=> Bootstrap dependency digest>=20211023: found digest-20211023 WARNING: [license.mk] Every package should define a LICENSE. => Checksum BLAKE2s OK for mpqc-2.3.1.tar.bz2 => Checksum SHA512 OK for mpqc-2.3.1.tar.bz2 ===> Installing dependencies for mpqc-2.3.1nb11 ========================================================================== The following variables will affect the build process of this package, mpqc-2.3.1nb11. Their current value is shown below: * PKGSRC_BLAS_TYPES = netlib openblas openblas_pthread openblas_openmp Based on these variables, the following variables have been set: * BLAS_INCLUDES (not defined) * BLAS_LIBS = -lblas * BLAS_TYPE = netlib * CBLAS_LIBS = -lcblas -lblas * LAPACKE_LIBS = -llapacke -llapack -lblas * LAPACK_LIBS = -llapack -lblas You may want to abort the process now with CTRL-C and change the value of variables in the first group before continuing. Be sure to run `/usr/bin/make clean' after the changes. ========================================================================== => Tool dependency libtool-base>=2.4.2nb9: found libtool-base-2.4.6nb3 => Tool dependency gmake>=3.81: found gmake-4.3nb2 => Tool dependency f2c>=20090411nb2: found f2c-20100903nb1 => Tool dependency checkperms>=1.1: found checkperms-1.12 => Build dependency libtool-fortran>=2.4.2nb9: found libtool-fortran-2.4.6nb2 => Build dependency libint>=2.0.0: found libint-2.0.0 => Build dependency cwrappers>=20150314: found cwrappers-20180325 => Full dependency perl>=5.0: found perl-5.34.0nb3 => Full dependency lapack>=3.9.0nb1: found lapack-3.9.1nb1 => Full dependency libf2c>=20090201nb3: found libf2c-20090201nb3 ===> Skipping vulnerability checks. WARNING: No /usr/pkg/pkgdb/pkg-vulnerabilities file found. WARNING: To fix run: `/usr/sbin/pkg_admin -K /usr/pkg/pkgdb fetch-pkg-vulnerabilities'. ===> Overriding tools for mpqc-2.3.1nb11 ===> Extracting for mpqc-2.3.1nb11 ===> Patching for mpqc-2.3.1nb11 => Applying pkgsrc patches for mpqc-2.3.1nb11 => Verifying /amd/pkgsrc/CHROOT/P/pkgsrc/biology/mpqc/patches/patch-configure => Applying pkgsrc patch /amd/pkgsrc/CHROOT/P/pkgsrc/biology/mpqc/patches/patch-configure Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-configure,v 1.2 2013/11/29 12:53:26 joerg Exp $ | |--- configure.orig 2006-03-22 19:13:52.000000000 +0000 |+++ configure -------------------------- Patching file configure using Plan A... Hunk #1 succeeded at 2290. Hunk #2 succeeded at 4349. Hunk #3 succeeded at 5212. Hunk #4 succeeded at 5270. Hunk #5 succeeded at 6568. Hunk #6 succeeded at 6702. Hunk #7 succeeded at 28634. Hunk #8 succeeded at 28813. Hunk #9 succeeded at 28851. done => Verifying /amd/pkgsrc/CHROOT/P/pkgsrc/biology/mpqc/patches/patch-configure.in => Applying pkgsrc patch /amd/pkgsrc/CHROOT/P/pkgsrc/biology/mpqc/patches/patch-configure.in Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-configure.in,v 1.1.1.1 2013/03/16 12:43:26 asau Exp $ | |--- configure.in.orig 2006-03-22 18:04:54.000000000 +0000 |+++ configure.in -------------------------- Patching file configure.in using Plan A... Hunk #1 succeeded at 488. Hunk #2 succeeded at 747. Hunk #3 succeeded at 759. Hunk #4 succeeded at 1769. done => Verifying /amd/pkgsrc/CHROOT/P/pkgsrc/biology/mpqc/patches/patch-src_bin_mpqc_ccarunproc => Applying pkgsrc patch /amd/pkgsrc/CHROOT/P/pkgsrc/biology/mpqc/patches/patch-src_bin_mpqc_ccarunproc Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-src_bin_mpqc_ccarunproc,v 1.1.1.1 2013/03/16 12:43:26 asau Exp $ | |--- src/bin/mpqc/ccarunproc.orig 2005-07-28 17:52:36.000000000 +0000 |+++ src/bin/mpqc/ccarunproc -------------------------- Patching file src/bin/mpqc/ccarunproc using Plan A... Hunk #1 succeeded at 1. Hunk #2 succeeded at 13. done => Verifying /amd/pkgsrc/CHROOT/P/pkgsrc/biology/mpqc/patches/patch-src_bin_mpqc_mpqcrunproc => Applying pkgsrc patch /amd/pkgsrc/CHROOT/P/pkgsrc/biology/mpqc/patches/patch-src_bin_mpqc_mpqcrunproc Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-src_bin_mpqc_mpqcrunproc,v 1.1.1.1 2013/03/16 12:43:26 asau Exp $ | |--- src/bin/mpqc/mpqcrunproc.orig 2005-03-17 05:56:57.000000000 +0000 |+++ src/bin/mpqc/mpqcrunproc -------------------------- Patching file src/bin/mpqc/mpqcrunproc using Plan A... Hunk #1 succeeded at 1. Hunk #2 succeeded at 