Starting installation of MTK++ at Thu Nov 8 00:15:23 CST 2012. (cd mtkpp && make && make -j 1 install ) make[1]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp' make all-recursive make[2]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp' Making all in src make[3]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src' Making all in Diagnostics make[4]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics' /bin/sh ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../.. -I/home/jiaxu/amber12/AmberTools/src/boost-1.38.0 -I./.. -DNDEBUG -DUSE_TINYXML -DTIXML_USE_STL -DC99_OK -O2 -fPIC -DHAVE_ZLIB -MT MTKException.lo -MD -MP -MF .deps/MTKException.Tpo -c -o MTKException.lo MTKException.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../.. -I/home/jiaxu/amber12/AmberTools/src/boost-1.38.0 -I./.. -DNDEBUG -DUSE_TINYXML -DTIXML_USE_STL -DC99_OK -O2 -fPIC -DHAVE_ZLIB -MT MTKException.lo -MD -MP -MF .deps/MTKException.Tpo -c MTKException.cpp -o MTKException.o mv -f 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-L../src/Molecule -L../src/Log -L../src/Graph -L../src/GA -L../src/Parsers -L../src/tinyxml /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics/.libs/libDiagnostics.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule/.libs/libMolecule.a -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics/ /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log/.libs/libLog.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph/.libs/libGraph.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA/.libs/libGA.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Parsers/.libs/libParsers.a -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml/ /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule//.libs/libMolecule.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph//.libs/libGraph.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics//.libs/libDiagnostics.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics//.libs/libStatistics.a -lz /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log//.libs/libLog.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA//.libs/libGA.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml//.libs/libtinyxml.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml/.libs/libtinyxml.a g++ -DHAVE_CONFIG_H -I. -I.. -I/home/jiaxu/amber12/AmberTools/src/boost-1.38.0 -I/include -I../src -I../include -I../src/eigen3b2 -DNDEBUG -DUSE_TINYXML -DTIXML_USE_STL -DC99_OK -O2 -fPIC -DHAVE_ZLIB -MT capActiveSite.o -MD -MP -MF .deps/capActiveSite.Tpo -c -o capActiveSite.o capActiveSite.cpp mv -f .deps/capActiveSite.Tpo .deps/capActiveSite.Po /bin/sh ../libtool --tag=CXX --mode=link g++ -DNDEBUG -DUSE_TINYXML -DTIXML_USE_STL -DC99_OK -O2 -fPIC -DHAVE_ZLIB 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-I../src/eigen3b2 -DNDEBUG -DUSE_TINYXML -DTIXML_USE_STL -DC99_OK -O2 -fPIC -DHAVE_ZLIB -MT frcmod2xml.o -MD -MP -MF .deps/frcmod2xml.Tpo -c -o frcmod2xml.o frcmod2xml.cpp mv -f .deps/frcmod2xml.Tpo .deps/frcmod2xml.Po /bin/sh ../libtool --tag=CXX --mode=link g++ -DNDEBUG -DUSE_TINYXML -DTIXML_USE_STL -DC99_OK -O2 -fPIC -DHAVE_ZLIB -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics -L../src/Molecule -L../src/Log -L../src/Graph -L../src/Parsers -L../src/tinyxml -o frcmod2xml frcmod2xml.o -lDiagnostics -lMolecule -lLog -lGraph -lParsers -ltinyxml -lz libtool: link: g++ -DNDEBUG -DUSE_TINYXML -DTIXML_USE_STL -DC99_OK -O2 -fPIC -DHAVE_ZLIB -o frcmod2xml frcmod2xml.o -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics -L../src/Molecule -L../src/Log -L../src/Graph -L../src/Parsers -L../src/tinyxml /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics/.libs/libDiagnostics.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule/.libs/libMolecule.a -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics/ /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log/.libs/libLog.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph/.libs/libGraph.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Parsers/.libs/libParsers.a -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml/ /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule//.libs/libMolecule.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph//.libs/libGraph.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics//.libs/libDiagnostics.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics//.libs/libStatistics.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log//.libs/libLog.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA//.libs/libGA.