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--
**************************************************************************
-- Build Report
-- Compiler Flags:
-- C No-Opt: -Wall -Wno-unused-function -Wno-unknown-pragmas
-Wno-unused-variable -Wno-unused-but-set-variable -fcommon -O0
-- C Optimized: -Wall -Wno-unused-function -Wno-unknown-pragmas
-Wno-unused-variable -Wno-unused-but-set-variable -fcommon -O3
-mtune=native
--
-- CXX No-Opt: -Wall -Wno-unused-function -Wno-unknown-pragmas
-Wno-unused-local-typedefs -Wno-unused-variable
-Wno-unused-but-set-variable -O0
-- CXX Optimized: -Wall -Wno-unused-function -Wno-unknown-pragmas
-Wno-unused-local-typedefs -Wno-unused-variable
-Wno-unused-but-set-variable -O3 -mtune=native
--
-- Fortran No-Opt: -Wall -Wno-tabs -Wno-unused-function
-ffree-line-length-none -Wno-unused-dummy-argument -Wno-unused-variable
-fallow-argument-mismatch -fno-inline-arg-packing -O0
-- Fortran Optimized: -Wall -Wno-tabs -Wno-unused-function
-ffree-line-length-none -Wno-unused-dummy-argument -Wno-unused-variable
-fallow-argument-mismatch -fno-inline-arg-packing -O3 -mtune=native
--
-- 3rd Party Libraries
-- ---building bundled:
-----------------------------------------------------
-- blas - for fundamental linear algebra calculations
-- lapack - for fundamental linear algebra calculations
-- arpack - for fundamental linear algebra calculations
-- ucpp - used as a preprocessor for the NAB compiler
-- netcdf - for creating trajectory data files
-- netcdf-fortran - for creating trajectory data files from Fortran
-- fftw - used to do Fourier transforms very quickly
-- readline - enables an interactive terminal in cpptraj
-- xblas - used for high-precision linear algebra calculations
-- boost - C++ support library
-- tng_io - enables GROMACS tng trajectory input in cpptraj
-- perlmol - chemistry library used by FEW
-- ---using installed:
------------------------------------------------------
-- zlib - for various compression and decompression tasks
-- libbz2 - for bzip2 compression in cpptraj
-- libm - for fundamental math routines if they are not contained in the
C library
-- ---disabled: ------------------------------------------------
-- c9x-complex - used as a support library on systems that do not have
C99 complex.h support
-- lio - used by Sander to run certain QM routines on the GPU
-- apbs - used by Sander as an alternate Poisson-Boltzmann equation solver
-- pupil - used by Sander as an alternate user interface
-- plumed - used as an alternate MD backend for Sander
-- mkl - alternate implementation of lapack and blas that is tuned for
speed
-- mbx - computes energies and forces for pmemd with the MB-pol model
-- Features:
-- MPI: OFF
-- OpenMP: OFF
-- CUDA: OFF
-- Build Shared Libraries: ON
-- Build GUI Interfaces: ON
-- Build Python Programs: ON
-- -Python Interpreter: Internal Miniconda (version 3.9)
-- Build Perl Programs: ON
-- Build configuration: RELEASE
-- Target Processor: x86_64
-- Build Documentation: OFF
-- Sander Variants: normal LES API LES-API
-- Install location: /home/gl/Amber/amber20/
-- Installation of Tests: ON
-- Compilers:
-- C: GNU 11.2.1 (/usr/bin/gcc)
-- CXX: GNU 11.2.1 (/usr/bin/g++)
-- Fortran: GNU 11.2.1 (/usr/bin/gfortran)
-- Building Tools:
-- addles amberlite ambpdb antechamber cifparse cphstats cpptraj emil
etc few gbnsr6 gem.pmemd leap lib mdgx mm_pbsa mmpbsa_py moft nab
ndiff-2.00 nfe-umbrella-slice nmode nmr_aux packmol_memgen paramfit
parmed pbsa pdb4amber pmemd pymsmt pysander python_site_packages pytraj
reduce rism sander saxs sebomd sff sqm xray xtalutil
-- NOT Building Tools:
-- quick - BUILD_QUICK is not enabled
-- reaxff_puremd - BUILD_REAXFF_PUREMD is not enabled
-- gpu_utils - Requires CUDA
--
**************************************************************************
(2) make install error message
./boost/concept/usage.hpp: In instantiation of
‘boost::concepts::usage_requirements<Model>::~usage_requirements() [with
Model = boost::SinglePassRangeConcept<const
boost::iterator_range<__gnu_cxx::__normal_iterator<char*,
std::__cxx11::basic_string<char> > > >]’:
./boost/concept/detail/general.hpp:39:47: required from ‘static void
boost::concepts::requirement<boost::concepts::failed************