12. done ===> Creating toolchain wrappers for mpqc-2.3.1nb11 ===> Configuring for mpqc-2.3.1nb11 => Modifying GNU configure scripts to avoid --recheck => Replacing config-guess with pkgsrc versions => Replacing config-sub with pkgsrc versions => Replacing install-sh with pkgsrc version => Replacing wish interpreter in src/bin/molrender/tkmolrender.in. INFO: [replace-interpreter] Nothing changed in src/bin/molrender/tkmolrender.in. => Replacing Perl interpreter in src/bin/mpqc/ccarun.in src/bin/mpqc/mpqcrun.in. => Checking for portability problems in extracted files checking build system type... x86_64--netbsd checking host system type... x86_64--netbsd checking target system type... x86_64--netbsd Using extra library directories: -L/usr/pkg/lib -Wl,-R/usr/pkg/lib checking whether ln -s works... yes checking for a BSD-compatible install... /usr/bin/install -c -o pbulk -g wheel checking for x86_64--netbsd-ranlib... no checking for ranlib... ranlib checking for x86_64--netbsd-gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... 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 ANSI C... none needed checking for g++... c++ checking for x86_64--netbsd-g++... (cached) c++ checking whether we are using the GNU C++ compiler... yes checking whether c++ accepts -g... yes checking for x86_64--netbsd-g77... gfortran checking whether we are using the GNU Fortran 77 compiler... yes checking whether gfortran accepts -g... yes checking how to get verbose linking output from gfortran... -v checking for Fortran libraries of gfortran... -Wl,-R/usr/pkg/lib -L/usr/pkg/lib -lf2c -lm checking how to run the C preprocessor... gcc -E checking how to run the C++ preprocessor... c++ -E checking for ar... ar checking for perl... /usr/pkg/bin/perl checking for wish... (cached) /usr/pkg/bin/wish checking for dot... NO checking for miscellaneous flags... none checking for special optimization options... "none" checking for C++ cpu tuning flag... -mcpu checking for C cpu tuning flag... -mcpu checking for special architecture options... "none" checking "for C++ typename keyword"... "yes" checking for egrep... 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 iostream usability... yes checking iostream presence... yes checking for iostream... yes checking sstream usability... yes checking sstream presence... yes checking for sstream... yes checking iostream name... iostream checking "for namespace std"... "yes" checking "for GNU libc++-v3 prerelease bug"... "no" checking fp.h usability... no checking fp.h presence... no checking for fp.h... no checking endian.h usability... yes checking endian.h presence... yes checking for endian.h... yes checking machine/endian.h usability... yes checking machine/endian.h presence... yes checking for machine/endian.h... yes checking sys/endian.h usability... yes checking sys/endian.h presence... yes checking for sys/endian.h... yes checking sys/machine.h usability... no checking sys/machine.h presence... no checking for sys/machine.h... no checking whether byte ordering is bigendian... no checking pthreads... yes checking for pthread_attr_getstacksize... yes checking for pthread_attr_setstacksize... yes checking for pthread_attr_setscope... yes checking for pthread_attr_getscope... yes checking for pthread_attr_setinheritsched... yes checking for pthread_attr_getinheritsched... yes checking for pthread_attr_setschedpolicy... yes checking for pthread_attr_getschedpolicy... yes checking for pthread_attr_setschedparam... yes checking for pthread_attr_getschedparam... yes checking for sched_get_priority_max... yes checking for sched_get_priority_min... yes checking for main in -ldl... no checking for main in -lm... yes checking for main in -lfl... yes checking perf.h usability... no checking perf.h presence... no checking for perf.h... no checking execinfo.h usability... yes checking execinfo.h presence... yes checking for execinfo.h... yes checking for backtrace... no checking for backtrace_symbols_fd... no checking for mpi.h... no checking armci.h usability... no checking armci.h presence... no checking for armci.h... no checking for ANSI C header files... (cached) yes checking fcntl.h usability... yes checking fcntl.h presence... yes checking for fcntl.h... yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking sys/ioctl.h usability... yes checking sys/ioctl.h presence... yes checking for sys/ioctl.h... yes checking sys/time.h usability... yes checking sys/time.h presence... yes checking for sys/time.h... yes checking for unistd.h... (cached) yes checking pwd.h usability... yes checking pwd.h presence... yes checking for pwd.h... yes checking sys/times.h usability... yes checking sys/times.h presence... yes checking for sys/times.h... yes checking sys/resource.h usability... yes checking sys/resource.h presence... yes checking for sys/resource.h... yes checking time.h usability... yes checking time.h presence... yes checking for time.h... yes checking machine/fpu.h usability... yes checking machine/fpu.h presence... yes checking for machine/fpu.h... yes checking asm/fpu.h usability... no checking asm/fpu.h presence... no checking for asm/fpu.h... no checking termios.h usability... yes checking termios.h presence... yes checking for termios.h... yes checking for sys/stat.h... (cached) yes checking for sys/types.h... (cached) yes checking dlfcn.h usability... yes checking dlfcn.h presence... yes checking for dlfcn.h... yes checking for stdint.h... (cached) yes checking for an ANSI C-conforming const... yes checking for size_t... yes checking whether struct tm is in sys/time.h or time.h... time.h checking return type of signal handlers... void checking for vprintf... yes checking for _doprnt... no checking for strerror... yes checking for sigfillset... yes checking for signal... yes checking for system... yes checking for getpwuid... yes checking for geteuid... yes checking for gethostname... yes checking for time... yes checking for ctime... yes checking for setrlimit... yes checking for setenv... yes checking isnan and iostream... yes checking fenv.h usability... yes checking fenv.h presence... yes checking for fenv.h... yes checking for feenableexcept... yes checking for fedisableexcept... yes checking fchdir... yes checking ios::fmtflags... yes checking long long... yes checking sgetn... yes checking pubseekoff... yes checking seekoff... no checking signal handler needs ellipsis... no checking for drand48... yes checking for shmget... yes checking for semget... yes checking sys/ipc.h usability... yes checking sys/ipc.h presence... yes checking for sys/ipc.h... yes checking sys/sem.h usability... yes checking sys/sem.h presence... yes checking for sys/sem.h... yes checking sys/shm.h usability... yes checking sys/shm.h presence... yes checking for sys/shm.h... yes checking for SYSV IPC... yes checking if semctl requires semun... no checking if fortran compiler works... yes checking fortran symbols... lowercase with underscore checking for daxpy_... no checking for daxpy_ in -lessl... no checking for daxpy_ in -lblas... yes checking for dgesvd_... no checking for dgesvd_ in -llapack... yes checking for sB_init... no checking for sB_init in -lsB_BLAS... no checking for niama-config... no checking libint/libint.h usability... no checking libint/libint.h presence... no checking for libint/libint.h... no checking libr12/libr12.h usability... no checking libr12/libr12.h presence... no checking for libr12/libr12.h... no checking libderiv/libderiv.h usability... no checking libderiv/libderiv.h presence... no checking for libderiv/libderiv.h... no checking template instantiation flags... none checking for special flags that must be set last... none checking for a sed that does not truncate output... /usr/pkg/bin/gsed checking for ld used by gcc... /tmp/biology/mpqc/work/.cwrapper/bin/ld checking if the linker (/tmp/biology/mpqc/work/.cwrapper/bin/ld) is GNU ld... yes checking for /tmp/biology/mpqc/work/.cwrapper/bin/ld option to reload object files... -r checking for BSD-compatible nm... /usr/bin/nm -B checking how to recognise dependent libraries... match_pattern /lib[^/]+(\.so|_pic\.a)$ checking for dlfcn.h... (cached) yes checking how to run the C++ preprocessor... c++ -E checking the maximum length of command line arguments... (cached) 262144 checking command to parse /usr/bin/nm -B output from gcc object... ok checking for objdir... .libs checking for x86_64--netbsd-ar... (cached) ar checking for x86_64--netbsd-ranlib... ranlib checking for x86_64--netbsd-strip... no checking