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml//.libs/libtinyxml.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml/.libs/libtinyxml.a -lz g++ -DHAVE_CONFIG_H -I. -I.. -I/home/jiaxu/amber12/AmberTools/src/boost-1.38.0 -I/include -I../src -I../include -I../src/eigen3b2 -DNDEBUG -DUSE_TINYXML -DTIXML_USE_STL -DC99_OK -O2 -fPIC -DHAVE_ZLIB -MT func.o -MD -MP -MF .deps/func.Tpo -c -o func.o func.cpp mv -f .deps/func.Tpo .deps/func.Po /bin/sh ../libtool --tag=CXX --mode=link g++ -DNDEBUG -DUSE_TINYXML -DTIXML_USE_STL -DC99_OK -O2 -fPIC -DHAVE_ZLIB -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics -L../src/Molecule -L../src/Log -L../src/Graph -L../src/GA -L../src/Parsers -L../src/tinyxml -o func func.o -lDiagnostics -lMolecule -lLog -lGraph -lGA -lParsers -ltinyxml -lz libtool: link: g++ -DNDEBUG -DUSE_TINYXML -DTIXML_USE_STL -DC99_OK -O2 -fPIC -DHAVE_ZLIB -o func func.o -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics -L../src/Molecule -L../src/Log -L../src/Graph -L../src/GA -L../src/Parsers -L../src/tinyxml /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics/.libs/libDiagnostics.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule/.libs/libMolecule.a -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics/ /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log/.libs/libLog.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph/.libs/libGraph.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA/.libs/libGA.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Parsers/.libs/libParsers.a -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml/ /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule//.libs/libMolecule.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph//.libs/libGraph.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics//.libs/libDiagnostics.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics//.libs/libStatistics.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log//.libs/libLog.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA//.libs/libGA.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml//.libs/libtinyxml.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml/.libs/libtinyxml.a -lz g++ -DHAVE_CONFIG_H -I. -I.. -I/home/jiaxu/amber12/AmberTools/src/boost-1.38.0 -I/include -I../src -I../include -I../src/eigen3b2 -DNDEBUG -DUSE_TINYXML -DTIXML_USE_STL -DC99_OK -O2 -fPIC -DHAVE_ZLIB -MT hybrid.o -MD -MP -MF .deps/hybrid.Tpo -c -o hybrid.o hybrid.cpp mv -f .deps/hybrid.Tpo .deps/hybrid.Po /bin/sh ../libtool --tag=CXX --mode=link g++ -DNDEBUG -DUSE_TINYXML -DTIXML_USE_STL -DC99_OK -O2 -fPIC 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/home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA/.libs/libGA.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Parsers/.libs/libParsers.a -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml/ /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule//.libs/libMolecule.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph//.libs/libGraph.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics//.libs/libDiagnostics.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics//.libs/libStatistics.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log//.libs/libLog.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA//.libs/libGA.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml//.libs/libtinyxml.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml/.libs/libtinyxml.a -lz g++ -DHAVE_CONFIG_H -I. -I.. -I/home/jiaxu/amber12/AmberTools/src/boost-1.38.0 -I/include -I../src -I../include -I../src/eigen3b2 -DNDEBUG -DUSE_TINYXML -DTIXML_USE_STL -DC99_OK -O2 -fPIC -DHAVE_ZLIB -MT mmE.o -MD -MP -MF .deps/mmE.Tpo -c -o mmE.o mmE.cpp mv -f .deps/mmE.Tpo .deps/mmE.Po /bin/sh ../libtool --tag=CXX --mode=link g++ -DNDEBUG -DUSE_TINYXML -DTIXML_USE_STL -DC99_OK -O2 -fPIC -DHAVE_ZLIB -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics -L../src/Molecule -L../src/MM -L../src/Minimizers -L../src/Log -L../src/Parsers -L../src/tinyxml -o mmE mmE.o -lDiagnostics -lMolecule -lMM -lMinimizers -lLog -lParsers -ltinyxml -lz libtool: link: g++ -DNDEBUG -DUSE_TINYXML -DTIXML_USE_STL -DC99_OK -O2 -fPIC -DHAVE_ZLIB -o mmE mmE.o -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics -L../src/Molecule -L../src/MM -L../src/Minimizers -L../src/Log -L../src/Parsers -L../src/tinyxml /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics/.libs/libDiagnostics.a 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/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics//.libs/libStatistics.