Building mummer-3.23.txz (origin /buildshare/ports/355755/biology/mummer) for powerpc-10-0 on XXX slot2: created x distfiles/ x distfiles/MUMmer3.23.tar.gz x packages/ x packages/pkg-1.2.7_2.txz x packages/gettext-0.18.3.1_1.txz x packages/gmake-3.82_1.txz ELF ldconfig path: /lib /usr/lib /usr/lib/compat Make depends ===> mummer-3.23 depends on file: /usr/local/sbin/pkg - not found ===> Verifying install for /usr/local/sbin/pkg in /buildshare/ports/355755/ports-mgmt/pkg ===> Installing existing package /packages/pkg-1.2.7_2.txz Installing pkg-1.2.7_2... done If you are upgrading from the old package format, first run: # pkg2ng ===> Returning to build of mummer-3.23 ===> mummer-3.23 depends on executable: gmake - not found ===> Verifying install for gmake in /buildshare/ports/355755/devel/gmake ===> Installing existing package /packages/gmake-3.82_1.txz Installing gmake-3.82_1...Installing gettext-0.18.3.1_1... done done ===> Returning to build of mummer-3.23 Make install ===> mummer-3.23 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by mummer-3.23 for building ===> Extracting for mummer-3.23 => SHA256 Checksum OK for MUMmer3.23.tar.gz. ===> Patching for mummer-3.23 ===> mummer-3.23 depends on executable: gmake - found ===> Configuring for mummer-3.23 ===> Building for mummer-3.23 perl: not found gmake[1]: Entering directory `/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23' cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/src/kurtz; gmake mummer gmake[2]: Entering directory `/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/src/kurtz' cd libbasedir; gmake libbase.a gmake[3]: Entering directory `/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/src/kurtz/libbasedir' /usr/bin/gcc -O3 -c -o cleanMUMcand.o cleanMUMcand.c /usr/bin/gcc -O3 -c -o clock.o clock.c /usr/bin/gcc -O3 -c -o mapfile.o mapfile.c /usr/bin/gcc -O3 -c -o multiseq.o multiseq.c /usr/bin/gcc -O3 -c -o procopt.o procopt.c /usr/bin/gcc -O3 -c -o safescpy.o safescpy.c /usr/bin/gcc -O3 -c -o seterror.o seterror.c /usr/bin/gcc -O3 -c -o space.o space.c ar sruv libbase.a cleanMUMcand.o clock.o mapfile.o multiseq.o procopt.o safescpy.o seterror.o space.o ar: warning: creating libbase.a a - cleanMUMcand.o a - clock.o a - mapfile.o a - multiseq.o a - procopt.o a - safescpy.o a - seterror.o a - space.o gmake[3]: Leaving directory `/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/src/kurtz/libbasedir' cd streesrc; gmake libstree.a gmake[3]: Entering directory `/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/src/kurtz/streesrc' /usr/bin/gcc -O3 -I../libbasedir -DSTREEHUGE -c -o construct.o construct.c /usr/bin/gcc -O3 -I../libbasedir -DSTREEHUGE -c -o access.o access.c /usr/bin/gcc -O3 -I../libbasedir -DSTREEHUGE -c -o scanpref.o scanpref.c /usr/bin/gcc -O3 -I../libbasedir -DSTREEHUGE -c -o linkloc.o linkloc.c /usr/bin/gcc -O3 -I../libbasedir -DSTREEHUGE -c -o depthtab.o depthtab.c /usr/bin/gcc -O3 -I../libbasedir -DSTREEHUGE -c -o ex2leav.o ex2leav.c /usr/bin/gcc -O3 -I../libbasedir -DSTREEHUGE -c -o dfs.o dfs.c /usr/bin/gcc -O3 -I../libbasedir -DSTREEHUGE -c -o overmax.o overmax.c /usr/bin/gcc -O3 -I../libbasedir -DSTREEHUGE -c -o oversucc.o oversucc.c /usr/bin/gcc -O3 -I../libbasedir -DSTREEHUGE -c -o addleafcount.o addleafcount.c /usr/bin/gcc -O3 -I../libbasedir -DSTREEHUGE -c -o iterator.o iterator.c ar sruv libstree.a construct.o access.o scanpref.o linkloc.o depthtab.o ex2leav.o dfs.o overmax.o oversucc.o addleafcount.o iterator.o ar: warning: creating libstree.a a - construct.o a - access.o a - scanpref.o a - linkloc.o a - depthtab.o a - ex2leav.o a - dfs.o a - overmax.o a - oversucc.o a - addleafcount.o a - iterator.o gmake[3]: Leaving directory `/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/src/kurtz/streesrc' cd mm3src; gmake mummer gmake[3]: Entering directory `/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/src/kurtz/mm3src' /usr/bin/gcc -O3 -I../libbasedir -I../streesrc -c -o maxmat3.o maxmat3.c /usr/bin/gcc -O3 -I../libbasedir -I../streesrc -c -o maxmatopt.o maxmatopt.c /usr/bin/gcc -O3 -I../libbasedir -I../streesrc -c -o maxmatinp.o maxmatinp.c /usr/bin/gcc -O3 -I../libbasedir -I../streesrc -c -o findmumcand.o findmumcand.c /usr/bin/gcc -O3 -I../libbasedir -I../streesrc -c -o findmaxmat.o findmaxmat.c /usr/bin/gcc -O3 -I../libbasedir -I../streesrc -c -o procmaxmat.o procmaxmat.c /usr/bin/gcc maxmat3.o maxmatopt.o maxmatinp.o findmumcand.o findmaxmat.o procmaxmat.o ../streesrc/libstree.a ../libbasedir/libbase.a \ -o /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/mummer; chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/mummer gmake[3]: Leaving directory `/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/src/kurtz/mm3src' gmake[2]: Leaving directory `/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/src/kurtz' cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/src/tigr; gmake all gmake[2]: Entering directory `/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/src/tigr' /usr/bin/g++ -O3 tigrinc.cc -c -o tigrinc.o /usr/bin/g++ -O3 annotate.cc tigrinc.o -o /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/annotate; chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/annotate /usr/bin/g++ -O3 combineMUMs.cc tigrinc.o -o /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/combineMUMs; chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/combineMUMs combineMUMs.cc:109: warning: deprecated conversion from string constant to 'char*' combineMUMs.cc:135: warning: deprecated conversion from string constant to 'char*' combineMUMs.cc:145: warning: deprecated conversion from string constant to 'char*' /usr/bin/g++ -O3 delta.cc -c -o delta.o /usr/bin/g++ -O3 delta-filter.cc tigrinc.o delta.o -o /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/delta-filter; chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/delta-filter /usr/bin/g++ -O3 gaps.cc tigrinc.o -o /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/gaps; chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/gaps /usr/bin/g++ -O3 mgaps.cc tigrinc.o -o /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/mgaps; chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/mgaps mgaps.cc: In function 'int Process_Cluster(Match_t*, int, char*)': mgaps.cc:533: warning: deprecated conversion from string constant to 'char*' mgaps.cc: In function 'void Process_Matches(Match_t*, int, char*)': mgaps.cc:620: warning: deprecated conversion from string constant to 'char*' /usr/bin/g++ -O3 sw_align.cc -c -o sw_align.o /usr/bin/g++ -O3 postnuc.cc tigrinc.o sw_align.o -o /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/aux_bin/postnuc; chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/aux_bin/postnuc /usr/bin/g++ -O3 translate.cc -c -o translate.o /usr/bin/g++ -O3 postpro.cc tigrinc.o sw_align.o translate.o -o /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/aux_bin/postpro; chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/aux_bin/postpro /usr/bin/g++ -O3 prenuc.cc tigrinc.o -o /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/aux_bin/prenuc; chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/aux_bin/prenuc /usr/bin/g++ -O3 prepro.cc tigrinc.o translate.o -o /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/aux_bin/prepro; chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/aux_bin/prepro /usr/bin/g++ -O3 repeat-match.cc tigrinc.o -o /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/repeat-match; chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/repeat-match /usr/bin/g++ -O3 show-aligns.cc tigrinc.o translate.o delta.o -o /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/show-aligns; chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/show-aligns /usr/bin/g++ -O3 show-coords.cc tigrinc.o delta.o -o /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/show-coords; chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/show-coords show-coords.cc: In function 'void printBtab(std::vector >)': show-coords.cc:799: warning: deprecated conversion from string constant to 'char*' show-coords.cc:801: warning: deprecated conversion from string constant to 'char*' show-coords.cc:803: warning: deprecated conversion from string constant to 'char*' /usr/bin/g++ -O3 show-tiling.cc tigrinc.o delta.o -o /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/show-tiling; chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/show-tiling /usr/bin/g++ -O3 show-snps.cc tigrinc.o translate.o delta.o -o /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/show-snps; chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/show-snps /usr/bin/g++ -O3 show-diff.cc tigrinc.o delta.o -o /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/show-diff; chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/show-diff gmake[2]: Leaving directory `/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/src/tigr' cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/scripts; gmake all perl: not found gmake[2]: Entering directory `/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/scripts' /usr/bin/sed -e 's?__CSH_PATH?/bin/csh?g' \ -e 's?__BIN_DIR?/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23?g' \ -e 's?__SCRIPT_DIR?/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/scripts?g' \ exact-tandems.csh > /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/exact-tandems chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/exact-tandems /usr/bin/sed -e 's?__PERL_PATH??g' \ -e 's?__SCRIPT_DIR?/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/scripts?g' \ mapview.pl > /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/mapview chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/mapview /usr/bin/sed -e 's?__PERL_PATH??g' \ -e 's?__SCRIPT_DIR?/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/scripts?g' \ -e 's?__BIN_DIR?/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23?g' \ mummerplot.pl > /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/mummerplot chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/mummerplot /usr/bin/sed -e 's?