Regarding installation

Hello

I am installing graph tools in my Biolinux 7 machine.. I installed boost
and the commands used for compilation are

% sudo ./bootstrap.sh
[12:38PM]
[sudo] password for oilseed31:
Building Boost.Build engine with toolset gcc...
tools/build/src/engine/bin.linuxx86_64/b2
Detecting Python version... 2.7
Detecting Python root... /usr
Unicode/ICU support for Boost.Regex?... /usr
Backing up existing Boost.Build configuration in project-config.jam.2
Generating Boost.Build configuration in project-config.jam...

Bootstrapping is done. To build, run:

    ./b2

To adjust configuration, edit 'project-config.jam'.
Further information:

   - Command line help:
     ./b2 --help

   - Getting started guide:
     http://www.boost.org/more/getting_started/unix-variants.html

   - Boost.Build documentation:
     http://www.boost.org/boost-build2/doc/html/index.html

% sudo ./b2
[12:39PM]

Building the Boost C++ Libraries.

Performing configuration checks

    - 32-bit : no (cached)
    - 64-bit : yes (cached)
    - arm : no (cached)
    - mips1 : no (cached)
    - power : no (cached)
    - sparc : no (cached)
    - x86 : yes (cached)
    - lockfree boost::atomic_flag : yes (cached)
    - has_icu builds : yes (cached)
warning: Graph library does not contain MPI-based parallel components.
note: to enable them, add "using mpi ;" to your user-config.jam
    - zlib : yes (cached)
    - iconv (libc) : yes (cached)
    - icu : yes (cached)
    - compiler-supports-ssse3 : yes (cached)
    - compiler-supports-avx2 : no (cached)
    - gcc visibility : yes (cached)
    - long double support : yes (cached)
warning: skipping optional Message Passing Interface (MPI) library.
note: to enable MPI support, add "using mpi ;" to user-config.jam.
note: to suppress this message, pass "--without-mpi" to bjam.
note: otherwise, you can safely ignore this message.
    - zlib : yes (cached)

Component configuration:

    - atomic : building
    - chrono : building
    - container : building
    - context : building
    - coroutine : building
    - date_time : building
    - exception : building
    - filesystem : building
    - graph : building
    - graph_parallel : building
    - iostreams : building
    - locale : building
    - log : building
    - math : building
    - mpi : building
    - program_options : building
    - python : building
    - random : building
    - regex : building
    - serialization : building
    - signals : building
    - system : building
    - test : building
    - thread : building
    - timer : building
    - wave : building

...patience...
...patience...
...patience...
...patience...
...patience...
...patience...
...found 13350 targets...

The Boost C++ Libraries were successfully built!

The following directory should be added to compiler include paths:

    /home/oilseed31/Downloads/boost_1_57_0

The following directory should be added to linker library paths:

    /home/oilseed31/Downloads/boost_1_57_0/stage/lib

But when I installed graphtool the commands used are
% ./configure [
9:46AM]
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 supports nested variables... yes
checking whether make supports nested variables... (cached) yes
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 whether gcc understands -c and -o together... yes
checking dependency style of gcc... gcc3
checking for library containing strerror... none required
checking how to run the C preprocessor... gcc -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 minix/config.h usability... no
checking minix/config.h presence... no
checking for minix/config.h... no
checking whether it is safe to define __EXTENSIONS__... yes
checking for g++... g++
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking dependency style of g++... gcc3
checking for gcc option to accept ISO C99... unsupported
checking for gcc option to accept ISO C89... (cached) none needed
checking for gcc option to accept ISO Standard C... (cached) none needed
checking how to run the C++ preprocessor... g++ -E
checking for ANSI C header files... (cached) yes
checking build system type... x86_64-unknown-linux-gnu
checking host system type... x86_64-unknown-linux-gnu
checking how to print strings... printf
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... 1572864
checking how to convert x86_64-unknown-linux-gnu file names to
x86_64-unknown-linux-gnu format... func_convert_file_noop
checking how to convert x86_64-unknown-linux-gnu file names to toolchain
format... func_convert_file_noop
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 dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for ar... ar
checking for archiver @FILE support... @
checking for strip... strip
checking for ranlib... ranlib
checking command to parse /usr/bin/nm -B output from gcc object... ok
checking for sysroot... no
checking for a working dd... /bin/dd
checking how to truncate binary pipes... /bin/dd bs=4096 count=1
checking for mt... mt
checking if mt is a manifest tool... no
checking for dlfcn.h... yes
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... no
checking how to run the C++ preprocessor... g++ -E
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... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking target system type... x86_64-unknown-linux-gnu
checking whether to enable debug info...... no
checking whether C++ compiler supports -std=gnu++11... no
checking whether to enable function inlining...... yes
checking whether to enable optimizations...... yes
checking whether to enable symbol visibility manipulation...... yes
checking whether to enable parallel algorithms with openmp...... no
checking whether to enable cairo drawing...... yes
checking for main in -lm... yes
checking for main in -lbz2... yes
checking for main in -lexpat... yes

attachment.html (78.8 KB)

Hi,

Hello

I am installing graph tools in my Biolinux 7 machine.. I installed boost and the commands used for compilation are

[...]

/usr/include/c++/4.6/bits/stl_algobase.h:546:6: error: use of deleted function ‘boost::detail::stored_edge_property<Vertex, Property>::self& boost::detail::stored_edge_property<Vertex, Property>::operator=(boost::detail::stored_edge_property<Vertex, Property>::self&&) [with Vertex = long unsigned int, Property = boost::property<boost::edge_weight_t, long double, boost::property<boost::edge_weight2_t, long double, boost::no_property> >, boost::detail::stored_edge_property<Vertex, Property>::self = boost::detail::stored_edge_property<long unsigned int, boost::property<boost::edge_weight_t, long double, boost::property<boost::edge_weight2_t, long double, boost::no_property> > >]’

From this error message I infer that you are using GCC 4.6. This is too

old. You need version 4.8 or above. Please read the requirements at the
website:

    https://graph-tool.skewed.de/download

Best,
Tiago