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log//.libs/libLog.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA//.libs/libGA.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml//.libs/libtinyxml.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml/.libs/libtinyxml.a -lz g++ -DHAVE_CONFIG_H -I. -I.. -I/home/jiaxu/amber12/AmberTools/src/boost-1.38.0 -I/include -I../src -I../include -I../src/eigen3b2 -DNDEBUG -DUSE_TINYXML -DTIXML_USE_STL -DC99_OK -O2 -fPIC -DHAVE_ZLIB -MT prep2xml.o -MD -MP -MF .deps/prep2xml.Tpo -c -o prep2xml.o prep2xml.cpp mv -f .deps/prep2xml.Tpo .deps/prep2xml.Po /bin/sh ../libtool --tag=CXX --mode=link g++ -DNDEBUG -DUSE_TINYXML -DTIXML_USE_STL -DC99_OK -O2 -fPIC -DHAVE_ZLIB -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics -L../src/Molecule -L../src/Log -L../src/Graph -L../src/Parsers -L../src/tinyxml -o prep2xml prep2xml.o -lDiagnostics -lMolecule -lLog -lGraph -lParsers 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mmTest.o mmTest.cpp mv -f .deps/mmTest.Tpo .deps/mmTest.Po /bin/sh ../libtool --tag=CXX --mode=link g++ -DNDEBUG -DUSE_TINYXML -DTIXML_USE_STL -DC99_OK -O2 -fPIC -DHAVE_ZLIB -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/MM -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Parsers -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml -o mmTest mmTest.o -lDiagnostics -lMolecule -lLog -lGraph -lGA -lStatistics -lMM -lParsers -ltinyxml -lz libtool: link: g++ -DNDEBUG -DUSE_TINYXML -DTIXML_USE_STL -DC99_OK -O2 -fPIC -DHAVE_ZLIB -o mmTest mmTest.o -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/MM -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Parsers -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics/.libs/libDiagnostics.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule/.libs/libMolecule.a -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics/ /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log/.libs/libLog.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph/.libs/libGraph.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA/.libs/libGA.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics/.libs/libStatistics.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/MM/.libs/libMM.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Parsers/.libs/libParsers.a -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml/ /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule//.libs/libMolecule.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph//.libs/libGraph.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics//.libs/libDiagnostics.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics//.libs/libStatistics.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log//.libs/libLog.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA//.libs/libGA.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml//.libs/libtinyxml.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml/.libs/libtinyxml.a -lz g++ -DHAVE_CONFIG_H -I. -I.. -I/home/jiaxu/amber12/AmberTools/src/boost-1.38.0 -I/include -I../src -I../include -I../src/eigen3b2 -DNDEBUG -DUSE_TINYXML -DTIXML_USE_STL -DC99_OK -O2 -fPIC -DHAVE_ZLIB -MT hybridizeTest.o -MD -MP -MF .deps/hybridizeTest.Tpo -c -o hybridizeTest.o hybridizeTest.cpp mv -f .deps/hybridizeTest.Tpo .deps/hybridizeTest.Po /bin/sh ../libtool --tag=CXX --mode=link g++ -DNDEBUG -DUSE_TINYXML -DTIXML_USE_STL -DC99_OK -O2 -fPIC -DHAVE_ZLIB -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Parsers -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml -o hybridizeTest hybridizeTest.o -lDiagnostics -lMolecule -lLog -lGraph -lGA -lStatistics -lParsers -ltinyxml -lz libtool: link: g++ -DNDEBUG -DUSE_TINYXML -DTIXML_USE_STL -DC99_OK -O2 -fPIC -DHAVE_ZLIB -o hybridizeTest hybridizeTest.o -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Parsers -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics/.libs/libDiagnostics.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule/.libs/libMolecule.a -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics/ /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log/.libs/libLog.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph/.libs/libGraph.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA/.libs/libGA.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics/.libs/libStatistics.