[package - main-arm64-default][science/bagel] Failed for bagel-1.2.2_6 in build
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Date: Sat, 13 Nov 2021 19:49:46 UTC
You are receiving this mail as a port that you maintain
is failing to build on the FreeBSD package build server.
Please investigate the failure and submit a PR to fix
build.
Maintainer: yuri@FreeBSD.org
Log URL: http://ampere2.nyi.freebsd.org/data/main-arm64-default/p0bef5c19453e_sd032cda0d0/logs/bagel-1.2.2_6.log
Build URL: http://ampere2.nyi.freebsd.org/build.html?mastername=main-arm64-default&build=p0bef5c19453e_sd032cda0d0
Log:
=>> Building science/bagel
build started at Sat Nov 13 15:58:35 UTC 2021
port directory: /usr/ports/science/bagel
package name: bagel-1.2.2_6
building for: FreeBSD main-arm64-default-job-05 14.0-CURRENT FreeBSD 14.0-CURRENT 1400041 arm64
maintained by: yuri@FreeBSD.org
Makefile ident:
Poudriere version: 3.2.8-21-g883afb07
Host OSVERSION: 1400008
Jail OSVERSION: 1400041
Job Id: 05
!!! Jail is newer than host. (Jail: 1400041, Host: 1400008) !!!
!!! This is not supported. !!!
!!! Host kernel must be same or newer than jail. !!!
!!! Expect build failures. !!!
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===> The following configuration options are available for bagel-1.2.2_6:
LIBXC=on: Build DFT with libxc
MPI=on: MPI (Message Passing Interface) support
SCALAPACK=on: Use ScaLapack library for parallelized linear algebra
SMITH=on: Compile SMITH generated code
===> Use 'make config' to modify these settings
---End OPTIONS List---
--MAINTAINER--
yuri@FreeBSD.org
--End MAINTAINER--
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=======================<phase: check-sanity >============================
===> License GPLv3 accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===> bagel-1.2.2_6 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.17.5.pkg
[main-arm64-default-job-05] Installing pkg-1.17.5...
[main-arm64-default-job-05] Extracting pkg-1.17.5: .......... done
===> bagel-1.2.2_6 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of bagel-1.2.2_6
===========================================================================
=======================<phase: fetch-depends >============================
===========================================================================
=======================<phase: fetch >============================
===> License GPLv3 accepted by the user
===> Fetching all distfiles required by bagel-1.2.2_6 for building
===========================================================================
=======================<phase: checksum >============================
===> License GPLv3 accepted by the user
===> Fetching all distfiles required by bagel-1.2.2_6 for building
=> SHA256 Checksum OK for nubakery-bagel-v1.2.2_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract >============================
===> License GPLv3 accepted by the user
===> Fetching all distfiles required by bagel-1.2.2_6 for building
===> Extracting for bagel-1.2.2_6
=> SHA256 Checksum OK for nubakery-bagel-v1.2.2_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
===========================================================================
=======================<phase: patch >============================
===> Patching for bagel-1.2.2_6
===> Applying FreeBSD patches for bagel-1.2.2_6 from /usr/ports/science/bagel/files
===========================================================================
=======================<phase: build-depends >============================
===> bagel-1.2.2_6 depends on executable: gfortran10 - not found
===> Installing existing package /packages/All/gcc10-10.3.0.pkg
[main-arm64-default-job-05] Installing gcc10-10.3.0...
