clustalw - armel

start.S

init.c

crti.S

unassigned

FullPairwiseAlign.cpp

vector.tcc

iostream

cwchar

clocale

basic_string.tcc

cwctype

cstdlib

ostream

iosfwd

new

unassigned

FastPairwiseAlign.cpp

vector.tcc

ostream

iostream

cwchar

clocale

basic_string.tcc

cwctype

cstdlib

iosfwd

new

MSFFileParser.cpp

fstream

vector.tcc

iostream

cwchar

clocale

basic_string.tcc

cwctype

istream

cstdlib

cstdio

ostream

iosfwd

new

unassigned

FileReader.cpp

ostream

exception

vector.tcc

fstream

iostream

cwchar

clocale

basic_string.tcc

cwctype

ostream.tcc

istream

streambuf

cstdlib

cstdio

iosfwd

new

PIRFileParser.cpp

fstream

vector.tcc

iostream

cwchar

clocale

basic_string.tcc

cwctype

istream

cstdlib

cstdio

ostream

iosfwd

new

RSFFileParser.cpp

fstream

vector.tcc

iostream

cwchar

clocale

basic_string.tcc

cwctype

istream

cstdlib

cstdio

ostream

iosfwd

new

GDEFileParser.cpp

fstream

vector.tcc

iostream

cwchar

clocale

basic_string.tcc

cwctype

istream

cstdlib

cstdio

ostream

iosfwd

new

unassigned

fstream

streambuf

InFileStream.cpp

istream

iostream

cwchar

clocale

basic_string.tcc

cwctype

cstdio

iosfwd

basic_ios.tcc

fstream.tcc

new

unassigned

ClustalFileParser.cpp

fstream

vector.tcc

iostream

cwchar

clocale

basic_string.tcc

cwctype

istream

cstdlib

cstdio

ostream

iosfwd

new

PearsonFileParser.cpp

istream

fstream

streambuf

ostream

vector.tcc

iostream

cwchar

clocale

basic_string.tcc

cwctype

cstdlib

cstdio

basic_ios.tcc

fstream.tcc

iosfwd

new

FileParser.cpp

istream

fstream

streambuf

iostream

cwchar

clocale

basic_string.tcc

cwctype

cstdlib

vector.tcc

cstdio

iosfwd

basic_ios.tcc

fstream.tcc

new

EMBLFileParser.cpp

fstream

vector.tcc

iostream

cwchar

clocale

basic_string.tcc

cwctype

istream

cstdlib

cstdio

ostream

iosfwd

new

unassigned

vector.tcc

RootedClusterTree.cpp

ostream

fstream

iomanip

iostream

cwchar

clocale

basic_string.tcc

cwctype

ostream.tcc

cstdio

cstdlib

iosfwd

new

unassigned

UPGMAAlgorithm.cpp

ostream

vector.tcc

fstream

iomanip

new

iostream

limits

cwchar

clocale

basic_string.tcc

cwctype

ostream.tcc

cstdlib

cstdio

iosfwd

ctime

exception

unassigned

Node.cpp

ostream

vector.tcc

basic_string.tcc

sstream

streambuf

iostream

limits

cwchar

clocale

cwctype

ostream.tcc

cstdio

cstdlib

basic_ios.tcc

iosfwd

new

RootedGuideTree.cpp

vector.tcc

iostream

cwchar

clocale

basic_string.tcc

cwctype

cstdio

cstdlib

iosfwd

new

unassigned

RootedTreeOutput.cpp

ostream

fstream

iostream

cwchar

clocale

basic_string.tcc

cwctype

ostream.tcc

cstdio

vector.tcc

iomanip

cstdlib

iosfwd

unassigned

Tree.cpp

ostream

istream

sstream

streambuf

iomanip

fstream

vector.tcc

iostream

cwchar

clocale

new

basic_string.tcc

cwctype

ostream.tcc

istream.tcc

cstdio

cstdlib

iosfwd

basic_ios.tcc

fstream.tcc

unassigned

ClusterTree.cpp

fstream

iomanip

ostream

new

sstream

streambuf

vector.tcc

basic_string.tcc

iostream

cwchar

clocale

cwctype

ostream.tcc

cstdio

cstdlib

iosfwd

basic_ios.tcc

exception

unassigned

TreeInterface.cpp

fstream

streambuf

istream

vector.tcc

iostream

cwchar

clocale

basic_string.tcc

cwctype

cstdlib

cstdio

iosfwd

basic_ios.tcc

fstream.tcc

new

unassigned

UnRootedClusterTree.cpp

vector.tcc

fstream

ostream

iomanip

iostream

cwchar

clocale

new

basic_string.tcc

cwctype

ostream.tcc

cstdio

cstdlib

iosfwd

unassigned

ClusterTreeOutput.cpp

ostream

iomanip

iostream

cwchar

clocale

basic_string.tcc

cwctype

ostream.tcc

cstdio

cstdlib

vector.tcc

iosfwd

new

RandomGenerator.cpp

unassigned

vector.tcc

NJTree.cpp

ostream

iomanip

iostream

cwchar

clocale

basic_string.tcc

cwctype

ostream.tcc

cstdio

cstdlib

iosfwd

new

AlignmentSteps.cpp

ostream

vector.tcc

iostream

cwchar

clocale

basic_string.tcc

cwctype

ostream.tcc

iosfwd

new

unassigned

InteractiveMenu.cpp

new

ostream

iostream

cwchar

clocale

basic_string.tcc

cstdlib

cwctype

ostream.tcc

iomanip

vector.tcc

cstdio

basic_ios.tcc

iosfwd

exception

unassigned

CommandLineParser.cpp

ostream

basic_string.tcc

vector.tcc

iostream

cstdio

cwchar

clocale

cwctype

ostream.tcc

cstdlib

basic_ios.tcc

iosfwd

new

unassigned

SubMatrix.cpp

ostream

InvalidCombination.cpp

fstream

streambuf

vector.tcc

iostream

cwchar

clocale

basic_string.tcc

cstdlib

cwctype

ostream.tcc

iosfwd

cstdio

basic_ios.tcc

fstream.tcc

new

unassigned

Iteration.cpp

ostream

vector.tcc

basic_string.tcc

new

iostream

cwchar

clocale

cwctype

ostream.tcc

cstdlib

iosfwd

exception

unassigned

vector.tcc

MSA.cpp

ostream

iostream