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Parsers/.libs/libParsers.a -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA/ -L/home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml/ /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule//.libs/libMolecule.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph//.libs/libGraph.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics//.libs/libDiagnostics.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics//.libs/libStatistics.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log//.libs/libLog.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA//.libs/libGA.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml//.libs/libtinyxml.a /home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml/.libs/libtinyxml.a -lz make[3]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/tests' make[3]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp' make[3]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp' make[2]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp' make[1]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp' make[1]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp' Making install in src make[2]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src' Making install in Diagnostics make[3]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics' make[4]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics' test -z "/home/jiaxu/amber12/lib" || /bin/mkdir -p "/home/jiaxu/amber12/lib" /bin/sh ../../libtool --mode=install /usr/bin/install -c libDiagnostics.la '/home/jiaxu/amber12/lib' libtool: install: /usr/bin/install -c .libs/libDiagnostics.lai /home/jiaxu/amber12/lib/libDiagnostics.la libtool: install: /usr/bin/install -c .libs/libDiagnostics.a /home/jiaxu/amber12/lib/libDiagnostics.a libtool: install: chmod 644 /home/jiaxu/amber12/lib/libDiagnostics.a libtool: install: ranlib /home/jiaxu/amber12/lib/libDiagnostics.a libtool: finish: PATH="/home/jiaxu/mpich2-install/bin:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/mpirt/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64_mic:/opt/intel/composer_xe_2013.0.079/debugger/gui/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/mpirt/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64_mic:/opt/intel/composer_xe_2013.0.079/debugger/gui/intel64:/usr/lib/lightdm/lightdm:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/home/jiaxu/amber12/bin:/sbin" ldconfig -n /home/jiaxu/amber12/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/jiaxu/amber12/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- test -z "/home/jiaxu/amber12/include/mtkpp/Diagnostics" || /bin/mkdir -p "/home/jiaxu/amber12/include/mtkpp/Diagnostics" /usr/bin/install -c -m 644 MTKException.h '/home/jiaxu/amber12/include/mtkpp/Diagnostics' make[4]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics' make[3]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Diagnostics' Making install in tinyxml make[3]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml' make[4]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml' test -z "/home/jiaxu/amber12/lib" || /bin/mkdir -p "/home/jiaxu/amber12/lib" /bin/sh ../../libtool --mode=install /usr/bin/install -c libtinyxml.la '/home/jiaxu/amber12/lib' libtool: install: /usr/bin/install -c .libs/libtinyxml.lai /home/jiaxu/amber12/lib/libtinyxml.la libtool: install: /usr/bin/install -c .libs/libtinyxml.a /home/jiaxu/amber12/lib/libtinyxml.a libtool: install: chmod 644 /home/jiaxu/amber12/lib/libtinyxml.a libtool: install: ranlib /home/jiaxu/amber12/lib/libtinyxml.a libtool: finish: PATH="/home/jiaxu/mpich2-install/bin:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/mpirt/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64_mic:/opt/intel/composer_xe_2013.0.079/debugger/gui/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/mpirt/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64_mic:/opt/intel/composer_xe_2013.0.079/debugger/gui/intel64:/usr/lib/lightdm/lightdm:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/home/jiaxu/amber12/bin:/sbin" ldconfig -n /home/jiaxu/amber12/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/jiaxu/amber12/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- test -z "/home/jiaxu/amber12/include/mtkpp/tinyxml" || /bin/mkdir -p "/home/jiaxu/amber12/include/mtkpp/tinyxml" /usr/bin/install -c -m 644 tinystr.h tinyxml.h '/home/jiaxu/amber12/include/mtkpp/tinyxml' make[4]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml' make[3]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/tinyxml' Making install in Log