<snip>
In file included from ../../src/df/df.h:28:
In file included from ../../src/df/paralleldf.h:29:
In file included from ../../src/df/dfinttask_old.h:28:
./../src/integral/rys/rysintegral.h:153:18: warning: 'compute' overrides a member function but is not marked 'override' [-Winconsistent-missing-override]
virtual void compute() = 0;
^
./../src/integral/rys/rysintegral.h:174:30: note: in instantiation of template class 'bagel::RysIntegral<std::complex<double>, bagel::Int_t::London>' requested here
extern template class bagel::RysIntegral<std::complex<double>,bagel::Int_t::London>;
^
./../src/integral/integral.h:42:18: note: overridden virtual function is here
virtual void compute() = 0;
^
In file included from pseudospin/pseudospin.cc:33:
In file included from ../../src/mat1e/rel/small1e.h:30:
In file included from ../../src/integral/smallints1e.h:30:
In file included from ../../src/integral/rys/eribatch.h:28:
./../src/integral/rys/eribatch_base.h:41:18: warning: 'root_weight' overrides a member function but is not marked 'override' [-Winconsistent-missing-override]
virtual void root_weight(const int ps) = 0;
^
./../src/integral/rys/eribatch_base.h:95:30: note: in instantiation of template class 'bagel::ERIBatch_Base<double, bagel::Int_t::Standard>' requested here
extern template class bagel::ERIBatch_Base<double,bagel::Int_t::Standard>;
^
./../src/integral/rys/rysintegral.h:92:18: note: overridden virtual function is here
virtual void root_weight(const int ps) = 0;
^
In file included from pseudospin/pseudospin.cc:33:
In file included from ../../src/mat1e/rel/small1e.h:30:
In file included from ../../src/integral/smallints1e.h:30:
In file included from ../../src/integral/rys/eribatch.h:28:
./../src/integral/rys/eribatch_base.h:41:18: warning: 'root_weight' overrides a member function but is not marked 'override' [-Winconsistent-missing-override]
virtual void root_weight(const int ps) = 0;
^
./../src/integral/rys/eribatch_base.h:96:30: note: in instantiation of template class 'bagel::ERIBatch_Base<std::complex<double>, bagel::Int_t::London>' requested here
extern template class bagel::ERIBatch_Base<std::complex<double>,bagel::Int_t::London>;
^
./../src/integral/rys/rysintegral.h:92:18: note: overridden virtual function is here
virtual void root_weight(const int ps) = 0;
^
In file included from pseudospin/pseudospin.cc:33:
In file included from ../../src/mat1e/rel/small1e.h:31:
In file included from ../../src/integral/rys/naibatch.h:28:
In file included from ../../src/integral/rys/coulombbatch_energy.h:28:
./../src/integral/rys/coulombbatch_base.h:50:18: warning: 'root_weight' overrides a member function but is not marked 'override' [-Winconsistent-missing-override]
virtual void root_weight(const int ps) = 0;
^
./../src/integral/rys/coulombbatch_base.h:99:30: note: in instantiation of template class 'bagel::CoulombBatch_Base<double, bagel::Int_t::Standard>' requested here
extern template class bagel::CoulombBatch_Base<double>;
^
./../src/integral/rys/rysintegral.h:92:18: note: overridden virtual function is here
virtual void root_weight(const int ps) = 0;
^
In file included from pseudospin/pseudospin.cc:33:
In file included from ../../src/mat1e/rel/small1e.h:31:
In file included from ../../src/integral/rys/naibatch.h:28:
In file included from ../../src/integral/rys/coulombbatch_energy.h:28:
./../src/integral/rys/coulombbatch_base.h:50:18: warning: 'root_weight' overrides a member function but is not marked 'override' [-Winconsistent-missing-override]
virtual void root_weight(const int ps) = 0;
^
./../src/integral/rys/coulombbatch_base.h:100:30: note: in instantiation of template class 'bagel::CoulombBatch_Base<std::complex<double>, bagel::Int_t::London>' requested here
extern template class bagel::CoulombBatch_Base<std::complex<double>,bagel::Int_t::London>;
^
./../src/integral/rys/rysintegral.h:92:18: note: overridden virtual function is here
virtual void root_weight(const int ps) = 0;
^
3 warnings generated.
7 warnings generated.