cwchar

clocale

basic_string.tcc

cwctype

ostream.tcc

cstdlib

cstdio

iosfwd

new

unassigned

MyersMillerProfileAlign.cpp

ostream

vector.tcc

iostream

cwchar

clocale

basic_string.tcc

cwctype

ostream.tcc

cstdlib

iosfwd

new

ProfileStandard.cpp

vector.tcc

iostream

cwchar

clocale

basic_string.tcc

cwctype

cstdlib

iosfwd

new

ProfileWithSub.cpp

vector.tcc

iostream

cwchar

clocale

basic_string.tcc

cwctype

cstdlib

iosfwd

new

ProfileBase.cpp

vector.tcc

ostream

iostream

cwchar

clocale

basic_string.tcc

cwctype

ostream.tcc

cstdlib

iosfwd

new

unassigned

vector.tcc

LowScoreSegProfile.cpp

iostream

cwchar

clocale

basic_string.tcc

cwctype

cstdlib

iosfwd

new

unassigned

OutputFile.cpp

fstream

ostream

basic_string.tcc

iostream

cwchar

clocale

cwctype

streambuf

cstdio

iosfwd

cstdlib

basic_ios.tcc

fstream.tcc

new

unassigned

UserParameters.cpp

basic_string.tcc

ostream

fstream

streambuf

iostream

cwchar

clocale

cstdlib

cwctype

ostream.tcc

iomanip

cstdio

basic_ios.tcc

fstream.tcc

iosfwd

unassigned

Utility.cpp

ostream

iostream

cwchar

clocale

new

basic_string.tcc

cwctype

ostream.tcc

istream

cstdlib

vector.tcc

basic_ios.tcc

iosfwd

InvalidCombination.cpp

iostream

cwchar

clocale

cwctype

iosfwd

unassigned

DebugLog.cpp

ostream

fstream

basic_string.tcc

sstream

streambuf

iostream

cwchar

clocale

cwctype

ostream.tcc

cstdio

iosfwd

basic_ios.tcc

fstream.tcc

new

unassigned

ClustalWResources.cpp

istream

fstream

streambuf

iostream

cwchar

clocale

basic_string.tcc

cwctype

cstdlib

cstdio

basic_ios.tcc

fstream.tcc

iosfwd

unassigned

VectorOutOfRange.cpp

sstream

streambuf

basic_string.tcc

ostream

iostream

cwchar

clocale

cwctype

ostream.tcc

basic_ios.tcc

iosfwd

exception

new

unassigned

iostream

cwchar

clocale

cwctype

cstdlib

iosfwd

unassigned

Stats.cpp

ostream

vector.tcc

iostream

cstdlib

cwchar

clocale

basic_string.tcc

cwctype

iosfwd

new

unassigned

Help.cpp

Class

./Help.cpp.002t.class

Gimple

./Help.cpp.004t.gimple

GKD

./Help.o.gkd

OBJ

obj: ./Help.o

vector.tcc

basic_string.tcc

iostream

cwchar

clocale

cwctype

new

unassigned

Alignment.cpp

ostream

vector.tcc

basic_string.tcc

sstream

streambuf

iostream

cwchar

clocale

cwctype

ostream.tcc

iomanip

cstdlib

exception

basic_ios.tcc

iosfwd

new

unassigned

fstream

AlignmentOutput.cpp

ostream

istream

streambuf

basic_string.tcc

sstream

iomanip

vector.tcc

exception

iostream

cwchar

new

clocale

cwctype

ostream.tcc

cstdio

cstdlib

basic_ios.tcc

fstream.tcc

iosfwd

ObjectiveScore.cpp

vector.tcc

iostream

cwchar

clocale

basic_string.tcc

cwctype

cstdlib

cstdio

iosfwd

new

unassigned

Sequence.cpp

ostream

vector.tcc

iostream

cstdlib

cwchar

clocale

basic_string.tcc

cwctype

ostream.tcc

iosfwd

new

unassigned

fstream

streambuf

new

Clustal.cpp

Class

./Clustal.cpp.002t.class

Gimple

./Clustal.cpp.004t.gimple

GKD

./Clustal.o.gkd

OBJ

obj: ./Clustal.o

ostream

basic_string.tcc

vector.tcc

iostream

cwchar

clocale

cwctype

ostream.tcc

istream

cstdio

cstdlib

ctime

iosfwd

fstream.tcc

exception

unassigned

vector.tcc

main.cpp

Class

./main.cpp.002t.class

Gimple

./main.cpp.004t.gimple

GKD

./main.o.gkd

OBJ

obj: ./main.o

iostream

cwchar

clocale

basic_string.tcc

cwctype

cstdlib

cstdio

iosfwd

ctime

new

elf-init.c

crtn.S

includes

start.S

init.c

crti.S

unassigned

./pairwise/FullPairwiseAlign.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h

FullPairwiseAlign.cpp

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ./pairwise/../alignment/../general/SymMatrix.h ./pairwise/../alignment/Alignment.h

iostream

./pairwise/../alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h

clocale

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

cwctype

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h

ostream

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ./pairwise/../alignment/../general/general.h ./pairwise/../alignment/../general/Array2D.h ./pairwise/../alignment/../general/SquareMat.h ./pairwise/../alignment/../general/UserParameters.h ./pairwise/../alignment/../substitutionMatrix/SubMatrix.h ./pairwise/PairwiseAlignBase.h ./pairwise/../alignment/../general/Utility.h ./pairwise/../alignment/../general/utils.h ./pairwise/../alignment/../general/userparams.h ./pairwise/../alignment/../substitutionMatrix/globalmatrix.h ./pairwise/../alignment/../general/SequenceNotFoundException.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/mathcalls.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ./pairwise/FastPairwiseAlign.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h