make[3]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log' make[4]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log' test -z "/home/jiaxu/amber12/lib" || /bin/mkdir -p "/home/jiaxu/amber12/lib" /bin/sh ../../libtool --mode=install /usr/bin/install -c libLog.la '/home/jiaxu/amber12/lib' libtool: install: /usr/bin/install -c .libs/libLog.lai /home/jiaxu/amber12/lib/libLog.la libtool: install: /usr/bin/install -c .libs/libLog.a /home/jiaxu/amber12/lib/libLog.a libtool: install: chmod 644 /home/jiaxu/amber12/lib/libLog.a libtool: install: ranlib /home/jiaxu/amber12/lib/libLog.a libtool: finish: PATH="/home/jiaxu/mpich2-install/bin:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/mpirt/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64_mic:/opt/intel/composer_xe_2013.0.079/debugger/gui/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/mpirt/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64_mic:/opt/intel/composer_xe_2013.0.079/debugger/gui/intel64:/usr/lib/lightdm/lightdm:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/home/jiaxu/amber12/bin:/sbin" ldconfig -n /home/jiaxu/amber12/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/jiaxu/amber12/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- test -z "/home/jiaxu/amber12/include/mtkpp/Log" || /bin/mkdir -p "/home/jiaxu/amber12/include/mtkpp/Log" /usr/bin/install -c -m 644 error.h errorHandler.h '/home/jiaxu/amber12/include/mtkpp/Log' make[4]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log' make[3]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Log' Making install in Statistics make[3]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics' make[4]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics' test -z "/home/jiaxu/amber12/lib" || /bin/mkdir -p "/home/jiaxu/amber12/lib" /bin/sh ../../libtool --mode=install /usr/bin/install -c libStatistics.la '/home/jiaxu/amber12/lib' libtool: install: /usr/bin/install -c .libs/libStatistics.lai /home/jiaxu/amber12/lib/libStatistics.la libtool: install: /usr/bin/install -c .libs/libStatistics.a /home/jiaxu/amber12/lib/libStatistics.a libtool: install: chmod 644 /home/jiaxu/amber12/lib/libStatistics.a libtool: install: ranlib /home/jiaxu/amber12/lib/libStatistics.a libtool: finish: PATH="/home/jiaxu/mpich2-install/bin:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/mpirt/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64_mic:/opt/intel/composer_xe_2013.0.079/debugger/gui/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/mpirt/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64_mic:/opt/intel/composer_xe_2013.0.079/debugger/gui/intel64:/usr/lib/lightdm/lightdm:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/home/jiaxu/amber12/bin:/sbin" ldconfig -n /home/jiaxu/amber12/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/jiaxu/amber12/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- test -z "/home/jiaxu/amber12/include/mtkpp/Statistics" || /bin/mkdir -p "/home/jiaxu/amber12/include/mtkpp/Statistics" /usr/bin/install -c -m 644 table.h sheet.h BaseStats.h ols.h pca.h pls.h '/home/jiaxu/amber12/include/mtkpp/Statistics' make[4]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics' make[3]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Statistics' Making install in Graph make[3]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph' make[4]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph' test -z "/home/jiaxu/amber12/lib" || /bin/mkdir -p "/home/jiaxu/amber12/lib" /bin/sh ../../libtool --mode=install /usr/bin/install -c libGraph.la '/home/jiaxu/amber12/lib' libtool: install: /usr/bin/install -c .libs/libGraph.lai /home/jiaxu/amber12/lib/libGraph.la libtool: install: /usr/bin/install -c .libs/libGraph.a /home/jiaxu/amber12/lib/libGraph.a libtool: install: chmod 644 /home/jiaxu/amber12/lib/libGraph.a libtool: install: ranlib /home/jiaxu/amber12/lib/libGraph.a libtool: finish: PATH="/home/jiaxu/mpich2-install/bin:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/mpirt/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64_mic:/opt/intel/composer_xe_2013.0.079/debugger/gui/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/mpirt/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64_mic:/opt/intel/composer_xe_2013.0.079/debugger/gui/intel64:/usr/lib/lightdm/lightdm:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/home/jiaxu/amber12/bin:/sbin" ldconfig -n /home/jiaxu/amber12/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/jiaxu/amber12/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- test -z "/home/jiaxu/amber12/include/mtkpp/Graph" || /bin/mkdir -p "/home/jiaxu/amber12/include/mtkpp/Graph" /usr/bin/install -c -m 644 edge.h vertex.h graph.h '/home/jiaxu/amber12/include/mtkpp/Graph' make[4]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph' make[3]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Graph' Making install in Molecule make[3]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule' make[4]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule' test -z "/home/jiaxu/amber12/lib" || /bin/mkdir -p "/home/jiaxu/amber12/lib" /bin/sh ../../libtool --mode=install /usr/bin/install -c libMolecule.la '/home/jiaxu/amber12/lib' libtool: install: /usr/bin/install -c .libs/libMolecule.lai /home/jiaxu/amber12/lib/libMolecule.la libtool: install: /usr/bin/install -c .libs/libMolecule.a /home/jiaxu/amber12/lib/libMolecule.a libtool: install: chmod 644 /home/jiaxu/amber12/lib/libMolecule.a libtool: install: ranlib /home/jiaxu/amber12/lib/libMolecule.a libtool: finish: PATH="/home/jiaxu/mpich2-install/bin:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/mpirt/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64_mic:/opt/intel/composer_xe_2013.0.079/debugger/gui/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/mpirt/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64_mic:/opt/intel/composer_xe_2013.0.079/debugger/gui/intel64:/usr/lib/lightdm/lightdm:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/home/jiaxu/amber12/bin:/sbin" ldconfig -n /home/jiaxu/amber12/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/jiaxu/amber12/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- test -z "/home/jiaxu/amber12/include/mtkpp/Molecule" || /bin/mkdir -p "/home/jiaxu/amber12/include/mtkpp/Molecule" /usr/bin/install -c -m 644 collection.h molecule.h submolecule.h atom.h element.h connections.h bond.h angle.h improper.h torsion.h ring.h conformer.h atomTyper.h atomType.h parameters.h stdLibrary.h stdGroup.h stdFrag.h protonate.h proProtonate.h ligProtonate.h watProtonate.h fingerPrint.h functionalize.h hydrophobize.h hybridize.h pharmacophore.h superimpose.h selection.h metalCenter.h seqAlign.h complex.h utility.h version.h '/home/jiaxu/amber12/include/mtkpp/Molecule' make[4]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule' make[3]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Molecule' Making install in GA make[3]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA' make[4]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA' test -z "/home/jiaxu/amber12/lib" || /bin/mkdir -p "/home/jiaxu/amber12/lib" /bin/sh ../../libtool --mode=install /usr/bin/install -c libGA.la '/home/jiaxu/amber12/lib' libtool: install: /usr/bin/install -c .libs/libGA.lai /home/jiaxu/amber12/lib/libGA.la libtool: install: /usr/bin/install -c .libs/libGA.a /home/jiaxu/amber12/lib/libGA.a libtool: install: chmod 644 /home/jiaxu/amber12/lib/libGA.a libtool: install: ranlib /home/jiaxu/amber12/lib/libGA.a libtool: finish: PATH="/home/jiaxu/mpich2-install/bin:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/mpirt/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64_mic:/opt/intel/composer_xe_2013.0.079/debugger/gui/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/mpirt/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64_mic:/opt/intel/composer_xe_2013.0.079/debugger/gui/intel64:/usr/lib/lightdm/lightdm:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/home/jiaxu/amber12/bin:/sbin" ldconfig -n /home/jiaxu/amber12/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/jiaxu/amber12/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- test -z "/home/jiaxu/amber12/include/mtkpp/GA" || /bin/mkdir -p "/home/jiaxu/amber12/include/mtkpp/GA" /usr/bin/install -c -m 644 gaWorld.h gaRegion.h gaPopulation.h gaIndividual.h gaChromosome.h gaGene.h gaOperators.h gaAverage.h gaCrossOver.h gaMutate.h gaGaussian.h gaSelection.h gaOutput.h gaVersion.h '/home/jiaxu/amber12/include/mtkpp/GA' make[4]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA' make[3]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/GA' Making install in MM make[3]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/MM' make[4]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/MM' test -z "/home/jiaxu/amber12/lib" || /bin/mkdir -p "/home/jiaxu/amber12/lib" /bin/sh ../../libtool --mode=install /usr/bin/install -c libMM.la '/home/jiaxu/amber12/lib' libtool: install: /usr/bin/install -c .libs/libMM.lai /home/jiaxu/amber12/lib/libMM.la libtool: install: /usr/bin/install -c .libs/libMM.a /home/jiaxu/amber12/lib/libMM.a libtool: install: chmod 644 /home/jiaxu/amber12/lib/libMM.a libtool: install: ranlib /home/jiaxu/amber12/lib/libMM.a libtool: finish: PATH="/home/jiaxu/mpich2-install/bin:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/mpirt/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64_mic:/opt/intel/composer_xe_2013.0.079/debugger/gui/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/mpirt/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64_mic:/opt/intel/composer_xe_2013.0.079/debugger/gui/intel64:/usr/lib/lightdm/lightdm:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/home/jiaxu/amber12/bin:/sbin" ldconfig -n /home/jiaxu/amber12/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/jiaxu/amber12/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- test -z "/home/jiaxu/amber12/include/mtkpp/MM" || /bin/mkdir -p "/home/jiaxu/amber12/include/mtkpp/MM" /usr/bin/install -c -m 644 mmPotential.h amber.h amberBond.h amberAngle.h amberTorsion.h amberImproper.h amberNonBonded.h '/home/jiaxu/amber12/include/mtkpp/MM' make[4]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/MM' make[3]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/MM' Making install in Minimizers make[3]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Minimizers' make[4]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Minimizers' test -z "/home/jiaxu/amber12/lib" || /bin/mkdir -p "/home/jiaxu/amber12/lib" /bin/sh ../../libtool --mode=install /usr/bin/install -c libMinimizers.la '/home/jiaxu/amber12/lib' libtool: install: /usr/bin/install -c .libs/libMinimizers.lai /home/jiaxu/amber12/lib/libMinimizers.la libtool: install: /usr/bin/install -c .libs/libMinimizers.a /home/jiaxu/amber12/lib/libMinimizers.a libtool: install: chmod 644 /home/jiaxu/amber12/lib/libMinimizers.a libtool: install: ranlib /home/jiaxu/amber12/lib/libMinimizers.a libtool: finish: PATH="/home/jiaxu/mpich2-install/bin:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/mpirt/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64_mic:/opt/intel/composer_xe_2013.0.079/debugger/gui/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/mpirt/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64_mic:/opt/intel/composer_xe_2013.0.079/debugger/gui/intel64:/usr/lib/lightdm/lightdm:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/home/jiaxu/amber12/bin:/sbin" ldconfig -n /home/jiaxu/amber12/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/jiaxu/amber12/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- test -z "/home/jiaxu/amber12/include/mtkpp/Minimizers" || /bin/mkdir -p "/home/jiaxu/amber12/include/mtkpp/Minimizers" /usr/bin/install -c -m 644 lbfgs.h '/home/jiaxu/amber12/include/mtkpp/Minimizers' make[4]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Minimizers' make[3]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Minimizers' Making install in Parsers make[3]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Parsers' make[4]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Parsers' test -z "/home/jiaxu/amber12/lib" || /bin/mkdir -p "/home/jiaxu/amber12/lib" /bin/sh ../../libtool --mode=install /usr/bin/install -c libParsers.la '/home/jiaxu/amber12/lib' libtool: install: /usr/bin/install -c .libs/libParsers.lai /home/jiaxu/amber12/lib/libParsers.la libtool: install: /usr/bin/install -c .libs/libParsers.a /home/jiaxu/amber12/lib/libParsers.a libtool: install: chmod 644 /home/jiaxu/amber12/lib/libParsers.a libtool: install: ranlib /home/jiaxu/amber12/lib/libParsers.a libtool: finish: PATH="/home/jiaxu/mpich2-install/bin:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/mpirt/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64_mic:/opt/intel/composer_xe_2013.0.079/debugger/gui/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/mpirt/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64:/opt/intel/composer_xe_2013.0.079/bin/intel64_mic:/opt/intel/composer_xe_2013.0.079/debugger/gui/intel64:/usr/lib/lightdm/lightdm:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/home/jiaxu/amber12/bin:/sbin" ldconfig -n /home/jiaxu/amber12/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/jiaxu/amber12/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- test -z "/home/jiaxu/amber12/include/mtkpp/Parsers" || /bin/mkdir -p "/home/jiaxu/amber12/include/mtkpp/Parsers" /usr/bin/install -c -m 644 parsingException.h stdLibParser.h baseParser.h mtkppParser.h commLineOptions.h inputParser.h molParser.h