__PERL_PATH??g' \ -e 's?__SCRIPT_DIR?/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/scripts?g' \ -e 's?__AUX_BIN_DIR?/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/aux_bin?g' \ -e 's?__BIN_DIR?/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23?g' \ nucmer.pl > /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/nucmer chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/nucmer /usr/bin/sed -e 's?__PERL_PATH??g' \ -e 's?__SCRIPT_DIR?/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/scripts?g' \ -e 's?__AUX_BIN_DIR?/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/aux_bin?g' \ -e 's?__BIN_DIR?/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23?g' \ promer.pl > /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/promer chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/promer /usr/bin/sed -e 's?__CSH_PATH?/bin/csh?g' \ -e 's?__BIN_DIR?/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23?g' \ run-mummer1.csh > /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/run-mummer1 chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/run-mummer1 /usr/bin/sed -e 's?__CSH_PATH?/bin/csh?g' \ -e 's?__BIN_DIR?/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23?g' \ run-mummer3.csh > /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/run-mummer3 chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/run-mummer3 /usr/bin/sed -e 's?__PERL_PATH??g' \ nucmer2xfig.pl > /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/nucmer2xfig chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/nucmer2xfig /usr/bin/sed -e 's?__PERL_PATH??g' \ -e 's?__SCRIPT_DIR?/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/scripts?g' \ -e 's?__BIN_DIR?/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23?g' \ dnadiff.pl > /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/dnadiff chmod 755 /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/dnadiff gmake[2]: Leaving directory `/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23/scripts' gmake[1]: Leaving directory `/obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23' ===> Installing for mummer-3.23 ===> Generating temporary packing list ===> Checking if biology/mummer already installed (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -s -o root -g wheel -m 555 annotate /usr/local/bin) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -s -o root -g wheel -m 555 combineMUMs /usr/local/bin) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -s -o root -g wheel -m 555 delta-filter /usr/local/bin) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -s -o root -g wheel -m 555 gaps /usr/local/bin) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -s -o root -g wheel -m 555 mgaps /usr/local/bin) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -s -o root -g wheel -m 555 mummer /usr/local/bin) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -s -o root -g wheel -m 555 repeat-match /usr/local/bin) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -s -o root -g wheel -m 555 show-aligns /usr/local/bin) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -s -o root -g wheel -m 555 show-coords /usr/local/bin) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -s -o root -g wheel -m 555 show-diff /usr/local/bin) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -s -o root -g wheel -m 555 show-snps /usr/local/bin) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -s -o root -g wheel -m 555 show-tiling /usr/local/bin) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -o root -g wheel -m 555 dnadiff /usr/local/bin) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -o root -g wheel -m 555 exact-tandems /usr/local/bin) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -o root -g wheel -m 555 mapview /usr/local/bin) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -o root -g wheel -m 555 mummerplot /usr/local/bin) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -o root -g wheel -m 555 nucmer /usr/local/bin) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -o root -g wheel -m 555 nucmer2xfig /usr/local/bin) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -o root -g wheel -m 555 promer /usr/local/bin) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -o root -g wheel -m 555 run-mummer1 /usr/local/bin) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -o root -g wheel -m 555 run-mummer3 /usr/local/bin) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -o root -g wheel -m 444 COPYRIGHT /usr/local/share/doc/mummer) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -o root -g wheel -m 444 INSTALL /usr/local/share/doc/mummer) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -o root -g wheel -m 444 LICENSE /usr/local/share/doc/mummer) (cd /obj/buildshare/ports/355755/biology/mummer/work/MUMmer3.23 && install -o root -g wheel -m 444 README /usr/local/share/doc/mummer) ===> Registering installation for mummer-3.23 Installing mummer-3.23... done Make package ===> Building package for mummer-3.23 Creating package for mummer-3.23 slot2: removed