for strip... strip checking for correct ltmain.sh version... yes checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC checking if gcc PIC flag -fPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking whether the gcc linker (/tmp/biology/mpqc/work/.cwrapper/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... NetBSD ld.elf_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... no checking whether to build static libraries... yes configure: creating libtool appending configuration tag "CXX" to libtool checking for ld used by c++... /tmp/biology/mpqc/work/.cwrapper/bin/ld checking if the linker (/tmp/biology/mpqc/work/.cwrapper/bin/ld) is GNU ld... yes checking whether the c++ linker (/tmp/biology/mpqc/work/.cwrapper/bin/ld) supports shared libraries... yes checking for c++ option to produce PIC... -fPIC checking if c++ PIC flag -fPIC works... yes checking if c++ static flag -static works... yes checking if c++ supports -c -o file.o... yes checking whether the c++ linker (/tmp/biology/mpqc/work/.cwrapper/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... NetBSD ld.elf_so checking how to hardcode library paths into programs... immediate appending configuration tag "F77" to libtool checking if libtool supports shared libraries... yes checking whether to build shared libraries... no checking whether to build static libraries... yes checking for gfortran option to produce PIC... -fPIC checking if gfortran PIC flag -fPIC works... yes checking if gfortran static flag -static works... no checking if gfortran supports -c -o file.o... yes checking whether the gfortran linker (/tmp/biology/mpqc/work/.cwrapper/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... NetBSD ld.elf_so checking how to hardcode library paths into programs... immediate Skipping ./Makefile Skipping ./bin/Makefile Skipping ./doc/Makefile Skipping ./lib/Makefile Skipping ./lib/basis/Makefile Skipping ./lib/cca/Makefile Skipping ./lib/elisp/Makefile Skipping ./lib/perl/Makefile Skipping ./src/bin/molrender/Makefile Skipping ./src/bin/Makefile Skipping ./src/bin/mpqc/Makefile Skipping ./src/bin/mpqc/validate/Makefile Skipping ./src/bin/scls/Makefile Skipping ./src/bin/scpr/Makefile Skipping ./src/lib/chemistry/cca/Makefile Skipping ./src/lib/chemistry/qc/basis/Makefile Skipping ./src/lib/chemistry/qc/Makefile Skipping ./src/lib/chemistry/qc/cints/Makefile Skipping ./src/lib/chemistry/qc/dft/Makefile Skipping ./src/lib/chemistry/qc/intcca/Makefile Skipping ./src/lib/chemistry/qc/intv3/Makefile Skipping ./src/lib/chemistry/qc/mbpt/Makefile Skipping ./src/lib/chemistry/qc/mbptr12/Makefile Skipping ./src/lib/chemistry/qc/oint3/Makefile Skipping ./src/lib/chemistry/qc/psi/Makefile Skipping ./src/lib/chemistry/qc/scf/Makefile Skipping ./src/lib/chemistry/qc/wfn/Makefile Skipping ./src/lib/chemistry/Makefile Skipping ./src/lib/chemistry/molecule/Makefile Skipping ./src/lib/chemistry/solvent/Makefile Skipping ./src/lib/Makefile Skipping ./src/lib/math/isosurf/Makefile Skipping ./src/lib/math/Makefile Skipping ./src/lib/math/optimize/Makefile Skipping ./src/lib/math/scmat/Makefile Skipping ./src/lib/math/symmetry/Makefile Skipping ./src/lib/util/class/Makefile Skipping ./src/lib/util/Makefile Skipping ./src/lib/util/container/Makefile Skipping ./src/lib/util/group/Makefile Skipping ./src/lib/util/keyval/Makefile Skipping ./src/lib/util/misc/Makefile Skipping ./src/lib/util/options/Makefile Skipping ./src/lib/util/psi3/libpsio/Makefile Skipping ./src/lib/util/psi3/Makefile Skipping ./src/lib/util/ref/Makefile Skipping ./src/lib/util/render/Makefile Skipping ./src/lib/util/state/Makefile Skipping ./src/Makefile configure: creating ./config.status config.status: creating lib/LocalMakefile config.status: creating lib/cca/components.cca config.status: creating bin/sc-config config.status: creating bin/mkf77sym.pl config.status: creating src/bin/mpqc/mpqcrun config.status: creating src/bin/mpqc/ccarun config.status: creating src/bin/mpqc/validate/makeccain.pl config.status: creating doc/doxygen.cfg config.status: creating doc/doxygen.man1.cfg config.status: creating doc/doxygen.man3.cfg config.status: creating src/lib/scconfig.h => Modifying libtool scripts to use pkgsrc libtool => Modifying libtool scripts to use pkgsrc depcomp