mol2Parser.h pdbParser.h pamParser.h dcParser.h sdfParser.h xyzParser.h elementParser.h paramParser.h atomTypeParser.h gaParser.h StringManip.h domErrorHandler.h gaussianParser.h zmatParser.h prepParser.h acParser.h frcmodParser.h dMParser.h amberParser.h xmlConvertors.h '/home/jiaxu/amber12/include/mtkpp/Parsers' make[4]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Parsers' make[3]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Parsers' Making install in Utils make[3]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Utils' make[4]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Utils' make[4]: Nothing to be done for `install-exec-am'. test -z "/home/jiaxu/amber12/include/mtkpp/Utils" || /bin/mkdir -p "/home/jiaxu/amber12/include/mtkpp/Utils" /usr/bin/install -c -m 644 copyright.h printHeader.h constants.h diagonalize.h index.h DivConInterface.h object.h idObject.h inverseMatrix.h deleteItem.h randomNumbers.h vector3d.h '/home/jiaxu/amber12/include/mtkpp/Utils' make[4]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Utils' make[3]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src/Utils' make[3]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src' make[4]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src' make[4]: Nothing to be done for `install-exec-am'. make[4]: Nothing to be done for `install-data-am'. make[4]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src' make[3]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src' make[2]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/src' Making install in tools make[2]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/tools' make[3]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/tools' test -z "/home/jiaxu/amber12/bin" || /bin/mkdir -p "/home/jiaxu/amber12/bin" /bin/sh ../libtool --mode=install /usr/bin/install -c MTKppConstants capActiveSite frcmod2xml func hybrid mmE prep2xml protonator sequenceAligner stats superimposer stdLib2Sdf pdbSearcher MCPB '/home/jiaxu/amber12/bin' libtool: install: /usr/bin/install -c MTKppConstants /home/jiaxu/amber12/bin/MTKppConstants libtool: install: /usr/bin/install -c capActiveSite /home/jiaxu/amber12/bin/capActiveSite libtool: install: /usr/bin/install -c frcmod2xml /home/jiaxu/amber12/bin/frcmod2xml libtool: install: /usr/bin/install -c func /home/jiaxu/amber12/bin/func libtool: install: /usr/bin/install -c hybrid /home/jiaxu/amber12/bin/hybrid libtool: install: /usr/bin/install -c mmE /home/jiaxu/amber12/bin/mmE libtool: install: /usr/bin/install -c prep2xml /home/jiaxu/amber12/bin/prep2xml libtool: install: /usr/bin/install -c protonator /home/jiaxu/amber12/bin/protonator libtool: install: /usr/bin/install -c sequenceAligner /home/jiaxu/amber12/bin/sequenceAligner libtool: install: /usr/bin/install -c stats /home/jiaxu/amber12/bin/stats libtool: install: /usr/bin/install -c superimposer /home/jiaxu/amber12/bin/superimposer libtool: install: /usr/bin/install -c stdLib2Sdf /home/jiaxu/amber12/bin/stdLib2Sdf libtool: install: /usr/bin/install -c pdbSearcher /home/jiaxu/amber12/bin/pdbSearcher libtool: install: /usr/bin/install -c MCPB /home/jiaxu/amber12/bin/MCPB make[3]: Nothing to be done for `install-data-am'. make[3]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/tools' make[2]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/tools' Making install in tests make[2]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/tests' make[3]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/tests' make[3]: Nothing to be done for `install-exec-am'. make[3]: Nothing to be done for `install-data-am'. make[3]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/tests' make[2]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/tests' make[2]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp' make[3]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp' make[3]: Nothing to be done for `install-exec-am'. test -z "/home/jiaxu/amber12/include/mtkpp" || /bin/mkdir -p "/home/jiaxu/amber12/include/mtkpp" /usr/bin/install -c -m 644 config.h '/home/jiaxu/amber12/include/mtkpp' make[3]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp' make[2]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp' make[1]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp' (cd mtkpp/tests && make create ) make[1]: Entering directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/tests' make[1]: Nothing to be done for `create'. make[1]: Leaving directory `/home/jiaxu/amber12/AmberTools/src/mtkpp/tests' Completed installation of MTK++