Building tRNAscan-SE-1.23_1.txz (origin /buildshare/ports/355755/biology/tRNAscan-SE) for powerpc-10-0 on XXX slot2: created x distfiles/ x distfiles/tRNAscan-SE-1.23.tar.Z x packages/ x packages/perl5-5.16.3_10.txz x packages/pkg-1.2.7_2.txz ELF ldconfig path: /lib /usr/lib /usr/lib/compat Make depends ===> tRNAscan-SE-1.23_1 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 tRNAscan-SE-1.23_1 ===> tRNAscan-SE-1.23_1 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 tRNAscan-SE-1.23_1 ===> tRNAscan-SE-1.23_1 depends on file: /usr/local/bin/perl5.16.3 - found Make install ===> tRNAscan-SE-1.23_1 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by tRNAscan-SE-1.23_1 for building ===> Extracting for tRNAscan-SE-1.23_1 => SHA256 Checksum OK for tRNAscan-SE-1.23.tar.Z. ===> Patching for tRNAscan-SE-1.23_1 ===> Applying FreeBSD patches for tRNAscan-SE-1.23_1 ===> tRNAscan-SE-1.23_1 depends on file: /usr/local/bin/perl5.16.3 - found ===> Configuring for tRNAscan-SE-1.23_1 ===> Building for tRNAscan-SE-1.23_1 cc -O2 -pipe -fno-strict-aliasing -c trnascan.c cc -O2 -pipe -fno-strict-aliasing -DTSCANDIR=\"/usr/local/share/tRNAscan-SE\" -o trnascan-1.4 trnascan.c cc -O2 -pipe -fno-strict-aliasing -c align.c cc -O2 -pipe -fno-strict-aliasing -c dbviterbi.c cc -O2 -pipe -fno-strict-aliasing -c debug.c cc -O2 -pipe -fno-strict-aliasing -c emit.c cc -O2 -pipe -fno-strict-aliasing -c fast-dbviterbi.c cc -O2 -pipe -fno-strict-aliasing -c fastmodelmaker.c cc -O2 -pipe -fno-strict-aliasing -c konings.c cc -O2 -pipe -fno-strict-aliasing -c lengthdist.c cc -O2 -pipe -fno-strict-aliasing -c maxmodelmaker.c cc -O2 -pipe -fno-strict-aliasing -c misc.c cc -O2 -pipe -fno-strict-aliasing -c model.c cc -O2 -pipe -fno-strict-aliasing -c modelmaking.c cc -O2 -pipe -fno-strict-aliasing -c prior.c cc -O2 -pipe -fno-strict-aliasing -c probify.c cc -O2 -pipe -fno-strict-aliasing -c save.c cc -O2 -pipe -fno-strict-aliasing -c smallviterbi.c cc -O2 -pipe -fno-strict-aliasing -c scorestack.c scorestack.c: In function 'free_hitstack': scorestack.c:247: warning: comparison between pointer and integer cc -O2 -pipe -fno-strict-aliasing -c structs.c cc -O2 -pipe -fno-strict-aliasing -c trace.c cc -O2 -pipe -fno-strict-aliasing -c viterbi.c cc -O2 -pipe -fno-strict-aliasing -c alignio.c cc -O2 -pipe -fno-strict-aliasing -c sqerror.c cc -O2 -pipe -fno-strict-aliasing -c sqio.c cc -O2 -pipe -fno-strict-aliasing -c iupac.c cc -O2 -pipe -fno-strict-aliasing -c msf.c cc -O2 -pipe -fno-strict-aliasing -c revcomp.c cc -O2 -pipe -fno-strict-aliasing -c selex.c cc -O2 -pipe -fno-strict-aliasing -c sre_ctype.c cc -O2 -pipe -fno-strict-aliasing -c sre_math.c cc -O2 -pipe -fno-strict-aliasing -c sre_string.c cc -O2 -pipe -fno-strict-aliasing -c stack.c cc -O2 -pipe -fno-strict-aliasing -c types.c cc -O2 -pipe -fno-strict-aliasing -c gnuregex.c cc -O2 -pipe -fno-strict-aliasing -c interleaved.c cc -O2 -pipe -fno-strict-aliasing -c getopt.c cc -O2 -pipe -fno-strict-aliasing -c scan_main.c cc -O2 -pipe -fno-strict-aliasing -DRELEASE="2.4.4" -DRELEASEDATE="April 2002" -o covels-SE scan_main.o align.o dbviterbi.o debug.o emit.o fast-dbviterbi.o fastmodelmaker.o konings.o lengthdist.o maxmodelmaker.o misc.o model.o modelmaking.o prior.o probify.o save.o smallviterbi.o scorestack.o structs.o trace.o viterbi.o alignio.o sqerror.o sqio.o iupac.o msf.o revcomp.o selex.o sre_ctype.o sre_math.o sre_string.o stack.o types.o gnuregex.o interleaved.o getopt.o -lm cc -O2 -pipe -fno-strict-aliasing -c score_main.c cc -O2 -pipe -fno-strict-aliasing -DRELEASE="2.4.4" -DRELEASEDATE="April 2002" -o coves-SE score_main.o align.o