/bin/sh ../../libtool --tag=CXX --mode=link mpicxx -I../.. -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -L/usr/local/lib -lscalapack -L/usr/local/lib -Wl,-rpath=/usr/local/lib/gcc10 -L/usr/local/lib/gcc10 -B/usr/local/bin -fstack-protector-strong -o libbagel_prop.la multipole.lo hyperfine.lo momentum.lo momentum_london.lo momentum_point.lo current.lo overlap_point.lo moprint.lo sphmultipole.lo pseudospin/stevensop.lo pseudospin/pseudospin.lo -lxc -lboost_regex -lboost_unit_test_framework -lboost_serialization -lscalapack -L/usr/local/lib
libtool: link: /usr/local/bin/ar cru .libs/libbagel_prop.a .libs/multipole.o .libs/hyperfine.o .libs/momentum.o .libs/momentum_london.o .libs/momentum_point.o .libs/current.o .libs/overlap_point.o .libs/moprint.o .libs/sphmultipole.o pseudospin/.libs/stevensop.o pseudospin/.libs/pseudospin.o
/usr/local/bin/ar: `u' modifier ignored since `D' is the default (see `U')
libtool: link: /usr/local/bin/ranlib .libs/libbagel_prop.a
libtool: link: ( cd ".libs" && rm -f "libbagel_prop.la" && ln -s "../libbagel_prop.la" "libbagel_prop.la" )
gmake[4]: Leaving directory '/wrkdirs/usr/ports/science/bagel/work/bagel-1.2.2/src/prop'
Making all in ci
gmake[4]: Entering directory '/wrkdirs/usr/ports/science/bagel/work/bagel-1.2.2/src/ci'
Making all in ciutil
gmake[5]: Entering directory '/wrkdirs/usr/ports/science/bagel/work/bagel-1.2.2/src/ci/ciutil'
/bin/sh ../../../libtool --tag=CXX --mode=compile mpicxx -DHAVE_CONFIG_H -I. -I../../.. -isystem /usr/local/include -I/usr/local/include -I../../.. -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -MT cistring.lo -MD -MP -MF .deps/cistring.Tpo -c -o cistring.lo cistring.cc
/bin/sh ../../../libtool --tag=CXX --mode=compile mpicxx -DHAVE_CONFIG_H -I. -I../../.. -isystem /usr/local/include -I/usr/local/include -I../../.. -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -MT cistringset.lo -MD -MP -MF .deps/cistringset.Tpo -c -o cistringset.lo cistringset.cc
libtool: compile: mpicxx -DHAVE_CONFIG_H -I. -I../../.. -isystem /usr/local/include -I/usr/local/include -I../../.. -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -MT cistring.lo -MD -MP -MF .deps/cistring.Tpo -c cistring.cc -fPIC -DPIC -o .libs/cistring.o
libtool: compile: mpicxx -DHAVE_CONFIG_H -I. -I../../.. -isystem /usr/local/include -I/usr/local/include -I../../.. -O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -std=c++11 -MT cistringset.lo -MD -MP -MF .deps/cistringset.Tpo -c cistringset.cc -fPIC -DPIC -o .libs/cistringset.o
cistring.cc:84:21: error: reference to 'bitset' is ambiguous
strings_ = vector<bitset<nbit__>>(size, bitset<nbit__>(0ul));
^
/usr/include/sys/_bitset.h:64:15: note: candidate found by name lookup is 'bitset'
BITSET_DEFINE(bitset, 1);
^
/usr/include/c++/v1/bitset:667:28: note: candidate found by name lookup is 'std::bitset'
class _LIBCPP_TEMPLATE_VIS bitset
^
cistring.cc:84:43: error: reference to 'bitset' is ambiguous
strings_ = vector<bitset<nbit__>>(size, bitset<nbit__>(0ul));
^
/usr/include/sys/_bitset.h:64:15: note: candidate found by name lookup is 'bitset'
BITSET_DEFINE(bitset, 1);
^
/usr/include/c++/v1/bitset:667:28: note: candidate found by name lookup is 'std::bitset'
class _LIBCPP_TEMPLATE_VIS bitset
^
cistring.cc:103:9: error: reference to 'bitset' is ambiguous
bitset<nbit__> bit(0ul);
^
/usr/include/sys/_bitset.h:64:15: note: candidate found by name lookup is 'bitset'
BITSET_DEFINE(bitset, 1);
^
/usr/include/c++/v1/bitset:667:28: note: candidate found by name lookup is 'std::bitset'
class _LIBCPP_TEMPLATE_VIS bitset
^
cistring.cc:128:21: error: reference to 'bitset' is ambiguous
strings_ = vector<bitset<nbit__>>(graphs_[0]->size(), bitset<nbit__>(0ul));
^
/usr/include/sys/_bitset.h:64:15: note: candidate found by name lookup is 'bitset'
BITSET_DEFINE(bitset, 1);
^
/usr/include/c++/v1/bitset:667:28: note: candidate found by name lookup is 'std::bitset'
class _LIBCPP_TEMPLATE_VIS bitset
^
cistring.cc:128:57: error: reference to 'bitset' is ambiguous
strings_ = vector<bitset<nbit__>>(graphs_[0]->size(), bitset<nbit__>(0ul));
^
/usr/include/sys/_bitset.h:64:15: note: candidate found by name lookup is 'bitset'
BITSET_DEFINE(bitset, 1);
^
/usr/include/c++/v1/bitset:667:28: note: candidate found by name lookup is 'std::bitset'
class _LIBCPP_TEMPLATE_VIS bitset
^
cistring.cc:131:5: error: reference to 'bitset' is ambiguous
bitset<nbit__> bit(0lu);
^
/usr/include/sys/_bitset.h:64:15: note: candidate found by name lookup is 'bitset'
BITSET_DEFINE(bitset, 1);
^
/usr/include/c++/v1/bitset:667:28: note: candidate found by name lookup is 'std::bitset'
class _LIBCPP_TEMPLATE_VIS bitset
^
cistringset.cc:50:9: error: reference to 'bitset' is ambiguous
bitset<nbit__> nbit = istring; nbit.reset(i); // annihilated.