FastPairwiseAlign.cpp

./pairwise/../alignment/../general/Array2D.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h ./pairwise/../alignment/../general/SymMatrix.h

ostream

./pairwise/../alignment/Alignment.h

iostream

./pairwise/../alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h

clocale

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

cwctype

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ./pairwise/../alignment/../general/general.h ./pairwise/../alignment/../general/SquareMat.h ./pairwise/../alignment/../general/UserParameters.h ./pairwise/../alignment/../substitutionMatrix/SubMatrix.h ./pairwise/PairwiseAlignBase.h ./pairwise/../alignment/../general/utils.h ./pairwise/../alignment/../general/userparams.h ./pairwise/../alignment/../general/Utility.h ./pairwise/../alignment/../general/SequenceNotFoundException.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/mathcalls.h

MSFFileParser.cpp

fstream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ./fileInput/MSFFileParser.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/string3.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ./fileInput/../alignment/../general/Utility.h ./fileInput/../alignment/Sequence.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

iostream

./fileInput/../alignment/../general/clustalw.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

clocale

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

istream

cstdlib

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/basic_file.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++io.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h

ostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h

iosfwd

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/pthreadtypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ./fileInput/../alignment/../general/general.h ./fileInput/../alignment/../general/Array2D.h ./fileInput/../alignment/../general/SquareMat.h ./fileInput/../alignment/../general/SymMatrix.h ./fileInput/../alignment/../general/UserParameters.h ./fileInput/FileParser.h ./fileInput/../alignment/../general/utils.h ./fileInput/../alignment/../general/userparams.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ./fileInput/InFileStream.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/string.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/locale_facets.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h

FileReader.cpp

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ./fileInput/../alignment/Sequence.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/backward/auto_ptr.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h

ostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/string.h

exception

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

fstream

./fileInput/../alignment/../general/UserParameters.h ./fileInput/../alignment/Alignment.h

iostream

./fileInput/../alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h

clocale

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

ostream.tcc

istream

streambuf

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/basic_file.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++io.h

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/pthreadtypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ./fileInput/../alignment/../general/general.h ./fileInput/../alignment/../general/Array2D.h ./fileInput/../alignment/../general/SquareMat.h ./fileInput/../alignment/../general/SymMatrix.h ./fileInput/../alignment/../substitutionMatrix/SubMatrix.h ./fileInput/PearsonFileParser.h ./fileInput/FileReader.h ./fileInput/FileParser.h ./fileInput/../alignment/../general/Utility.h ./fileInput/../alignment/../general/utils.h ./fileInput/../alignment/../general/userparams.h ./fileInput/../alignment/../general/SequenceNotFoundException.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ./fileInput/InFileStream.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/ctype.h

PIRFileParser.cpp

fstream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ./fileInput/PIRFileParser.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/string3.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ./fileInput/../alignment/Sequence.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

iostream

./fileInput/../alignment/../general/clustalw.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

clocale

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

istream

cstdlib

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/basic_file.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++io.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h

ostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h

iosfwd

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/pthreadtypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ./fileInput/../alignment/../general/general.h ./fileInput/../alignment/../general/Array2D.h ./fileInput/../alignment/../general/SquareMat.h ./fileInput/../alignment/../general/SymMatrix.h ./fileInput/../alignment/../general/UserParameters.h ./fileInput/FileParser.h ./fileInput/../alignment/../general/Utility.h ./fileInput/../alignment/../general/utils.h ./fileInput/../alignment/../general/userparams.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ./fileInput/InFileStream.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/string.h

RSFFileParser.cpp

fstream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ./fileInput/RSFFileParser.h ./fileInput/../alignment/Sequence.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/string3.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

iostream

./fileInput/../alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

clocale

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

istream

cstdlib

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/basic_file.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++io.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h

ostream

iosfwd

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/pthreadtypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ./fileInput/../alignment/../general/general.h ./fileInput/../alignment/../general/Array2D.h ./fileInput/../alignment/../general/SquareMat.h ./fileInput/../alignment/../general/SymMatrix.h ./fileInput/../alignment/../general/UserParameters.h ./fileInput/FileParser.h ./fileInput/../alignment/../general/Utility.h ./fileInput/../alignment/../general/utils.h ./fileInput/../alignment/../general/userparams.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ./fileInput/InFileStream.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/ctype.h

GDEFileParser.cpp

fstream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ./fileInput/../alignment/Sequence.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/string3.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

iostream

./fileInput/../alignment/../general/clustalw.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

clocale

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

istream

cstdlib

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/basic_file.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++io.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h

ostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h

iosfwd

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/pthreadtypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ./fileInput/../alignment/../general/general.h ./fileInput/../alignment/../general/Array2D.h ./fileInput/../alignment/../general/SquareMat.h ./fileInput/../alignment/../general/SymMatrix.h ./fileInput/../alignment/../general/UserParameters.h ./fileInput/GDEFileParser.h ./fileInput/FileParser.h ./fileInput/../alignment/../general/Utility.h ./fileInput/../alignment/../general/utils.h ./fileInput/../alignment/../general/userparams.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ./fileInput/InFileStream.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/ctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/string.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ./fileInput/InFileStream.h

fstream

streambuf

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h

InFileStream.cpp

istream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h

iostream

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

clocale

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/basic_file.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++io.h

iosfwd

basic_ios.tcc

fstream.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/pthreadtypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h

new

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h

ClustalFileParser.cpp

./fileInput/../alignment/Sequence.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h

fstream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/string3.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

iostream

./fileInput/../alignment/../general/clustalw.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

clocale

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

istream

cstdlib

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/basic_file.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++io.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h

ostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h

iosfwd

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/pthreadtypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ./fileInput/../alignment/../general/general.h ./fileInput/../alignment/../general/Array2D.h ./fileInput/../alignment/../general/SquareMat.h ./fileInput/../alignment/../general/SymMatrix.h ./fileInput/../alignment/../general/UserParameters.h ./fileInput/ClustalFileParser.h ./fileInput/FileParser.h ./fileInput/../alignment/../general/Utility.h ./fileInput/../alignment/../general/utils.h ./fileInput/../alignment/../general/userparams.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/ctype.h ./fileInput/InFileStream.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/string.h