Model::************>::failed() [with Model =
boost::concepts::usage_requirements<boost::SinglePassRangeConcept<const
boost::iterator_range<__gnu_cxx::__normal_iterator<char*,
std::__cxx11::basic_string<char> > > > >]’
./boost/range/concepts.hpp:284:9: required from ‘struct
boost::SinglePassRangeConcept<const
boost::iterator_range<__gnu_cxx::__normal_iterator<char*,
std::__cxx11::basic_string<char> > > >’
./boost/concept/detail/has_constraints.hpp:32:62: required by
substitution of ‘template<class Model> boost::concepts::detail::yes
boost::concepts::detail::has_constraints_(Model*,
boost::concepts::detail::wrap_constraints<Model, (&
Model::constraints)>*) [with Model = boost::SinglePassRangeConcept<const
boost::iterator_range<__gnu_cxx::__normal_iterator<char*,
std::__cxx11::basic_string<char> > > >]’
./boost/concept/detail/has_constraints.hpp:42:5: required from ‘const
bool boost::concepts::not_satisfied<boost::SinglePassRangeConcept<const
boost::iterator_range<__gnu_cxx::__normal_iterator<char*,
std::__cxx11::basic_string<char> > > > >::value’
./boost/concept/detail/has_constraints.hpp:45:31: required from
‘struct
boost::concepts::not_satisfied<boost::SinglePassRangeConcept<const
boost::iterator_range<__gnu_cxx::__normal_iterator<char*,
std::__cxx11::basic_string<char> > > > >’
./boost/mpl/if.hpp:63:11: [ skipping 9 instantiation contexts, use
-ftemplate-backtrace-limit=0 to disable ]
./boost/iterator/iterator_facade.hpp:901:3: required from ‘typename
boost::iterators::detail::enable_if_interoperable<Derived1, Derived2,
typename boost::mpl::apply2<boost::iterators::detail::always_bool2,
Derived1, Derived2>::type>::type boost::iterators::operator!=(const
boost::iterators::iterator_facade<Derived1, V1, TC1, Reference1,
Difference1>&, const boost::iterators::iterator_facade<Derived2, V2,
TC2, Reference2, Difference2>&) [with Derived1 =
boost::iterators::transform_iterator<boost::algorithm::detail::copy_iterator_rangeF<std::__cxx11::basic_string<char>,
__gnu_cxx::__normal_iterator<char*, std::__cxx11::basic_string<char> >
>, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator<char*,
std::__cxx11::basic_string<char> > >, boost::iterators::use_default,
boost::iterators::use_default>; V1 = std::__cxx11::basic_string<char>;
TC1 = boost::iterators::forward_traversal_tag; Reference1 =
std::__cxx11::basic_string<char>; Difference1 = long int; Derived2 =
boost::iterators::transform_iterator<boost::algorithm::detail::copy_iterator_rangeF<std::__cxx11::basic_string<char>,
__gnu_cxx::__normal_iterator<char*, std::__cxx11::basic_string<char> >
>, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator<char*,
std::__cxx11::basic_string<char> > >, boost::iterators::use_default,
boost::iterators::use_default>; V2 = std::__cxx11::basic_string<char>;
TC2 = boost::iterators::forward_traversal_tag; Reference2 =
std::__cxx11::basic_string<char>; Difference2 = long int; typename
boost::iterators::detail::enable_if_interoperable<Derived1, Derived2,
typename boost::mpl::apply2<boost::iterators::detail::always_bool2,
Derived1, Derived2>::type>::type = bool; typename
boost::mpl::apply2<boost::iterators::detail::always_bool2, Derived1,
Derived2>::type = bool]’
/usr/include/c++/11/bits/stl_vector.h:1562:21: required from ‘void
std::vector<_Tp, _Alloc>::_M_range_initialize(_InputIterator,
_InputIterator, std::input_iterator_tag) [with _InputIterator =
boost::iterators::transform_iterator<boost::algorithm::detail::copy_iterator_rangeF<std::__cxx11::basic_string<char>,
__gnu_cxx::__normal_iterator<char*, std::__cxx11::basic_string<char> >
>, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator<char*,
std::__cxx11::basic_string<char> > >, boost::iterators::use_default,
boost::iterators::use_default>; _Tp = std::__cxx11::basic_string<char>;
_Alloc = std::allocator<std::__cxx11::basic_string<char> >]’
/usr/include/c++/11/bits/stl_vector.h:657:23: required from
‘std::vector<_Tp, _Alloc>::vector(_InputIterator, _InputIterator, const
allocator_type&) [with _InputIterator =
boost::iterators::transform_iterator<boost::algorithm::detail::copy_iterator_rangeF<std::__cxx11::basic_string<char>,
__gnu_cxx::__normal_iterator<char*, std::__cxx11::basic_string<char> >
>, boost::algorithm::split_iterator<__gnu_cxx::__normal_iterator<char*,
