Building muscle-3.6.txz (origin /buildshare/ports/355755/biology/muscle) for powerpc-10-0 on XXX
slot2: created
x distfiles/
x distfiles/muscle.html
x distfiles/muscle.pdf
x distfiles/muscle3.6_src.tar.gz
x packages/
x packages/gmake-3.82_1.txz
x packages/pkg-1.2.7_2.txz
x packages/gettext-0.18.3.1_1.txz
ELF ldconfig path: /lib /usr/lib /usr/lib/compat
Make depends
===>   muscle-3.6 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 muscle-3.6
===>   muscle-3.6 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 muscle-3.6
Make install
===>   muscle-3.6 depends on file: /usr/local/sbin/pkg - found
===> Fetching all distfiles required by muscle-3.6 for building
===>  Extracting for muscle-3.6
=> SHA256 Checksum OK for muscle3.6_src.tar.gz.
=> SHA256 Checksum OK for muscle.pdf.
=> SHA256 Checksum OK for muscle.html.
===>  Patching for muscle-3.6
===>   Converting DOS text files to UNIX text files
===>  Applying FreeBSD patches for muscle-3.6
===>   muscle-3.6 depends on executable: gmake - found
===>  Configuring for muscle-3.6
===>  Building for muscle-3.6
gmake[1]: Entering directory `/obj/buildshare/ports/355755/biology/muscle/work/muscle3.6_src'
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o aligngivenpath.o aligngivenpath.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o aligngivenpathsw.o aligngivenpathsw.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o aligntwomsas.o aligntwomsas.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o aligntwoprofs.o aligntwoprofs.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o aln.o aln.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o alpha.o alpha.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o anchors.o anchors.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o bittraceback.o bittraceback.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o blosumla.o blosumla.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o clust.o clust.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o cluster.o cluster.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o clwwt.o clwwt.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o color.o color.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o cons.o cons.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o diaglist.o diaglist.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o diffobjscore.o diffobjscore.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o diffpaths.o diffpaths.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o difftrees.o difftrees.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o difftreese.o difftreese.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o distcalc.o distcalc.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o distfunc.o distfunc.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o distpwkimura.o distpwkimura.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o domuscle.o domuscle.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o dosp.o dosp.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o dpreglist.o dpreglist.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o drawtree.o drawtree.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o edgelist.o edgelist.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o enumopts.o enumopts.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o enumtostr.o enumtostr.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o estring.o estring.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o fasta.o fasta.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o fasta2.o fasta2.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o fastclust.o fastclust.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o fastdist.o fastdist.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o fastdistjones.o fastdistjones.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o fastdistkbit.o fastdistkbit.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o fastdistkmer.o fastdistkmer.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o fastdistmafft.o fastdistmafft.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o fastdistnuc.o fastdistnuc.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o fastscorepath2.o fastscorepath2.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o finddiags.o finddiags.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o finddiagsn.o finddiagsn.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o glbalign.o glbalign.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o glbalign352.o glbalign352.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o glbaligndiag.o glbaligndiag.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o glbalignle.o glbalignle.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o glbalignsimple.o glbalignsimple.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o glbalignsp.o glbalignsp.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o glbalignspn.o glbalignspn.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o glbalignss.o glbalignss.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o glbalndimer.o glbalndimer.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o globals.o globals.cpp
globals.cpp: In function 'void Log(const char*, ...)':
globals.cpp:50: warning: deprecated conversion from string constant to 'char*'
globals.cpp:52: warning: deprecated conversion from string constant to 'char*'
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o globalslinux.o globalslinux.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o globalswin32.o globalswin32.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o gonnet.o gonnet.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o gotowt.o gotowt.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o henikoffweight.o henikoffweight.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o henikoffweightpb.o henikoffweightpb.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o html.o html.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o hydro.o hydro.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o intmath.o intmath.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o local.o local.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o main.o main.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o makerootmsa.o makerootmsa.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o makerootmsab.o makerootmsab.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o mhack.o mhack.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o mpam200.o mpam200.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o msa.o msa.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o msa2.o msa2.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o msadistkimura.o msadistkimura.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o msf.o msf.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o muscle.o muscle.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o muscleout.o muscleout.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o nucmx.o nucmx.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o nwdasimple.o nwdasimple.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o nwdasimple2.o nwdasimple2.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o nwdasmall.o nwdasmall.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o nwrec.o nwrec.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o nwsmall.o nwsmall.