PearsonFileParser.cpp

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ./fileInput/PearsonFileParser.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h

istream

fstream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

streambuf

ostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ./fileInput/../alignment/Sequence.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

iostream

./fileInput/../alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

clocale

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

cstdlib

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/basic_file.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++io.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h

basic_ios.tcc

fstream.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h

iosfwd

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/pthreadtypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ./fileInput/../alignment/../general/general.h ./fileInput/../alignment/../general/Array2D.h ./fileInput/../alignment/../general/SquareMat.h ./fileInput/../alignment/../general/SymMatrix.h ./fileInput/../alignment/../general/UserParameters.h ./fileInput/FileParser.h ./fileInput/../alignment/../general/Utility.h ./fileInput/../alignment/../general/utils.h ./fileInput/../alignment/../general/userparams.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h

FileParser.cpp

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ./fileInput/../alignment/../general/UserParameters.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/ctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h

istream

fstream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

streambuf

iostream

./fileInput/../alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h

clocale

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h

vector.tcc

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/basic_file.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++io.h

iosfwd

basic_ios.tcc

fstream.tcc

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/pthreadtypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ./fileInput/../alignment/../general/general.h ./fileInput/../alignment/../general/Array2D.h ./fileInput/../alignment/../general/SquareMat.h ./fileInput/../alignment/../general/SymMatrix.h ./fileInput/../alignment/Sequence.h ./fileInput/FileParser.h ./fileInput/../alignment/../general/userparams.h ./fileInput/../alignment/../general/Utility.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ./fileInput/InFileStream.h

EMBLFileParser.cpp

fstream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/string3.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ./fileInput/../alignment/Sequence.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

iostream

./fileInput/../alignment/../general/clustalw.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

clocale

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

istream

cstdlib

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/basic_file.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++io.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h

ostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h

iosfwd

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/pthreadtypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ./fileInput/../alignment/../general/general.h ./fileInput/../alignment/../general/Array2D.h ./fileInput/../alignment/../general/SquareMat.h ./fileInput/../alignment/../general/SymMatrix.h ./fileInput/../alignment/../general/UserParameters.h ./fileInput/EMBLFileParser.h ./fileInput/FileParser.h ./fileInput/../alignment/../general/Utility.h ./fileInput/../alignment/../general/utils.h ./fileInput/../alignment/../general/userparams.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ./fileInput/InFileStream.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/string.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/backward/auto_ptr.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h

RootedClusterTree.cpp

./tree/UPGMA/../../alignment/../general/UserParameters.h ./tree/UPGMA/../../alignment/Alignment.h ./tree/UPGMA/UPGMAAlgorithm.h

ostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h ./tree/UPGMA/../../alignment/../general/SymMatrix.h

fstream

iomanip

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h ./tree/UPGMA/../AlignmentSteps.h

iostream

./tree/UPGMA/../../alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

ostream.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/locale_facets.h

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/basic_file.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++io.h

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_list.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/pthreadtypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ./tree/UPGMA/../../alignment/../general/general.h ./tree/UPGMA/../../alignment/../general/Array2D.h ./tree/UPGMA/../../alignment/../general/SquareMat.h ./tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h ./tree/UPGMA/../../general/OutputFile.h ./tree/UPGMA/../ClusterTree.h ./tree/UPGMA/../ClusterTreeAlgorithm.h ./tree/UPGMA/Node.h ./tree/UPGMA/RootedGuideTree.h ./tree/UPGMA/RootedClusterTree.h ./tree/UPGMA/RootedTreeOutput.h ./tree/UPGMA/../../alignment/../general/Utility.h ./tree/UPGMA/../../alignment/../general/utils.h ./tree/UPGMA/../../alignment/../general/userparams.h ./tree/UPGMA/../../alignment/../general/SequenceNotFoundException.h ./tree/UPGMA/upgmadata.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h

UPGMAAlgorithm.cpp

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/backward/auto_ptr.h

ostream

./tree/UPGMA/UPGMAAlgorithm.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h

fstream

iomanip

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h ./tree/UPGMA/../AlignmentSteps.h ./tree/UPGMA/../../general/SymMatrix.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/string3.h

new

iostream

./tree/UPGMA/../../general/clustalw.h

limits

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h

clocale

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

ostream.tcc

cstdlib

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/basic_file.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++io.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_list.h

iosfwd

ctime

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/time_t.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/clock_t.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/pthreadtypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ./tree/UPGMA/Node.h ./tree/UPGMA/../../general/Array2D.h ./tree/UPGMA/../../general/SquareMat.h ./tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h ./tree/UPGMA/RootedGuideTree.h ./tree/UPGMA/../../general/DebugLog.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ./tree/UPGMA/../../alignment/../general/Utility.h ./tree/UPGMA/../../alignment/../general/SequenceNotFoundException.h ./tree/UPGMA/../../alignment/Alignment.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/time.h

exception

./tree/UPGMA/upgmadata.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h

Node.cpp

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h

ostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ./tree/UPGMA/Node.h

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_funcs.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h

sstream

streambuf

iostream

./tree/UPGMA/../../general/clustalw.h

limits

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

cwchar

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

cwctype

ostream.tcc

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h

cstdlib

basic_ios.tcc

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ./tree/UPGMA/../../general/DebugLog.h ./tree/UPGMA/../../general/Array2D.h ./tree/UPGMA/../../general/SquareMat.h ./tree/UPGMA/../../general/SymMatrix.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ./tree/UPGMA/../../general/VectorUtility.h ./tree/UPGMA/upgmadata.h