dbviterbi.o debug.o emit.o fast-dbviterbi.o fastmodelmaker.o konings.o lengthdist.o maxmodelmaker.o misc.o model.o modelmaking.o prior.o probify.o save.o smallviterbi.o scorestack.o structs.o trace.o viterbi.o alignio.o sqerror.o sqio.o iupac.o msf.o revcomp.o selex.o sre_ctype.o sre_math.o sre_string.o stack.o types.o gnuregex.o interleaved.o getopt.o -lm cc -O2 -pipe -fno-strict-aliasing -c pavesi.c cc -O2 -pipe -fno-strict-aliasing -c eufind_main.c cc -O2 -pipe -fno-strict-aliasing -o eufindtRNA eufind_main.o pavesi.o alignio.o sqerror.o sqio.o iupac.o msf.o revcomp.o selex.o sre_ctype.o sre_math.o sre_string.o stack.o types.o gnuregex.o interleaved.o getopt.o -lm /usr/local/bin/perl checkversion.pl sed 's#/tmp#/tmp#g' tRNAscan-SE.src | sed 's#bindir = ""#bindir =\"/usr/local/bin/"#g' | sed 's#/usr/local/lib/tRNAscanSE#/usr/local/share/tRNAscan-SE#g' | sed 's#version = ""#version = "1.23"#' | sed 's#release_date = ""#release_date = "April 2002"#' | sed 's#/usr/bin/perl#/usr/local/bin/perl#' > tRNAscan-SE sed 's#/usr/bin/perl#/usr/local/bin/perl#' instman.pl > instman sed 's#/usr/bin/perl#/usr/local/bin/perl#' sstofa.pl > sstofa tRNAscan-SE built ===> Staging for tRNAscan-SE-1.23_1 ===> tRNAscan-SE-1.23_1 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/tRNAscan-SE/work/tRNAscan-SE-1.23/covels-SE /obj/buildshare/ports/355755/biology/tRNAscan-SE/work/stage/usr/local/bin install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/tRNAscan-SE/work/tRNAscan-SE-1.23/coves-SE /obj/buildshare/ports/355755/biology/tRNAscan-SE/work/stage/usr/local/bin install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/tRNAscan-SE/work/tRNAscan-SE-1.23/eufindtRNA /obj/buildshare/ports/355755/biology/tRNAscan-SE/work/stage/usr/local/bin install -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/tRNAscan-SE/work/tRNAscan-SE-1.23/trnascan-1.4 /obj/buildshare/ports/355755/biology/tRNAscan-SE/work/stage/usr/local/bin install -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/tRNAscan-SE/work/tRNAscan-SE-1.23/tRNAscan-SE /obj/buildshare/ports/355755/biology/tRNAscan-SE/work/stage/usr/local/bin install -o root -g wheel -m 444 /obj/buildshare/ports/355755/biology/tRNAscan-SE/work/tRNAscan-SE-1.23/tRNAscan-SE.man /obj/buildshare/ports/355755/biology/tRNAscan-SE/work/stage/usr/local/man/man1/tRNAscan-SE.1 install -o root -g wheel -m 444 /obj/buildshare/ports/355755/biology/tRNAscan-SE/work/tRNAscan-SE-1.23/TPCsignal /obj/buildshare/ports/355755/biology/tRNAscan-SE/work/stage/usr/local/share/tRNAscan-SE install -o root -g wheel -m 444 /obj/buildshare/ports/355755/biology/tRNAscan-SE/work/tRNAscan-SE-1.23/Dsignal /obj/buildshare/ports/355755/biology/tRNAscan-SE/work/stage/usr/local/share/tRNAscan-SE install -o root -g wheel -m 444 /obj/buildshare/ports/355755/biology/tRNAscan-SE/work/tRNAscan-SE-1.23/*.cm /obj/buildshare/ports/355755/biology/tRNAscan-SE/work/stage/usr/local/share/tRNAscan-SE install -o root -g wheel -m 444 /obj/buildshare/ports/355755/biology/tRNAscan-SE/work/tRNAscan-SE-1.23/gcode.* /obj/buildshare/ports/355755/biology/tRNAscan-SE/work/stage/usr/local/share/tRNAscan-SE install -o root -g wheel -m 444 /obj/buildshare/ports/355755/biology/tRNAscan-SE/work/tRNAscan-SE-1.23/Manual.ps /obj/buildshare/ports/355755/biology/tRNAscan-SE/work/stage/usr/local/share/doc/tRNAscan-SE ====> Compressing man pages (compress-man) ===> Installing for tRNAscan-SE-1.23_1 ===> Checking if biology/tRNAscan-SE already installed ===> Registering installation for tRNAscan-SE-1.23_1 Installing tRNAscan-SE-1.23_1... done Make package ===> Building package for tRNAscan-SE-1.23_1 slot2: removed