std::__cxx11::basic_string<char> > >, boost::iterators::use_default,
boost::iterators::use_default>; <template-parameter-2-2> = void; _Tp =
std::__cxx11::basic_string<char>; _Alloc =
std::allocator<std::__cxx11::basic_string<char> >; std::vector<_Tp,
_Alloc>::allocator_type =
std::allocator<std::__cxx11::basic_string<char> >]’
./boost/algorithm/string/iter_find.hpp:178:31: required from
‘SequenceSequenceT& boost::algorithm::iter_split(SequenceSequenceT&,
RangeT&, FinderT) [with SequenceSequenceT =
std::vector<std::__cxx11::basic_string<char> >; RangeT =
std::__cxx11::basic_string<char>; FinderT =
boost::algorithm::detail::token_finderF<boost::algorithm::detail::is_any_ofF<char>
>]’
./boost/algorithm/string/split.hpp:146:50: required from
‘SequenceSequenceT& boost::algorithm::split(SequenceSequenceT&, RangeT&,
PredicateT, boost::algorithm::token_compress_mode_type) [with
SequenceSequenceT = std::vector<std::__cxx11::basic_string<char> >;
RangeT = std::__cxx11::basic_string<char>; PredicateT =
boost::algorithm::detail::is_any_ofF<char>]’
libs/thread/src/pthread/thread.cpp:537:29: required from here
./boost/concept/usage.hpp:16:48: warning: ‘this’ pointer is null [-Wnonnull]
16 | ~usage_requirements() { ((Model*)0)->~Model(); }
| ~~~~~~~~~~~~~~~~~~~^~
./boost/concept/usage.hpp:30:7: note: in a call to non-static member
function ‘boost::SinglePassRangeConcept<T>::~SinglePassRangeConcept()
[with T = const
boost::iterator_range<__gnu_cxx::__normal_iterator<char*,
std::__cxx11::basic_string<char> > >]’
30 | ~model()
| ^
./boost/range/concepts.hpp:284:9: note: in expansion of macro
‘BOOST_CONCEPT_USAGE’
284 | BOOST_CONCEPT_USAGE(SinglePassRangeConcept)
| ^~~~~~~~~~~~~~~~~~~
gcc.compile.c++
/home/gl/Amber/amber20_src/build/AmberTools/src/boost/build/boost/bin.v2/libs/thread/build/gcc-ambercmake/debug/link-static/threadapi-pthread/threading-multi/pthread/once.o
gcc.compile.c++
/home/gl/Amber/amber20_src/build/AmberTools/src/boost/build/boost/bin.v2/libs/thread/build/gcc-ambercmake/debug/link-static/threadapi-pthread/threading-multi/future.o
gcc.archive
/home/gl/Amber/amber20_src/build/AmberTools/src/boost/build/boost/bin.v2/libs/thread/build/gcc-ambercmake/debug/link-static/threadapi-pthread/threading-multi/libboost_thread.a
common.copy
/home/gl/Amber/amber20_src/build/AmberTools/src/boost/stage/lib/libboost_thread.a
gcc.compile.c++
/home/gl/Amber/amber20_src/build/AmberTools/src/boost/build/boost/bin.v2/libs/timer/build/gcc-ambercmake/debug/link-static/threading-multi/auto_timers_construction.o
gcc.compile.c++
/home/gl/Amber/amber20_src/build/AmberTools/src/boost/build/boost/bin.v2/libs/timer/build/gcc-ambercmake/debug/link-static/threading-multi/cpu_timer.o
gcc.archive
/home/gl/Amber/amber20_src/build/AmberTools/src/boost/build/boost/bin.v2/libs/timer/build/gcc-ambercmake/debug/link-static/threading-multi/libboost_timer.a
common.copy
/home/gl/Amber/amber20_src/build/AmberTools/src/boost/stage/lib/libboost_timer.a
...updated 124 targets...
The Boost C++ Libraries were successfully built!
The following directory should be added to compiler include paths:
/home/gl/Amber/amber20_src/AmberTools/src/boost
The following directory should be added to linker library paths:
/home/gl/Amber/amber20_src/build/AmberTools/src/boost/stage/lib
[ 40%] No install step for 'boost_build'
[ 40%] Completed 'boost_build'
[ 40%] Built target boost_build
make: *** [Makefile:156: all] Error 2
-----------------------------------------
How can i bypass the boost compilation and use the one i installed via
yum command?
Or there is something else i have to take into account to resolve the
boost error?
Thank you in advance
Dr George Lamprinidis
--
“Good judgement is the result of experience and experience the result of
bad judgement.”
― Mark Twain
---------------------------------------------
Dr George Lambrinidis
Researcher & Laboratory Assistant Staff
School of Health Sciences
Faculty of Pharmacy
National & Kapodistrian University of Athens
Greece
tel: +30 2107274304
+30 2107274521
fax: +30 2107274747
e-mail: lambrinidis.pharm.uoa.gr
geolampr.gmail.com
---------------------------------------------
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Received on Mon Apr 11 2022 - 09:00:02 PDT