new

RootedGuideTree.cpp

./tree/UPGMA/Node.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h

iostream

./tree/UPGMA/../../alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

cwctype

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

cstdio

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ./tree/UPGMA/../../alignment/../general/Array2D.h ./tree/UPGMA/../../alignment/../general/SquareMat.h ./tree/UPGMA/../../alignment/../general/SymMatrix.h ./tree/UPGMA/../../alignment/../general/UserParameters.h ./tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h ./tree/UPGMA/RootedGuideTree.h ./tree/UPGMA/../../alignment/../general/userparams.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ./tree/UPGMA/../../alignment/../general/Utility.h ./tree/UPGMA/../../alignment/../general/SequenceNotFoundException.h ./tree/UPGMA/../../alignment/Alignment.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ./tree/UPGMA/upgmadata.h

new

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h

RootedTreeOutput.cpp

./tree/UPGMA/Node.h

ostream

fstream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h ./tree/UPGMA/../../alignment/../general/SymMatrix.h

iostream

./tree/UPGMA/../../alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

ostream.tcc

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/basic_file.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++io.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h

vector.tcc

iomanip

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/pthreadtypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ./tree/UPGMA/../../alignment/../general/Array2D.h ./tree/UPGMA/../../alignment/../general/SquareMat.h ./tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h ./tree/UPGMA/../../alignment/Alignment.h ./tree/UPGMA/RootedGuideTree.h ./tree/UPGMA/RootedTreeOutput.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ./tree/UPGMA/../../alignment/../general/Utility.h ./tree/UPGMA/../../alignment/../general/SequenceNotFoundException.h ./tree/UPGMA/upgmadata.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h

Tree.cpp

ostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h

istream

sstream

streambuf

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h

iomanip

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h ./tree/../alignment/../general/SymMatrix.h

fstream

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/backward/auto_ptr.h ./tree/AlignmentSteps.h

iostream

./tree/../alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h

clocale

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

ostream.tcc

istream.tcc

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/basic_file.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++io.h

cstdlib

iosfwd

basic_ios.tcc

fstream.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_funcs.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/pthreadtypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ./tree/../alignment/../general/general.h ./tree/../alignment/../general/Array2D.h ./tree/../alignment/../general/SquareMat.h ./tree/../alignment/../general/UserParameters.h ./tree/../alignment/../substitutionMatrix/SubMatrix.h ./tree/../alignment/Alignment.h ./tree/Tree.h ./tree/../alignment/../general/utils.h ./tree/../alignment/../general/userparams.h ./tree/../alignment/../general/Utility.h ./tree/../alignment/../general/SequenceNotFoundException.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/ctype.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h

ClusterTree.cpp

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/backward/auto_ptr.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ./tree/../alignment/../general/SymMatrix.h

fstream

iomanip

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

ostream

./tree/../alignment/Alignment.h

new

sstream

streambuf

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_funcs.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h

iostream

./tree/../alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

ostream.tcc

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/basic_file.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++io.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

cstdlib

iosfwd

basic_ios.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/pthreadtypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ./tree/../alignment/../general/general.h ./tree/../alignment/../general/Array2D.h ./tree/../alignment/../general/SquareMat.h ./tree/../alignment/../general/UserParameters.h ./tree/../alignment/../substitutionMatrix/SubMatrix.h ./tree/../general/OutputFile.h ./tree/ClusterTree.h ./tree/ClusterTreeAlgorithm.h ./tree/../alignment/../general/Utility.h ./tree/../alignment/../general/utils.h ./tree/../alignment/../general/userparams.h ./tree/dayhoff.h ./tree/../alignment/../general/SequenceNotFoundException.h

exception

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/mathcalls.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ./tree/../alignment/../general/SymMatrix.h ./tree/ClusterTree.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/backward/auto_ptr.h

TreeInterface.cpp

./tree/UPGMA/RootedClusterTree.h ./tree/UnRootedClusterTree.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h ./tree/Tree.h

fstream

streambuf

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h

istream

./tree/AlignmentSteps.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

iostream

./tree/../alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h

clocale

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

cwctype

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h

cstdio

iosfwd

basic_ios.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h

fstream.tcc

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ./tree/../alignment/../general/Array2D.h ./tree/../alignment/../general/SquareMat.h ./tree/../alignment/../general/UserParameters.h ./tree/../alignment/../substitutionMatrix/SubMatrix.h ./tree/../alignment/Alignment.h ./tree/TreeInterface.h ./tree/UPGMA/RootedGuideTree.h ./tree/ClusterTreeOutput.h ./tree/../general/OutputFile.h ./tree/ClusterTreeAlgorithm.h ./tree/../multipleAlign/MSA.h ./tree/../general/DebugLog.h ./tree/UPGMA/Node.h ./tree/../alignment/../general/utils.h ./tree/../alignment/../general/userparams.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ./tree/../alignment/../general/Utility.h ./tree/../alignment/../general/SequenceNotFoundException.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ./tree/UPGMA/upgmadata.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ./tree/NJTree.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h

UnRootedClusterTree.cpp

./tree/../alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h ./tree/../alignment/../general/UserParameters.h ./tree/../alignment/../general/SymMatrix.h

fstream

ostream

iomanip

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h ./tree/../alignment/Alignment.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/backward/auto_ptr.h

iostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h

clocale

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

ostream.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/locale_facets.h

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/basic_file.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++io.h

cstdlib

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_funcs.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/pthreadtypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ./tree/../alignment/../general/general.h ./tree/../alignment/../general/Array2D.h ./tree/../alignment/../general/SquareMat.h ./tree/../alignment/../substitutionMatrix/SubMatrix.h ./tree/ClusterTreeOutput.h ./tree/../general/OutputFile.h ./tree/ClusterTree.h ./tree/ClusterTreeAlgorithm.h ./tree/UnRootedClusterTree.h ./tree/RandomGenerator.h ./tree/../alignment/../general/Utility.h ./tree/../alignment/../general/utils.h ./tree/../alignment/../general/userparams.h ./tree/../alignment/../general/SequenceNotFoundException.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h