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o objscore.o objscore.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o objscore2.o objscore2.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o objscoreda.o objscoreda.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o onexception.o onexception.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o options.o options.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o outweights.o outweights.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o pam200mafft.o pam200mafft.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o params.o params.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o phy.o phy.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o phy2.o phy2.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o phy3.o phy3.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o phy4.o phy4.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o phyfromclust.o phyfromclust.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o phyfromfile.o phyfromfile.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o physeq.o physeq.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o phytofile.o phytofile.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o posgap.o posgap.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o ppscore.o ppscore.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o profdb.o profdb.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o profile.o profile.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o profilefrommsa.o profilefrommsa.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o progalign.o progalign.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o progress.o progress.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o progressivealign.o progressivealign.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o pwpath.o pwpath.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o readmx.o readmx.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o realigndiffs.o realigndiffs.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o realigndiffse.o realigndiffse.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o refine.o refine.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o refinehoriz.o refinehoriz.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o refinesubfams.o refinesubfams.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o refinetree.o refinetree.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o refinetreee.o refinetreee.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o refinevert.o refinevert.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o refinew.o refinew.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o savebest.o savebest.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o scoregaps.o scoregaps.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o scorehistory.o scorehistory.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o scorepp.o scorepp.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o seq.o seq.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o seqvect.o seqvect.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o setblosumweights.o setblosumweights.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o setgscweights.o setgscweights.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o setnewhandler.o setnewhandler.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o spfast.o spfast.cpp
spfast.cpp: In function 'char* GapTypeToStr(int)':
spfast.cpp:18: warning: deprecated conversion from string constant to 'char*'
spfast.cpp:19: warning: deprecated conversion from string constant to 'char*'
spfast.cpp:20: warning: deprecated conversion from string constant to 'char*'
spfast.cpp:21: warning: deprecated conversion from string constant to 'char*'
spfast.cpp:24: warning: deprecated conversion from string constant to 'char*'
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o sptest.o sptest.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o stabilize.o stabilize.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o subfam.o subfam.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o subfams.o subfams.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o sw.o sw.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o termgaps.o termgaps.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o textfile.o textfile.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o threewaywt.o threewaywt.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o traceback.o traceback.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o tracebackopt.o tracebackopt.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o tracebacksw.o tracebacksw.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o treefrommsa.o treefrommsa.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o typetostr.o typetostr.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o upgma2.o upgma2.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o usage.o usage.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o validateids.o validateids.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o vtml2.o vtml2.cpp
c++ -O2 -pipe -fno-strict-aliasing -O3 -funroll-loops -Winline -DNDEBUG=1   -c -o writescorefile.o writescorefile.cpp
g++   -o muscle aligngivenpath.o aligngivenpathsw.o aligntwomsas.o aligntwoprofs.o aln.o alpha.o anchors.o bittraceback.o blosumla.o clust.o cluster.o clwwt.o color.o cons.o diaglist.o diffobjscore.o diffpaths.o difftrees.o difftreese.o distcalc.o distfunc.o distpwkimura.o domuscle.o dosp.o dpreglist.o drawtree.o edgelist.o enumopts.o enumtostr.o estring.o fasta.o fasta2.o fastclust.o fastdist.o fastdistjones.o fastdistkbit.o fastdistkmer.o fastdistmafft.o fastdistnuc.o fastscorepath2.o finddiags.o finddiagsn.o glbalign.o glbalign352.o glbaligndiag.o glbalignle.o glbalignsimple.o glbalignsp.o glbalignspn.o glbalignss.o glbalndimer.o globals.o globalslinux.o globalswin32.o gonnet.o gotowt.o henikoffweight.o henikoffweightpb.o html.o hydro.o intmath.o local.o main.o makerootmsa.o makerootmsab.o mhack.o mpam200.o msa.o msa2.o msadistkimura.o msf.o muscle.o muscleout.o nucmx.o nwdasimple.o nwdasimple2.o nwdasmall.o nwrec.o nwsmall.o objscore.o objscore2.o objscoreda.o onexception.o options.o outweights.o pam200mafft.o params.o phy.o phy2.o phy3.o phy4.o phyfromclust.o phyfromfile.o physeq.o phytofile.o posgap.o ppscore.o profdb.o profile.o profilefrommsa.o progalign.o progress.o progressivealign.o pwpath.o readmx.o realigndiffs.o realigndiffse.o refine.o refinehoriz.o refinesubfams.o refinetree.o refinetreee.o refinevert.o refinew.o savebest.o scoregaps.o scorehistory.o scorepp.o seq.o seqvect.o setblosumweights.o setgscweights.o setnewhandler.o spfast.o sptest.o stabilize.o subfam.o subfams.o sw.o termgaps.o textfile.o threewaywt.o traceback.o tracebackopt.o tracebacksw.o treefrommsa.o typetostr.o upgma2.o usage.o validateids.o vtml2.o writescorefile.o -lm -lkvm
gmake[1]: Leaving directory `/obj/buildshare/ports/355755/biology/muscle/work/muscle3.6_src'
===>  Installing for muscle-3.6
===>   Generating temporary packing list
===>  Checking if biology/muscle already installed
install  -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/muscle/work/muscle3.6_src/muscle /usr/local/bin
===>   Registering installation for muscle-3.6
Installing muscle-3.6... done
Make package
===>  Building package for muscle-3.6
Creating package for muscle-3.6
slot2: removed