Building clustalw-2.1_1.txz (origin /buildshare/ports/355755/biology/clustalw) for powerpc-10-0 on XXX
slot1: created
x distfiles/
x distfiles/clustalw-2.1.tar.gz
x packages/
x packages/pkg-1.2.7_2.txz
ELF ldconfig path: /lib /usr/lib /usr/lib/compat
Make depends
===>   clustalw-2.1_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 clustalw-2.1_1
Make install
===>   clustalw-2.1_1 depends on file: /usr/local/sbin/pkg - found
===> Fetching all distfiles required by clustalw-2.1_1 for building
===>  Extracting for clustalw-2.1_1
=> SHA256 Checksum OK for clustalw-2.1.tar.gz.
===>  Patching for clustalw-2.1_1
===>  Applying FreeBSD patches for clustalw-2.1_1
===>  Configuring for clustalw-2.1_1
===>   FreeBSD 10 autotools fix applied to /obj/buildshare/ports/355755/biology/clustalw/work/clustalw-2.1/aclocal.m4
===>   FreeBSD 10 autotools fix applied to /obj/buildshare/ports/355755/biology/clustalw/work/clustalw-2.1/configure
configure: loading site script /buildshare/ports/355755/Templates/config.site
checking build system type... powerpc-portbld-freebsd11.0
checking host system type... powerpc-portbld-freebsd11.0
checking target system type... powerpc-portbld-freebsd11.0
building for freebsd11.0
checking for a BSD-compatible install... /usr/bin/install -c -o root -g wheel
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... (cached) /bin/mkdir -p
checking for gawk... (cached) /usr/bin/awk
checking whether make sets $(MAKE)... yes
checking whether make sets $(MAKE)... (cached) yes
checking for gcc... cc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether cc accepts -g... yes
checking for cc option to accept ISO C89... none needed
checking for style of include used by make... GNU
checking dependency style of cc... gcc3
checking whether we are using the GNU C++ compiler... yes
checking whether c++ accepts -g... yes
checking dependency style of c++... gcc3
checking for ranlib... ranlib
checking how to run the C++ preprocessor... c++ -E
checking for grep that handles long lines and -e... (cached) /usr/bin/grep
checking for egrep... (cached) /usr/bin/egrep
checking for ANSI C header files... (cached) yes
checking for sys/types.h... (cached) yes
checking for sys/stat.h... (cached) yes
checking for stdlib.h... (cached) yes
checking for string.h... (cached) yes
checking for memory.h... (cached) yes
checking for strings.h... (cached) yes
checking for inttypes.h... (cached) yes
checking for stdint.h... (cached) yes
checking for unistd.h... (cached) yes
checking for stdbool.h that conforms to C99... (cached) yes
checking for _Bool... (cached) yes
checking for an ANSI C-conforming const... yes
checking for size_t... (cached) yes
checking for stdlib.h... (cached) yes
checking for GNU libc compatible malloc... (cached) yes
configure: creating ./config.status
config.status: creating Makefile
config.status: creating m4/Makefile
config.status: creating src/Makefile
config.status: creating src/clustalw_version.h
config.status: creating src/config.h
config.status: executing depfiles commands
===>  Building for clustalw-2.1_1
Making all in m4
Making all in src
/usr/bin/make  all-recursive
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT FullPairwiseAlign.o -MD -MP -MF .deps/FullPairwiseAlign.Tpo -c -o FullPairwiseAlign.o `test -f './pairwise/FullPairwiseAlign.cpp' || echo './'`./pairwise/FullPairwiseAlign.cpp
mv -f .deps/FullPairwiseAlign.Tpo .deps/FullPairwiseAlign.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT FastPairwiseAlign.o -MD -MP -MF .deps/FastPairwiseAlign.Tpo -c -o FastPairwiseAlign.o `test -f './pairwise/FastPairwiseAlign.cpp' || echo './'`./pairwise/FastPairwiseAlign.cpp