ClusterTreeOutput.cpp

ostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h ./tree/../alignment/../general/SymMatrix.h

iomanip

iostream

./tree/../alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h

clocale

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

ostream.tcc

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h

cstdlib

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ./tree/../alignment/../general/general.h ./tree/../alignment/../general/Array2D.h ./tree/../alignment/../general/SquareMat.h ./tree/../alignment/../substitutionMatrix/SubMatrix.h ./tree/../alignment/Alignment.h ./tree/ClusterTreeOutput.h ./tree/../alignment/../general/Utility.h ./tree/../alignment/../general/SequenceNotFoundException.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h

RandomGenerator.cpp

./tree/RandomGenerator.h

unassigned

./tree/NJTree.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ./tree/../general/SymMatrix.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h

NJTree.cpp

ostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

iomanip

iostream

./tree/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

cwchar

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

ostream.tcc

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ./tree/../general/general.h ./tree/../general/Array2D.h ./tree/../general/SquareMat.h ./tree/ClusterTreeAlgorithm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ./tree/../general/Utility.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h

AlignmentSteps.cpp

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h

ostream

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h

iostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

cwctype

ostream.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ./tree/AlignmentSteps.h

new

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h

InteractiveMenu.cpp

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/string3.h

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h

ostream

./interface/../general/UserParameters.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h

iostream

./interface/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

clocale

basic_string.tcc

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

ostream.tcc

iomanip

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h

basic_ios.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ./interface/../general/general.h ./interface/../general/Array2D.h ./interface/../general/SquareMat.h ./interface/../general/SymMatrix.h ./interface/../fileInput/../alignment/../substitutionMatrix/SubMatrix.h ./interface/../fileInput/../alignment/Alignment.h ./interface/../fileInput/PearsonFileParser.h ./interface/../Clustal.h ./interface/InteractiveMenu.h ./interface/../general/Utility.h ./interface/../general/utils.h ./interface/../general/userparams.h ./interface/../fileInput/../alignment/../substitutionMatrix/globalmatrix.h ./interface/../fileInput/../alignment/../general/SequenceNotFoundException.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h

exception

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/ctype.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/locale_facets.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h

CommandLineParser.cpp

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h

ostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

basic_string.tcc

./interface/../general/UserParameters.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/string3.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h ./interface/../general/Utility.h ./interface/../general/Stats.h

iostream

./interface/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h

cstdio

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

ostream.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h

basic_ios.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h

iosfwd

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ./interface/../general/general.h ./interface/../general/Array2D.h ./interface/../general/SquareMat.h ./interface/../general/SymMatrix.h ./interface/../fileInput/../alignment/../substitutionMatrix/SubMatrix.h ./interface/../fileInput/../alignment/Alignment.h ./interface/../fileInput/PearsonFileParser.h ./interface/../Clustal.h ./interface/../general/DebugLog.h ./interface/CommandLineParser.h ./interface/../general/utils.h ./interface/../general/userparams.h ./interface/../fileInput/../alignment/../substitutionMatrix/globalmatrix.h ./interface/../general/statsObject.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ./interface/../fileInput/../alignment/../general/SequenceNotFoundException.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/ctype.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/locale_facets.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h

SubMatrix.cpp

ostream

InvalidCombination.cpp

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h

fstream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

streambuf

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/string3.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ./substitutionMatrix/../general/UserParameters.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_funcs.h

iostream

./substitutionMatrix/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

clocale

basic_string.tcc

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

ostream.tcc

iosfwd

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h

basic_ios.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h

fstream.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ./substitutionMatrix/../general/general.h ./substitutionMatrix/../general/Array2D.h ./substitutionMatrix/../general/SquareMat.h ./substitutionMatrix/../general/SymMatrix.h ./substitutionMatrix/SubMatrix.h ./substitutionMatrix/../general/DebugLog.h ./substitutionMatrix/../general/Utility.h ./substitutionMatrix/../general/utils.h ./substitutionMatrix/../general/userparams.h ./substitutionMatrix/matrices.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/ctype.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ./multipleAlign/../alignment/../general/SymMatrix.h ./multipleAlign/../alignment/Alignment.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h

Iteration.cpp

ostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ./multipleAlign/../alignment/../general/UserParameters.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h ./multipleAlign/../alignment/Sequence.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h

basic_string.tcc

new

iostream

./multipleAlign/../alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

cwchar

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

cwctype

ostream.tcc

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_funcs.h

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ./multipleAlign/../alignment/../general/general.h ./multipleAlign/../alignment/../general/Array2D.h ./multipleAlign/../alignment/../general/SquareMat.h ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h ./multipleAlign/Iteration.h ./multipleAlign/../alignment/ObjectiveScore.h ./multipleAlign/../tree/AlignmentSteps.h ./multipleAlign/../tree/TreeInterface.h ./multipleAlign/MSA.h ./multipleAlign/../alignment/../general/utils.h ./multipleAlign/../alignment/../general/userparams.h ./multipleAlign/../alignment/../general/Utility.h ./multipleAlign/../alignment/../general/SequenceNotFoundException.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h

exception

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/string.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ./multipleAlign/MyersMillerProfileAlign.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ./multipleAlign/ProfileAlignAlgorithm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h

MSA.cpp

./multipleAlign/../alignment/../general/SymMatrix.h

ostream

iostream

./multipleAlign/../alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h

cwchar

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

cwctype

ostream.tcc

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ./multipleAlign/../alignment/../general/general.h ./multipleAlign/../alignment/../general/Array2D.h ./multipleAlign/../alignment/../general/SquareMat.h ./multipleAlign/../alignment/../general/UserParameters.h ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h ./multipleAlign/../alignment/Alignment.h ./multipleAlign/../tree/AlignmentSteps.h ./multipleAlign/MSA.h ./multipleAlign/../general/DebugLog.h ./multipleAlign/../alignment/../general/utils.h ./multipleAlign/../alignment/../general/userparams.h ./multipleAlign/../alignment/../general/Utility.h ./multipleAlign/../alignment/../general/SequenceNotFoundException.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h

new

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ./multipleAlign/MyersMillerProfileAlign.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ./multipleAlign/ProfileAlignAlgorithm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h

