Building lagan-2.0.txz (origin /buildshare/ports/355755/biology/lagan) for powerpc-10-0 on XXX slot1: created x distfiles/ x distfiles/lagan20.tar.gz x packages/ x packages/pkg-1.2.7_2.txz x packages/perl5-5.16.3_10.txz ELF ldconfig path: /lib /usr/lib /usr/lib/compat Make depends ===> lagan-2.0 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 lagan-2.0 ===> lagan-2.0 depends on file: /usr/local/bin/perl5.16.3 - not found ===> Verifying install for /usr/local/bin/perl5.16.3 in /buildshare/ports/355755/lang/perl5.16 ===> Installing existing package /packages/perl5-5.16.3_10.txz Installing perl5-5.16.3_10... done ===> Returning to build of lagan-2.0 Make install ===> License GPLv2 accepted by the user ===> lagan-2.0 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by lagan-2.0 for building ===> Extracting for lagan-2.0 => SHA256 Checksum OK for lagan20.tar.gz. ===> Patching for lagan-2.0 ===> Applying FreeBSD patches for lagan-2.0 ===> Configuring for lagan-2.0 ===> Building for lagan-2.0 (cd src; /usr/bin/make) cc -O2 -pipe -fno-strict-aliasing -o ../anchors anchors.c skiplist.c cc -O2 -pipe -fno-strict-aliasing -o ../chaos fchaos.c thrtrie.c skiplist.c global.c translate.c filebuffer.c -lm -DCHAOS__FLAG fchaos.c: In function 'readfile': fchaos.c:353: warning: comparison is always true due to limited range of data type thrtrie.c: In function 'getNextWords': thrtrie.c:311: warning: comparison is always false due to limited range of data type cc -O2 -pipe -fno-strict-aliasing -o ../order order.c diagmatrix.c filebuffer.c order.c: In function 'readfile': order.c:71: warning: comparison is always true due to limited range of data type cc -O2 -pipe -fno-strict-aliasing -o ../mlagan mlagan.c multial.c diagmatrix.c skiplist.c filebuffer.c -lm -DMULTIAL__FLAG mlagan.c: In function 'readfile': mlagan.c:89: warning: comparison is always true due to limited range of data type cc -O2 -pipe -fno-strict-aliasing -o ../prolagan prolagan.c multial.c diagmatrix.c skiplist.c filebuffer.c -lm -DMULTIAL__FLAG prolagan.c: In function 'readfile': prolagan.c:89: warning: comparison is always true due to limited range of data type cc -O2 -pipe -fno-strict-aliasing -o ../utils/bin2mf utils/bin2mf.c cc -O2 -pipe -fno-strict-aliasing -o ../utils/bin2bl utils/bin2bl.c cc -O2 -pipe -fno-strict-aliasing -o ../utils/cextract utils/cextract.c cc -O2 -pipe -fno-strict-aliasing -o ../utils/cstat utils/cstat.c utils/cstat.c: In function 'cntlets': utils/cstat.c:49: warning: comparison is always true due to limited range of data type utils/cstat.c: In function 'readseq': utils/cstat.c:77: warning: comparison is always true due to limited range of data type cc -O2 -pipe -fno-strict-aliasing -o ../utils/contigorder utils/contigorder.c cc -O2 -pipe -fno-strict-aliasing -o ../utils/getbounds utils/getbounds.c cc -O2 -pipe -fno-strict-aliasing -o ../utils/getlength utils/getlength.c cc -O2 -pipe -fno-strict-aliasing -o ../utils/getoverlap utils/getoverlap.c cc -O2 -pipe -fno-strict-aliasing -o ../utils/rc utils/rc.c utils/rc.c: In function 'main': utils/rc.c:49: warning: comparison is always true due to limited range of data type cc -O2 -pipe -fno-strict-aliasing -o ../utils/seqmerge utils/seqmerge.c cc -O2 -pipe -fno-strict-aliasing -o ../utils/scorealign utils/scorealign.c -lm cc -O2 -pipe -fno-strict-aliasing -o ../utils/scorecontigs utils/scorecontigs.c -lm cc -O2 -pipe -fno-strict-aliasing -o ../utils/getcontigpos utils/getcontigpos.c cc -O2 -pipe -fno-strict-aliasing -o ../utils/fa2xfa utils/fa2xfa.c c++ -O2 -pipe -fno-strict-aliasing -o ../utils/Glue utils/Glue.cpp utils/Glue.cpp: In function 'void calculateScoreMatrix(int)': utils/Glue.cpp:64: warning: deprecated conversion from string constant to 'char*' utils/Glue.cpp:72: warning: deprecated conversion from string constant to 'char*' c++ -O2 -pipe -fno-strict-aliasing -o ../utils/dotplot utils/dotplot.cpp cc -O2 -pipe -fno-strict-aliasing -o ../utils/overlay utils/overlay.c utils/overlay.c: In function 'read_align': utils/overlay.c:118: warning: comparison is always true due to limited range of data type (cd glocal; /usr/bin/make) cc -Wno-deprecated -O2 -pipe -fno-strict-aliasing -I./ -c glocal.cpp cc -Wno-deprecated -O2 -pipe -fno-strict-aliasing -I./ -c io.cpp cc -Wno-deprecated -O2 -pipe -fno-strict-aliasing -I./ -c rightinfluence.cpp cc -Wno-deprecated -O2 -pipe -fno-strict-aliasing -I./ -c leftinfluence.cpp cc -Wno-deprecated -O2 -pipe -fno-strict-aliasing -I./ -c score.cpp c++ glocal.o io.o rightinfluence.o leftinfluence.o score.o -o ../../glocal -lm ===> Staging for lagan-2.0 ===> lagan-2.0 depends on file: /usr/local/bin/perl5.16.3 - found ===> Generating temporary packing list install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/anchors /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/chaos /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/glocal /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/mlagan /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/order /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan install -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/anal_gloc.pl /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan install -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/lagan.pl /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan install -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/rechaos.pl /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan install -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/slagan.pl /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/Glue /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/bin2bl /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/bin2mf /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/cextract /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/contigorder /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/cstat /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/dotplot /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/fa2xfa /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/getbounds /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/getcontigpos /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/getlength /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/getoverlap /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/rc /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/scorealign /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/scorecontigs /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/seqmerge /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/cmerge2.pl /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/draft.pl /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/mextract.pl /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/mf2bin.pl /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/mpretty.pl /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/mproject.pl /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/mrun.pl /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/mrunfile.pl /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/mrunpairs.pl /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/utils/mviz.pl /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/utils install -o root -g wheel -m 444 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/Readmes/README.FIRST /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/Readmes install -o root -g wheel -m 444 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/Readmes/README.chaos /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/Readmes install -o root -g wheel -m 444 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/Readmes/README.lagan /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/Readmes install -o root -g wheel -m 444 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/Readmes/README.mlagan /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/Readmes install -o root -g wheel -m 444 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/Readmes/README.tools /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/Readmes install -o root -g wheel -m 444 /obj/buildshare/ports/355755/biology/lagan/work/lagan20/Readmes/README.shuffle /obj/buildshare/ports/355755/biology/lagan/work/stage/usr/local/lagan/Readmes ====> Compressing man pages (compress-man) ===> Installing for lagan-2.0 ===> Checking if biology/lagan already installed ===> Registering installation for lagan-2.0 Installing lagan-2.0... done =============================================================================== All the executables, scripts, Readmes and utilities were installed under /usr/local/lagan Add this to your PATH and set the environment variable LAGAN_DIR to point to this directory. =============================================================================== Make package ===> Building package for lagan-2.0 slot1: removed