mv -f .deps/FastPairwiseAlign.Tpo .deps/FastPairwiseAlign.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT MSFFileParser.o -MD -MP -MF .deps/MSFFileParser.Tpo -c -o MSFFileParser.o `test -f './fileInput/MSFFileParser.cpp' || echo './'`./fileInput/MSFFileParser.cpp
mv -f .deps/MSFFileParser.Tpo .deps/MSFFileParser.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT FileReader.o -MD -MP -MF .deps/FileReader.Tpo -c -o FileReader.o `test -f './fileInput/FileReader.cpp' || echo './'`./fileInput/FileReader.cpp
mv -f .deps/FileReader.Tpo .deps/FileReader.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT PIRFileParser.o -MD -MP -MF .deps/PIRFileParser.Tpo -c -o PIRFileParser.o `test -f './fileInput/PIRFileParser.cpp' || echo './'`./fileInput/PIRFileParser.cpp
mv -f .deps/PIRFileParser.Tpo .deps/PIRFileParser.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT RSFFileParser.o -MD -MP -MF .deps/RSFFileParser.Tpo -c -o RSFFileParser.o `test -f './fileInput/RSFFileParser.cpp' || echo './'`./fileInput/RSFFileParser.cpp
mv -f .deps/RSFFileParser.Tpo .deps/RSFFileParser.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT GDEFileParser.o -MD -MP -MF .deps/GDEFileParser.Tpo -c -o GDEFileParser.o `test -f './fileInput/GDEFileParser.cpp' || echo './'`./fileInput/GDEFileParser.cpp
mv -f .deps/GDEFileParser.Tpo .deps/GDEFileParser.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT InFileStream.o -MD -MP -MF .deps/InFileStream.Tpo -c -o InFileStream.o `test -f './fileInput/InFileStream.cpp' || echo './'`./fileInput/InFileStream.cpp
mv -f .deps/InFileStream.Tpo .deps/InFileStream.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT ClustalFileParser.o -MD -MP -MF .deps/ClustalFileParser.Tpo -c -o ClustalFileParser.o `test -f './fileInput/ClustalFileParser.cpp' || echo './'`./fileInput/ClustalFileParser.cpp
mv -f .deps/ClustalFileParser.Tpo .deps/ClustalFileParser.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT PearsonFileParser.o -MD -MP -MF .deps/PearsonFileParser.Tpo -c -o PearsonFileParser.o `test -f './fileInput/PearsonFileParser.cpp' || echo './'`./fileInput/PearsonFileParser.cpp
mv -f .deps/PearsonFileParser.Tpo .deps/PearsonFileParser.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT FileParser.o -MD -MP -MF .deps/FileParser.Tpo -c -o FileParser.o `test -f './fileInput/FileParser.cpp' || echo './'`./fileInput/FileParser.cpp
mv -f .deps/FileParser.Tpo .deps/FileParser.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT EMBLFileParser.o -MD -MP -MF .deps/EMBLFileParser.Tpo -c -o EMBLFileParser.o `test -f './fileInput/EMBLFileParser.cpp' || echo './'`./fileInput/EMBLFileParser.cpp
mv -f .deps/EMBLFileParser.Tpo .deps/EMBLFileParser.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT RootedClusterTree.o -MD -MP -MF .deps/RootedClusterTree.Tpo -c -o RootedClusterTree.o `test -f './tree/UPGMA/RootedClusterTree.cpp' || echo './'`./tree/UPGMA/RootedClusterTree.cpp
mv -f .deps/RootedClusterTree.Tpo .deps/RootedClusterTree.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT UPGMAAlgorithm.o -MD -MP -MF .deps/UPGMAAlgorithm.Tpo -c -o UPGMAAlgorithm.o `test -f './tree/UPGMA/UPGMAAlgorithm.cpp' || echo './'`./tree/UPGMA/UPGMAAlgorithm.cpp
mv -f .deps/UPGMAAlgorithm.Tpo .deps/UPGMAAlgorithm.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT Node.o -MD -MP -MF .deps/Node.Tpo -c -o Node.o `test -f './tree/UPGMA/Node.cpp' || echo './'`./tree/UPGMA/Node.cpp
mv -f .deps/Node.Tpo .deps/Node.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT RootedGuideTree.o -MD -MP -MF .deps/RootedGuideTree.Tpo -c -o RootedGuideTree.o `test -f './tree/UPGMA/RootedGuideTree.cpp' || echo './'`./tree/UPGMA/RootedGuideTree.cpp