MyersMillerProfileAlign.cpp

ostream

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h ./multipleAlign/../alignment/../general/SymMatrix.h ./multipleAlign/../alignment/Alignment.h ./multipleAlign/../alignment/../general/UserParameters.h ./multipleAlign/ProfileBase.h

iostream

./multipleAlign/../alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h

clocale

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

cwctype

ostream.tcc

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_funcs.h

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ./multipleAlign/../alignment/../general/general.h ./multipleAlign/../alignment/../general/Array2D.h ./multipleAlign/../alignment/../general/SquareMat.h ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h ./multipleAlign/ProfileStandard.h ./multipleAlign/ProfileWithSub.h ./multipleAlign/Iteration.h ./multipleAlign/../alignment/../general/Utility.h ./multipleAlign/../alignment/../general/utils.h ./multipleAlign/../alignment/../general/userparams.h ./multipleAlign/../alignment/../substitutionMatrix/globalmatrix.h ./multipleAlign/../alignment/../general/SequenceNotFoundException.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/mathcalls.h

ProfileStandard.cpp

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

iostream

./multipleAlign/../alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

cwctype

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ./multipleAlign/../alignment/../general/general.h ./multipleAlign/../alignment/../general/Array2D.h ./multipleAlign/../alignment/../general/SquareMat.h ./multipleAlign/../alignment/../general/SymMatrix.h ./multipleAlign/../alignment/../general/UserParameters.h ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h ./multipleAlign/../alignment/Alignment.h ./multipleAlign/ProfileBase.h ./multipleAlign/ProfileStandard.h ./multipleAlign/../alignment/../general/userparams.h ./multipleAlign/../alignment/../general/Utility.h ./multipleAlign/../alignment/../general/SequenceNotFoundException.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h

new

ProfileWithSub.cpp

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

iostream

./multipleAlign/../alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

cwctype

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ./multipleAlign/../alignment/../general/general.h ./multipleAlign/../alignment/../general/Array2D.h ./multipleAlign/../alignment/../general/SquareMat.h ./multipleAlign/../alignment/../general/SymMatrix.h ./multipleAlign/../alignment/../general/UserParameters.h ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h ./multipleAlign/../alignment/Alignment.h ./multipleAlign/ProfileBase.h ./multipleAlign/ProfileWithSub.h ./multipleAlign/../alignment/../general/userparams.h ./multipleAlign/../alignment/../general/Utility.h ./multipleAlign/../alignment/../general/SequenceNotFoundException.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h

new

ProfileBase.cpp

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ./multipleAlign/../alignment/../general/UserParameters.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h

ostream

iostream

./multipleAlign/../alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h

clocale

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

cwctype

ostream.tcc

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_funcs.h

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ./multipleAlign/../alignment/../general/general.h ./multipleAlign/../alignment/../general/Array2D.h ./multipleAlign/../alignment/../general/SquareMat.h ./multipleAlign/../alignment/../general/SymMatrix.h ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h ./multipleAlign/../alignment/Alignment.h ./multipleAlign/ProfileBase.h ./multipleAlign/../alignment/../general/userparams.h ./multipleAlign/../alignment/../general/Utility.h ./multipleAlign/../alignment/../general/SequenceNotFoundException.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h

new

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

LowScoreSegProfile.cpp

iostream

./multipleAlign/../alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

cwctype

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ./multipleAlign/../alignment/../general/general.h ./multipleAlign/../alignment/../general/Array2D.h ./multipleAlign/../alignment/../general/SquareMat.h ./multipleAlign/../alignment/../general/SymMatrix.h ./multipleAlign/../alignment/../general/UserParameters.h ./multipleAlign/../alignment/../substitutionMatrix/SubMatrix.h ./multipleAlign/../alignment/Alignment.h ./multipleAlign/LowScoreSegProfile.h ./multipleAlign/../alignment/../general/userparams.h ./multipleAlign/../alignment/../general/Utility.h ./multipleAlign/../alignment/../general/SequenceNotFoundException.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h

new

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h

OutputFile.cpp

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/backward/auto_ptr.h

fstream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ./general/UserParameters.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h

ostream

basic_string.tcc

iostream

./general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

streambuf

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/basic_file.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++io.h

iosfwd

cstdlib

basic_ios.tcc

fstream.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/pthreadtypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ./general/OutputFile.h ./general/Array2D.h ./general/SquareMat.h ./general/SymMatrix.h ./general/Utility.h ./general/utils.h ./general/userparams.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h

UserParameters.cpp

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h

ostream

fstream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

streambuf

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h

iostream

./general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

clocale

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

ostream.tcc

iomanip

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h

basic_ios.tcc

fstream.tcc

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ./general/general.h ./general/Array2D.h ./general/SquareMat.h ./general/SymMatrix.h ./general/UserParameters.h ./general/Utility.h ./general/utils.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/ctype.h

unassigned

./general/Utility.h

Utility.cpp

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/string3.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h

ostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algo.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_heap.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h

iostream

./general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h

clocale

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

ostream.tcc

istream

cstdlib

vector.tcc

basic_ios.tcc

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ./general/general.h ./general/Array2D.h ./general/SquareMat.h ./general/SymMatrix.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/ctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/mathcalls.h

InvalidCombination.cpp

iostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

cwctype

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/locale_facets.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h

DebugLog.cpp

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h

ostream

fstream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_funcs.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h

sstream

streambuf

iostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

ostream.tcc

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/basic_file.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++io.h

iosfwd

basic_ios.tcc

fstream.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/pthreadtypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ./general/DebugLog.h

new

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ./general/ClustalWResources.h

ClustalWResources.cpp

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h

istream

fstream

streambuf

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

iostream

./general/clustalw.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

clocale

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

cstdlib

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/basic_file.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++io.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h

basic_ios.tcc

fstream.tcc

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/pthreadtypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ./general/Array2D.h ./general/SquareMat.h ./general/SymMatrix.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h

