Date: Tue, 24 Nov 2020 12:55:58 GMT From: pkg-fallout@FreeBSD.org To: yuri@FreeBSD.org Cc: pkg-fallout@FreeBSD.org Subject: [package - 114amd64-default][science/bagel] Failed for bagel-1.2.2_6 in build Message-ID: <202011241255.0AOCtwdG045598@beefy9.nyi.freebsd.org>
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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 Last committer: thierry@FreeBSD.org Ident: $FreeBSD: head/science/bagel/Makefile 538716 2020-06-14 09:14:03Z thierry $ Log URL: http://beefy9.nyi.freebsd.org/data/114amd64-default/556140/logs/bagel-1.2.2_6.log Build URL: http://beefy9.nyi.freebsd.org/build.html?mastername=114amd64-default&build=556140 Log: =>> Building science/bagel build started at Tue Nov 24 09:35:35 UTC 2020 port directory: /usr/ports/science/bagel package name: bagel-1.2.2_6 building for: FreeBSD 114amd64-default-job-14 11.4-RELEASE-p4 FreeBSD 11.4-RELEASE-p4 amd64 maintained by: yuri@FreeBSD.org Makefile ident: $FreeBSD: head/science/bagel/Makefile 538716 2020-06-14 09:14:03Z thierry $ Poudriere version: 3.2.8-8-gaf08dbda Host OSVERSION: 1300121 Jail OSVERSION: 1104001 Job Id: 14 ---Begin Environment--- SHELL=/bin/csh OSVERSION=1104001 UNAME_v=FreeBSD 11.4-RELEASE-p4 UNAME_r=11.4-RELEASE-p4 BLOCKSIZE=K MAIL=/var/mail/root STATUS=1 HOME=/root 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linear algebra SMITH=on: Compile SMITH generated code ===> Use 'make config' to modify these settings ---End OPTIONS List--- --MAINTAINER-- yuri@FreeBSD.org --End MAINTAINER-- --CONFIGURE_ARGS-- --datarootdir=/usr/local/share/bagel --with-libxc --with-mpi=openmpi --enable-scalapack --enable-smith --prefix=/usr/local ${_LATE_CONFIGURE_ARGS} --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- F77="gfortran9" FC="gfortran9" FFLAGS="-O -Wl,-rpath=/usr/local/lib/gcc9" FCFLAGS="-Wl,-rpath=/usr/local/lib/gcc9" MAKE=gmake PYTHON="/usr/local/bin/python3.7" XDG_DATA_HOME=/wrkdirs/usr/ports/science/bagel/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/science/bagel/work HOME=/wrkdirs/usr/ports/science/bagel/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/science/bagel/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh ADDR2LINE="/usr/local/bin/addr2line" AR="/usr/local/bin/ar" AS="/usr/local/bin/as" CPPFILT="/usr/local/bin/c++filt" 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[114amd64-default-job-14] Extracting pkg-1.15.10: .......... 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: gfortran9 - not found ===> Installing existing package /packages/All/gcc9-9.3.0_1.txz [114amd64-default-job-14] Installing gcc9-9.3.0_1... [114amd64-default-job-14] `-- Installing binutils-2.33.1_4,1... [114amd64-default-job-14] | `-- Installing gettext-runtime-0.21... [114amd64-default-job-14] | | `-- Installing indexinfo-0.3.1... [114amd64-default-job-14] | | `-- Extracting indexinfo-0.3.1: .... done [114amd64-default-job-14] | `-- Extracting gettext-runtime-0.21: .......... done [114amd64-default-job-14] `-- Extracting binutils-2.33.1_4,1: .......... done [114amd64-default-job-14] `-- Installing gmp-6.2.1... [114amd64-default-job-14] `-- Extracting gmp-6.2.1: .......... done [114amd64-default-job-14] `-- Installing mpc-1.1.0_2... [114amd64-default-job-14] | `-- Installing mpfr-4.1.0... <snip> ./../src/integral/rys/rysintegral.h:92:18: note: overridden virtual function is here virtual void root_weight(const int ps) = 0; ^ 5 warnings generated. depbase=`echo mrci/MRCI_residualq2.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /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 mrci/MRCI_residualq2.lo -MD -MP -MF $depbase.Tpo -c -o mrci/MRCI_residualq2.lo mrci/MRCI_residualq2.cc &&\ mv -f $depbase.Tpo $depbase.Plo 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 mrci/MRCI_residualq2.lo -MD -MP -MF mrci/.deps/MRCI_residualq2.Tpo -c mrci/MRCI_residualq2.cc -fPIC -DPIC -o mrci/.libs/MRCI_residualq2.o In file included from mrci/MRCI_residualq2.cc:29: In file included from ../../src/smith/mrci/MRCI.h:32: In file included from ../../src/smith/spinfreebase.h:35: In file included from ../../src/smith/denom.h:28: In file included from ../../src/wfn/rdm.h:32: In file included from ../../src/wfn/geometry.h:29: 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: In file included from ../../src/integral/rys/rysintegral.h:32: In file included from ../../src/molecule/shell.h:29: ./../src/util/math/zmatrix.h:73:18: warning: 'diagonalize' overrides a member function but is not marked 'override' [-Winconsistent-missing-override] virtual void diagonalize(VecView vec); ^ ./../src/util/math/matrix_base.h:123:18: note: overridden virtual function is here virtual void diagonalize(VecView vec) = 0; ^ In file included from mrci/MRCI_residualq2.cc:29: In file included from ../../src/smith/mrci/MRCI.h:32: In file included from ../../src/smith/spinfreebase.h:35: In file included from ../../src/smith/denom.h:28: In file included from ../../src/wfn/rdm.h:32: In file included from ../../src/wfn/geometry.h:29: 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:173:30: note: in instantiation of template class 'bagel::RysIntegral<double, bagel::Int_t::Standard>' requested here extern template class bagel::RysIntegral<double,bagel::Int_t::Standard>; ^ ./../src/integral/integral.h:42:18: note: overridden virtual function is here virtual void compute() = 0; ^ In file included from mrci/MRCI_residualq2.cc:29: In file included from ../../src/smith/mrci/MRCI.h:32: In file included from ../../src/smith/spinfreebase.h:35: In file included from ../../src/smith/denom.h:28: In file included from ../../src/wfn/rdm.h:32: In file included from ../../src/wfn/geometry.h:29: 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::__1::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 mrci/MRCI_residualq2.cc:29: In file included from ../../src/smith/mrci/MRCI.h:34: In file included from ../../src/scf/hf/fock.h:31: 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 mrci/MRCI_residualq2.cc:29: In file included from ../../src/smith/mrci/MRCI.h:34: In file included from ../../src/scf/hf/fock.h:31: 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::__1::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; ^ 5 warnings generated. depbase=`echo mrci/MRCI_residualq3.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /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 mrci/MRCI_residualq3.lo -MD -MP -MF $depbase.Tpo -c -o mrci/MRCI_residualq3.lo mrci/MRCI_residualq3.cc &&\ mv -f $depbase.Tpo $depbase.Plo 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 mrci/MRCI_residualq3.lo -MD -MP -MF mrci/.deps/MRCI_residualq3.Tpo -c mrci/MRCI_residualq3.cc -fPIC -DPIC -o mrci/.libs/MRCI_residualq3.o In file included from mrci/MRCI_residualq3.cc:29: In file included from ../../src/smith/mrci/MRCI.h:32: In file included from ../../src/smith/spinfreebase.h:35: In file included from ../../src/smith/denom.h:28: In file included from ../../src/wfn/rdm.h:32: In file included from ../../src/wfn/geometry.h:29: 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: In file included from ../../src/integral/rys/rysintegral.h:32: In file included from ../../src/molecule/shell.h:29: ./../src/util/math/zmatrix.h:73:18: warning: 'diagonalize' overrides a member function but is not marked 'override' [-Winconsistent-missing-override] virtual void diagonalize(VecView vec); ^ ./../src/util/math/matrix_base.h:123:18: note: overridden virtual function is here virtual void diagonalize(VecView vec) = 0; ^ In file included from mrci/MRCI_residualq3.cc:29: In file included from ../../src/smith/mrci/MRCI.h:32: In file included from ../../src/smith/spinfreebase.h:35: In file included from ../../src/smith/denom.h:28: In file included from ../../src/wfn/rdm.h:32: In file included from ../../src/wfn/geometry.h:29: 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:173:30: note: in instantiation of template class 'bagel::RysIntegral<double, bagel::Int_t::Standard>' requested here extern template class bagel::RysIntegral<double,bagel::Int_t::Standard>; ^ ./../src/integral/integral.h:42:18: note: overridden virtual function is here virtual void compute() = 0; ^ In file included from mrci/MRCI_residualq3.cc:29: In file included from ../../src/smith/mrci/MRCI.h:32: In file included from ../../src/smith/spinfreebase.h:35: In file included from ../../src/smith/denom.h:28: In file included from ../../src/wfn/rdm.h:32: In file included from ../../src/wfn/geometry.h:29: 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::__1::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 mrci/MRCI_residualq3.cc:29: In file included from ../../src/smith/mrci/MRCI.h:34: In file included from ../../src/scf/hf/fock.h:31: 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 mrci/MRCI_residualq3.cc:29: In file included from ../../src/smith/mrci/MRCI.h:34: In file included from ../../src/scf/hf/fock.h:31: 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::__1::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; ^ c++: error: unable to execute command: Killed c++: error: clang frontend command failed due to signal (use -v to see invocation) FreeBSD clang version 10.0.0 (git@github.com:llvm/llvm-project.git llvmorg-10.0.0-0-gd32170dbd5b) Target: x86_64-unknown-freebsd11.4 Thread model: posix InstalledDir: /usr/bin c++: note: diagnostic msg: PLEASE submit a bug report to https://bugs.freebsd.org/submit/ and include the crash backtrace, preprocessed source, and associated run script. c++: note: diagnostic msg: ******************** PLEASE ATTACH THE FOLLOWING FILES TO THE BUG REPORT: Preprocessed source(s) and associated run script(s) are located at: c++: note: diagnostic msg: /tmp/MRCI_residualq3-57e80b.cpp c++: note: diagnostic msg: /tmp/MRCI_residualq3-57e80b.sh c++: note: diagnostic msg: ******************** gmake[4]: *** [Makefile:1558: mrci/MRCI_residualq3.lo] Error 1 gmake[4]: Leaving directory '/wrkdirs/usr/ports/science/bagel/work/bagel-1.2.2/src/smith' gmake[3]: *** [Makefile:640: all-recursive] Error 1 gmake[3]: Leaving directory '/wrkdirs/usr/ports/science/bagel/work/bagel-1.2.2/src' gmake[2]: *** [Makefile:421: all-recursive] Error 1 gmake[2]: Leaving directory '/wrkdirs/usr/ports/science/bagel/work/bagel-1.2.2' gmake[1]: *** [Makefile:353: all] Error 2 gmake[1]: Leaving directory '/wrkdirs/usr/ports/science/bagel/work/bagel-1.2.2' *** Error code 1 Stop. make: stopped in /usr/ports/science/bagel
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