mv -f .deps/RootedGuideTree.Tpo .deps/RootedGuideTree.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT RootedTreeOutput.o -MD -MP -MF .deps/RootedTreeOutput.Tpo -c -o RootedTreeOutput.o `test -f './tree/UPGMA/RootedTreeOutput.cpp' || echo './'`./tree/UPGMA/RootedTreeOutput.cpp
mv -f .deps/RootedTreeOutput.Tpo .deps/RootedTreeOutput.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT Tree.o -MD -MP -MF .deps/Tree.Tpo -c -o Tree.o `test -f './tree/Tree.cpp' || echo './'`./tree/Tree.cpp
mv -f .deps/Tree.Tpo .deps/Tree.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT ClusterTree.o -MD -MP -MF .deps/ClusterTree.Tpo -c -o ClusterTree.o `test -f './tree/ClusterTree.cpp' || echo './'`./tree/ClusterTree.cpp
mv -f .deps/ClusterTree.Tpo .deps/ClusterTree.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT TreeInterface.o -MD -MP -MF .deps/TreeInterface.Tpo -c -o TreeInterface.o `test -f './tree/TreeInterface.cpp' || echo './'`./tree/TreeInterface.cpp
mv -f .deps/TreeInterface.Tpo .deps/TreeInterface.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT UnRootedClusterTree.o -MD -MP -MF .deps/UnRootedClusterTree.Tpo -c -o UnRootedClusterTree.o `test -f './tree/UnRootedClusterTree.cpp' || echo './'`./tree/UnRootedClusterTree.cpp
mv -f .deps/UnRootedClusterTree.Tpo .deps/UnRootedClusterTree.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT ClusterTreeOutput.o -MD -MP -MF .deps/ClusterTreeOutput.Tpo -c -o ClusterTreeOutput.o `test -f './tree/ClusterTreeOutput.cpp' || echo './'`./tree/ClusterTreeOutput.cpp
mv -f .deps/ClusterTreeOutput.Tpo .deps/ClusterTreeOutput.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT RandomGenerator.o -MD -MP -MF .deps/RandomGenerator.Tpo -c -o RandomGenerator.o `test -f './tree/RandomGenerator.cpp' || echo './'`./tree/RandomGenerator.cpp
mv -f .deps/RandomGenerator.Tpo .deps/RandomGenerator.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT NJTree.o -MD -MP -MF .deps/NJTree.Tpo -c -o NJTree.o `test -f './tree/NJTree.cpp' || echo './'`./tree/NJTree.cpp
mv -f .deps/NJTree.Tpo .deps/NJTree.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT AlignmentSteps.o -MD -MP -MF .deps/AlignmentSteps.Tpo -c -o AlignmentSteps.o `test -f './tree/AlignmentSteps.cpp' || echo './'`./tree/AlignmentSteps.cpp
mv -f .deps/AlignmentSteps.Tpo .deps/AlignmentSteps.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT InteractiveMenu.o -MD -MP -MF .deps/InteractiveMenu.Tpo -c -o InteractiveMenu.o `test -f './interface/InteractiveMenu.cpp' || echo './'`./interface/InteractiveMenu.cpp
mv -f .deps/InteractiveMenu.Tpo .deps/InteractiveMenu.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT CommandLineParser.o -MD -MP -MF .deps/CommandLineParser.Tpo -c -o CommandLineParser.o `test -f './interface/CommandLineParser.cpp' || echo './'`./interface/CommandLineParser.cpp
mv -f .deps/CommandLineParser.Tpo .deps/CommandLineParser.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT SubMatrix.o -MD -MP -MF .deps/SubMatrix.Tpo -c -o SubMatrix.o `test -f './substitutionMatrix/SubMatrix.cpp' || echo './'`./substitutionMatrix/SubMatrix.cpp
mv -f .deps/SubMatrix.Tpo .deps/SubMatrix.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT Iteration.o -MD -MP -MF .deps/Iteration.Tpo -c -o Iteration.o `test -f './multipleAlign/Iteration.cpp' || echo './'`./multipleAlign/Iteration.cpp
mv -f .deps/Iteration.Tpo .deps/Iteration.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT MSA.o -MD -MP -MF .deps/MSA.Tpo -c -o MSA.o `test -f './multipleAlign/MSA.cpp' || echo './'`./multipleAlign/MSA.cpp
mv -f .deps/MSA.Tpo .deps/MSA.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT MyersMillerProfileAlign.o -MD -MP -MF .deps/MyersMillerProfileAlign.Tpo -c -o MyersMillerProfileAlign.o `test -f './multipleAlign/MyersMillerProfileAlign.cpp' || echo './'`./multipleAlign/MyersMillerProfileAlign.cpp
