=> Bootstrap dependency digest>=20010302: found digest-20121220 => Bootstrap dependency fetch-[0-9]*: found fetch-1.8nb1 WARNING: [license.mk] Every package should define a LICENSE. => Checksum SHA1 OK for mpqc-2.3.1.tar.bz2 => Checksum RMD160 OK for mpqc-2.3.1.tar.bz2 ===> Installing dependencies for mpqc-2.3.1 => Build dependency libtool-base>=2.2.6bnb3: found libtool-base-2.2.6bnb8 => Build dependency nbpatch-[0-9]*: found nbpatch-20100124 => Build dependency f2c>=20090411nb2: found f2c-20100903 => Build dependency libint>=2.0.0: found libint-2.0.0 => Build dependency checkperms>=1.1: found checkperms-1.11 => Full dependency perl>=5.0: found perl-5.16.2nb4 => Full dependency libexecinfo>=1.1: found libexecinfo-1.1 => Full dependency blas>=1.0nb3: found blas-1.1nb2 => Full dependency lapack>=3.1.1: found lapack-3.1.1nb4 => Full dependency libf2c>=20090201nb3: found libf2c-20090201nb3 ===> Overriding tools for mpqc-2.3.1 ===> Extracting for mpqc-2.3.1 ===> Patching for mpqc-2.3.1 => Applying pkgsrc patches for mpqc-2.3.1 ===> Creating toolchain wrappers for mpqc-2.3.1 ===> Configuring for mpqc-2.3.1 => 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. => 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-unknown-linux-gnu checking host system type... x86_64-unknown-linux-gnu checking target system type... x86_64-unknown-linux-gnu Using extra library directories: -Wl,-R/usr/pkg/lib checking whether ln -s works... yes checking for a BSD-compatible install... /usr/bin/install -c -o pbulk -g pbulk checking for x86_64-unknown-linux-ranlib... no checking for ranlib... ranlib checking for x86_64-unknown-linux-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++... g++ checking for x86_64-unknown-linux-g++... 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GNU/Linux ld.so checking how to hardcode library paths into programs... immediate Skipping ./bin/Makefile Skipping ./doc/Makefile Skipping ./Makefile Skipping ./lib/basis/Makefile Skipping ./lib/elisp/Makefile Skipping ./lib/Makefile Skipping ./lib/perl/Makefile Skipping ./lib/cca/Makefile Skipping ./src/bin/molrender/Makefile Skipping ./src/bin/Makefile Skipping ./src/bin/mpqc/validate/Makefile Skipping ./src/bin/mpqc/Makefile Skipping ./src/bin/scpr/Makefile Skipping ./src/bin/scls/Makefile Skipping ./src/Makefile Skipping ./src/lib/Makefile Skipping ./src/lib/math/symmetry/Makefile Skipping ./src/lib/math/Makefile Skipping ./src/lib/math/optimize/Makefile Skipping ./src/lib/math/scmat/Makefile Skipping ./src/lib/math/isosurf/Makefile Skipping ./src/lib/util/render/Makefile Skipping ./src/lib/util/options/Makefile Skipping ./src/lib/util/misc/Makefile Skipping ./src/lib/util/Makefile Skipping ./src/lib/util/psi3/Makefile Skipping ./src/lib/util/psi3/libpsio/Makefile Skipping ./src/lib/util/container/Makefile Skipping ./src/lib/util/keyval/Makefile Skipping ./src/lib/util/group/Makefile Skipping ./src/lib/util/state/Makefile Skipping ./src/lib/util/ref/Makefile Skipping ./src/lib/util/class/Makefile Skipping ./src/lib/chemistry/Makefile Skipping ./src/lib/chemistry/solvent/Makefile Skipping ./src/lib/chemistry/qc/basis/Makefile Skipping ./src/lib/chemistry/qc/intcca/Makefile Skipping ./src/lib/chemistry/qc/mbpt/Makefile Skipping ./src/lib/chemistry/qc/mbptr12/Makefile Skipping ./src/lib/chemistry/qc/cints/Makefile Skipping ./src/lib/chemistry/qc/oint3/Makefile Skipping ./src/lib/chemistry/qc/intv3/Makefile Skipping ./src/lib/chemistry/qc/psi/Makefile Skipping ./src/lib/chemistry/qc/Makefile Skipping ./src/lib/chemistry/qc/scf/Makefile Skipping ./src/lib/chemistry/qc/wfn/Makefile Skipping ./src/lib/chemistry/qc/dft/Makefile Skipping ./src/lib/chemistry/cca/Makefile Skipping ./src/lib/chemistry/molecule/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