph_blockmodel_entries.hh:453:6: error: ‘void graph_tool:
(...)
td::vector<std::vector<double, std::allocator<double> >,
std::allocator<std::vector<double, std::allocator<double> > > >,
std::vector<double, std::allocator<double> >, std::vector<double,
std::allocator<double> >, std::vector<double, std::allocator<double> >};
size_t = long unsigned int]::<lambda(auto:127&)>’, is used but never
defined [-fpermissive]
void move_entries(Vertex v, size_t r, size_t nr, VProp& _b, Graph& g,
^~~~~~~~~~~~
blockmodel/graph_blockmodel_entries.hh:453:6: error: ‘void graph_tool::m
(...)
int> > > >, boost::adj_list<long unsigned int>, std::vector<double,
std::allocator<double> >, std::vector<double, std::allocator<double> >
>]::<lambda(auto:99, auto:100, auto:101&, auto:102, auto:103& ...)>’,
is used but never defined [-fpermissive]
void entries_op(MEntries& m_entries, EMat& emat, OP&& op)
^~~~~~~~~~
blockmodel/graph_blockmodel_entries.hh:485:6: error: ‘void graph_tool:
(...)
:vector<double, std::allocator<double> > >]::<lambda(auto:99, auto:100,
auto:101&, auto:102, auto:103& ...)>’, is used but never defined
[-fpermissive]
make[3]: *** [blockmodel/graph_blockmodel_gibbs.lo] Error 1
make[3]: Leaving directory
`/jupyter/grapth-tool/graph-tool-2.43/src/graph/inference'
make[2]: *** [install-recursive] Error 1
make[2]: Leaving directory `/jupyter/grapth-tool/graph-tool-2.43/src/graph'
make[1]: *** [install-recursive] Error 1
make[1]: Leaving directory `/jupyter/grapth-tool/graph-tool-2.43/src'
make: *** [install-recursive] Error 1
(jupyter) [root@workstation /jupyter/grapth-tool/graph-tool-2.43]#
Please, let me know if it is possible to make any assumptions based on
the above logs I shared. If not, let me know what you need and I will do
my best to provide.
Thank you,
SAMUEL FUSATO
red hat CERTIFIED SYSTEM ADMINISTRATOR - RHCSA 8
Certification ID 210-168-829
<https://rhtapps.redhat.com/certifications/badge/verify/D5UDWS5NEBPLMO5ZTQQZHQIERQAEQU3CUPSQX2KSDXT6RW46LQ3T7ULZ55KZZ56SKO7EQ3ETTLYZQ4U5NQYTCNA62RUWOCM34WWBUYQ=>
<https://redhat.com/trusted>
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--
Tiago de Paula Peixoto <[email protected]>
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