mv -f .deps/MyersMillerProfileAlign.Tpo .deps/MyersMillerProfileAlign.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT ProfileStandard.o -MD -MP -MF .deps/ProfileStandard.Tpo -c -o ProfileStandard.o `test -f './multipleAlign/ProfileStandard.cpp' || echo './'`./multipleAlign/ProfileStandard.cpp
mv -f .deps/ProfileStandard.Tpo .deps/ProfileStandard.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT ProfileWithSub.o -MD -MP -MF .deps/ProfileWithSub.Tpo -c -o ProfileWithSub.o `test -f './multipleAlign/ProfileWithSub.cpp' || echo './'`./multipleAlign/ProfileWithSub.cpp
mv -f .deps/ProfileWithSub.Tpo .deps/ProfileWithSub.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT ProfileBase.o -MD -MP -MF .deps/ProfileBase.Tpo -c -o ProfileBase.o `test -f './multipleAlign/ProfileBase.cpp' || echo './'`./multipleAlign/ProfileBase.cpp
./multipleAlign/ProfileBase.cpp: In member function 'void clustalw::ProfileBase::calcResidueSpecificPen(clustalw::SeqArray*, std::vector<int, std::allocator<int> >*)':
./multipleAlign/ProfileBase.cpp:372: warning: comparison is always false due to limited range of data type
mv -f .deps/ProfileBase.Tpo .deps/ProfileBase.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT LowScoreSegProfile.o -MD -MP -MF .deps/LowScoreSegProfile.Tpo -c -o LowScoreSegProfile.o `test -f './multipleAlign/LowScoreSegProfile.cpp' || echo './'`./multipleAlign/LowScoreSegProfile.cpp
mv -f .deps/LowScoreSegProfile.Tpo .deps/LowScoreSegProfile.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT OutputFile.o -MD -MP -MF .deps/OutputFile.Tpo -c -o OutputFile.o `test -f './general/OutputFile.cpp' || echo './'`./general/OutputFile.cpp
mv -f .deps/OutputFile.Tpo .deps/OutputFile.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT UserParameters.o -MD -MP -MF .deps/UserParameters.Tpo -c -o UserParameters.o `test -f './general/UserParameters.cpp' || echo './'`./general/UserParameters.cpp
mv -f .deps/UserParameters.Tpo .deps/UserParameters.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT Utility.o -MD -MP -MF .deps/Utility.Tpo -c -o Utility.o `test -f './general/Utility.cpp' || echo './'`./general/Utility.cpp
mv -f .deps/Utility.Tpo .deps/Utility.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT InvalidCombination.o -MD -MP -MF .deps/InvalidCombination.Tpo -c -o InvalidCombination.o `test -f './general/InvalidCombination.cpp' || echo './'`./general/InvalidCombination.cpp
mv -f .deps/InvalidCombination.Tpo .deps/InvalidCombination.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT DebugLog.o -MD -MP -MF .deps/DebugLog.Tpo -c -o DebugLog.o `test -f './general/DebugLog.cpp' || echo './'`./general/DebugLog.cpp
mv -f .deps/DebugLog.Tpo .deps/DebugLog.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT ClustalWResources.o -MD -MP -MF .deps/ClustalWResources.Tpo -c -o ClustalWResources.o `test -f './general/ClustalWResources.cpp' || echo './'`./general/ClustalWResources.cpp
mv -f .deps/ClustalWResources.Tpo .deps/ClustalWResources.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT VectorOutOfRange.o -MD -MP -MF .deps/VectorOutOfRange.Tpo -c -o VectorOutOfRange.o `test -f './general/VectorOutOfRange.cpp' || echo './'`./general/VectorOutOfRange.cpp
mv -f .deps/VectorOutOfRange.Tpo .deps/VectorOutOfRange.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT SymMatrix.o -MD -MP -MF .deps/SymMatrix.Tpo -c -o SymMatrix.o `test -f './general/SymMatrix.cpp' || echo './'`./general/SymMatrix.cpp