^
/usr/include/sys/_bitset.h:64:15: note: candidate found by name lookup is 'bitset'
BITSET_DEFINE(bitset, 1);
^
/usr/include/c++/v1/bitset:667:28: note: candidate found by name lookup is 'std::bitset'
class _LIBCPP_TEMPLATE_VIS bitset
^
cistringset.cc:53:13: error: reference to 'bitset' is ambiguous
bitset<nbit__> mbit = nbit;
^
/usr/include/sys/_bitset.h:64:15: note: candidate found by name lookup is 'bitset'
BITSET_DEFINE(bitset, 1);
^
/usr/include/c++/v1/bitset:667:28: note: candidate found by name lookup is 'std::bitset'
class _LIBCPP_TEMPLATE_VIS bitset
^
cistringset.cc:73:17: error: reference to 'bitset' is ambiguous
unordered_map<bitset<nbit__>, size_t> lexmap;
^
/usr/include/sys/_bitset.h:64:15: note: candidate found by name lookup is 'bitset'
BITSET_DEFINE(bitset, 1);
^
/usr/include/c++/v1/bitset:667:28: note: candidate found by name lookup is 'std::bitset'
class _LIBCPP_TEMPLATE_VIS bitset
^
cistringset.cc:81:7: error: reference to 'bitset' is ambiguous
bitset<nbit__> intermediatebit = istring; intermediatebit.reset(j);
^
/usr/include/sys/_bitset.h:64:15: note: candidate found by name lookup is 'bitset'
BITSET_DEFINE(bitset, 1);
^
/usr/include/c++/v1/bitset:667:28: note: candidate found by name lookup is 'std::bitset'
class _LIBCPP_TEMPLATE_VIS bitset
^
cistringset.cc:84:9: error: reference to 'bitset' is ambiguous
bitset<nbit__> sourcebit = intermediatebit; sourcebit.set(i);
^
/usr/include/sys/_bitset.h:64:15: note: candidate found by name lookup is 'bitset'
BITSET_DEFINE(bitset, 1);
^
/usr/include/c++/v1/bitset:667:28: note: candidate found by name lookup is 'std::bitset'
class _LIBCPP_TEMPLATE_VIS bitset
^
6 errors generated.
gmake[5]: *** [Makefile:402: cistring.lo] Error 1
gmake[5]: *** Waiting for unfinished jobs....
5 errors generated.
gmake[5]: *** [Makefile:402: cistringset.lo] Error 1
gmake[5]: Leaving directory '/wrkdirs/usr/ports/science/bagel/work/bagel-1.2.2/src/ci/ciutil'
gmake[4]: *** [Makefile:375: all-recursive] Error 1
gmake[4]: Leaving directory '/wrkdirs/usr/ports/science/bagel/work/bagel-1.2.2/src/ci'
gmake[3]: *** [Makefile:641: all-recursive] Error 1
gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/bagel/work/bagel-1.2.2/src'
gmake[2]: *** [Makefile:423: all-recursive] Error 1
gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/bagel/work/bagel-1.2.2'
gmake[1]: *** [Makefile:355: all] Error 2
gmake[1]: Leaving directory '/wrkdirs/usr/ports/science/bagel/work/bagel-1.2.2'
===> Compilation failed unexpectedly.
Try to set MAKE_JOBS_UNSAFE=yes and rebuild before reporting the failure to
the maintainer.
*** Error code 1
Stop.
make: stopped in /usr/ports/science/bagel