mv -f .deps/SymMatrix.Tpo .deps/SymMatrix.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT Stats.o -MD -MP -MF .deps/Stats.Tpo -c -o Stats.o `test -f './general/Stats.cpp' || echo './'`./general/Stats.cpp
mv -f .deps/Stats.Tpo .deps/Stats.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT Help.o -MD -MP -MF .deps/Help.Tpo -c -o Help.o `test -f './Help.cpp' || echo './'`./Help.cpp
mv -f .deps/Help.Tpo .deps/Help.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT Alignment.o -MD -MP -MF .deps/Alignment.Tpo -c -o Alignment.o `test -f './alignment/Alignment.cpp' || echo './'`./alignment/Alignment.cpp
mv -f .deps/Alignment.Tpo .deps/Alignment.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT AlignmentOutput.o -MD -MP -MF .deps/AlignmentOutput.Tpo -c -o AlignmentOutput.o `test -f './alignment/AlignmentOutput.cpp' || echo './'`./alignment/AlignmentOutput.cpp
mv -f .deps/AlignmentOutput.Tpo .deps/AlignmentOutput.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT ObjectiveScore.o -MD -MP -MF .deps/ObjectiveScore.Tpo -c -o ObjectiveScore.o `test -f './alignment/ObjectiveScore.cpp' || echo './'`./alignment/ObjectiveScore.cpp
mv -f .deps/ObjectiveScore.Tpo .deps/ObjectiveScore.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT Sequence.o -MD -MP -MF .deps/Sequence.Tpo -c -o Sequence.o `test -f './alignment/Sequence.cpp' || echo './'`./alignment/Sequence.cpp
mv -f .deps/Sequence.Tpo .deps/Sequence.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT Clustal.o -MD -MP -MF .deps/Clustal.Tpo -c -o Clustal.o `test -f './Clustal.cpp' || echo './'`./Clustal.cpp
mv -f .deps/Clustal.Tpo .deps/Clustal.Po
c++ -DHAVE_CONFIG_H -I.     -O2 -pipe -fno-strict-aliasing -MT main.o -MD -MP -MF .deps/main.Tpo -c -o main.o `test -f './main.cpp' || echo './'`./main.cpp
mv -f .deps/main.Tpo .deps/main.Po
c++  -O2 -pipe -fno-strict-aliasing    -o clustalw2 FullPairwiseAlign.o  FastPairwiseAlign.o MSFFileParser.o  FileReader.o PIRFileParser.o  RSFFileParser.o GDEFileParser.o  InFileStream.o ClustalFileParser.o  PearsonFileParser.o FileParser.o  EMBLFileParser.o RootedClusterTree.o  UPGMAAlgorithm.o Node.o  RootedGuideTree.o RootedTreeOutput.o  Tree.o ClusterTree.o TreeInterface.o  UnRootedClusterTree.o ClusterTreeOutput.o  RandomGenerator.o NJTree.o  AlignmentSteps.o InteractiveMenu.o  CommandLineParser.o SubMatrix.o  Iteration.o MSA.o  MyersMillerProfileAlign.o ProfileStandard.o  ProfileWithSub.o ProfileBase.o  LowScoreSegProfile.o OutputFile.o  UserParameters.o Utility.o  InvalidCombination.o DebugLog.o  ClustalWResources.o VectorOutOfRange.o  SymMatrix.o Stats.o Help.o  Alignment.o AlignmentOutput.o  ObjectiveScore.o Sequence.o Clustal.o  main.o  
Iteration.o: In function `clustalw::Iteration::removeFirstIterate(clustalw::Alignment*)':
Iteration.cpp:(.text+0x95c): warning: warning: tmpnam() possibly used unsafely; consider using mkstemp()
===>  Staging for clustalw-2.1_1
===>   Generating temporary packing list
Making install in m4
test -z "/usr/local/share/aclocal" || /bin/mkdir -p "/obj/buildshare/ports/355755/biology/clustalw/work/stage/usr/local/share/aclocal"
Making install in src
test -z "/usr/local/bin" || /bin/mkdir -p "/obj/buildshare/ports/355755/biology/clustalw/work/stage/usr/local/bin"
  install  -s -o root -g wheel -m 555 clustalw2 '/obj/buildshare/ports/355755/biology/clustalw/work/stage/usr/local/bin'
/bin/ln -sf clustalw2 /obj/buildshare/ports/355755/biology/clustalw/work/stage/usr/local/bin/clustalw
====> Compressing man pages (compress-man)
===>  Installing for clustalw-2.1_1
===>  Checking if biology/clustalw already installed
===>   Registering installation for clustalw-2.1_1
Installing clustalw-2.1_1... done
Make package
===>  Building package for clustalw-2.1_1
slot1: removed