VectorOutOfRange.cpp

sstream

streambuf

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_funcs.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h

ostream

iostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

cwctype

ostream.tcc

basic_ios.tcc

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h

exception

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ./general/VectorOutOfRange.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h

new

unassigned

./general/SymMatrix.h

iostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

cwctype

cstdlib

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h

Stats.cpp

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ./general/../alignment/Alignment.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h

ostream

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ./general/../alignment/../general/UserParameters.h

iostream

./general/../alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/time_t.h

cstdlib

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

cwctype

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h

iosfwd

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ./general/../alignment/../general/general.h ./general/../alignment/../general/Array2D.h ./general/../alignment/../general/SquareMat.h ./general/../alignment/../general/SymMatrix.h ./general/../alignment/../substitutionMatrix/SubMatrix.h ./general/Stats.h ./general/../alignment/../general/Utility.h ./general/../alignment/../general/utils.h ./general/../alignment/../general/userparams.h ./general/../alignment/../general/SequenceNotFoundException.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/time.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ./Help.h

Help.cpp

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

basic_string.tcc

iostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

cwctype

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h

new

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/locale_facets.h ./alignment/../general/SequenceNotFoundException.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ./alignment/../general/VectorOutOfRange.h

Alignment.cpp

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ./alignment/Alignment.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h

ostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h ./alignment/Sequence.h ./alignment/../general/UserParameters.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_funcs.h

sstream

streambuf

iostream

./alignment/../general/clustalw.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

ostream.tcc

iomanip

cstdlib

exception

basic_ios.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ./alignment/../general/general.h ./alignment/../general/Array2D.h ./alignment/../general/SquareMat.h ./alignment/../general/SymMatrix.h ./alignment/../substitutionMatrix/SubMatrix.h ./alignment/../general/Utility.h ./alignment/../general/utils.h ./alignment/../general/userparams.h ./alignment/../substitutionMatrix/globalmatrix.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/mathcalls.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h

fstream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h

AlignmentOutput.cpp

ostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/backward/auto_ptr.h ./alignment/../general/VectorOutOfRange.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ./alignment/Alignment.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h

istream

streambuf

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h

basic_string.tcc

./alignment/../general/UserParameters.h

sstream

iomanip

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h

exception

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

iostream

./alignment/../general/clustalw.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h

cwctype

ostream.tcc

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/basic_file.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++io.h

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h

basic_ios.tcc

fstream.tcc

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/pthreadtypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ./alignment/../general/general.h ./alignment/../general/Array2D.h ./alignment/../general/SquareMat.h ./alignment/../general/SymMatrix.h ./alignment/../substitutionMatrix/SubMatrix.h ./alignment/AlignmentOutput.h ./alignment/../general/Utility.h ./alignment/../general/utils.h ./alignment/../general/userparams.h ./alignment/../general/SequenceNotFoundException.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/ctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/assert.h

ObjectiveScore.cpp

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ./alignment/Alignment.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h

iostream

./alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

cwctype

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h

cstdio

iosfwd

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ./alignment/../general/general.h ./alignment/../general/Array2D.h ./alignment/../general/SquareMat.h ./alignment/../general/SymMatrix.h ./alignment/../substitutionMatrix/../general/UserParameters.h ./alignment/../substitutionMatrix/SubMatrix.h ./alignment/ObjectiveScore.h ./alignment/../general/DebugLog.h ./alignment/../substitutionMatrix/../general/utils.h ./alignment/../substitutionMatrix/../general/userparams.h ./alignment/../substitutionMatrix/globalmatrix.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ./alignment/../substitutionMatrix/../general/Utility.h ./alignment/../general/SequenceNotFoundException.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h

new

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/locale_facets.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h

Sequence.cpp

ostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ./alignment/../general/UserParameters.h

iostream

./alignment/../general/clustalw.h

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h

clocale

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

cwctype

ostream.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h

iosfwd

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/cpp_type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ./alignment/../general/general.h ./alignment/../general/Array2D.h ./alignment/../general/SquareMat.h ./alignment/../general/SymMatrix.h ./alignment/Sequence.h ./alignment/../general/Utility.h ./alignment/../general/utils.h ./alignment/../general/userparams.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/locale_facets.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ./fileInput/InFileStream.h

fstream

streambuf

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_ios.h ./general/SymMatrix.h

new

./fileInput/../alignment/Alignment.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h ./general/clustalw.h ./alignment/AlignmentOutput.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/backward/auto_ptr.h

Clustal.cpp

./general/UserParameters.h

ostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h

basic_string.tcc

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h ./multipleAlign/LowScoreSegProfile.h

iostream

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/postypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

cwctype

ostream.tcc

istream

cstdio

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/basic_file.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++io.h

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h

ctime

iosfwd

fstream.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ostream_insert.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/functexcept.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/type_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/time_t.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/clock_t.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/pthreadtypes.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ./general/general.h ./general/Array2D.h ./general/SquareMat.h ./fileInput/../alignment/../substitutionMatrix/SubMatrix.h ./fileInput/PearsonFileParser.h ./fileInput/FileReader.h ./Clustal.h ./multipleAlign/../tree/AlignmentSteps.h ./multipleAlign/MSA.h ./multipleAlign/Iteration.h ./tree/TreeInterface.h ./general/DebugLog.h ./general/Stats.h ./pairwise/PairwiseAlignBase.h ./general/Utility.h ./general/utils.h ./general/userparams.h ./fileInput/../alignment/../substitutionMatrix/globalmatrix.h ./general/statsObject.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ./fileInput/../alignment/../general/SequenceNotFoundException.h ./general/ClustalWResources.h ./Help.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/time.h

exception

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/ctype.h

unassigned

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/basic_string.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/atomicity.h ./alignment/../general/UserParameters.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_vector.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_construct.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/new_allocator.h

vector.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_algobase.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_uninitialized.h

main.cpp

iostream

./alignment/../general/clustalw.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/libio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stdarg.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wchar.h

cwchar

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/char_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/c++config.h

clocale

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/allocator.h

basic_string.tcc

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stringfwd.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/ios_base.h

cwctype

cstdlib

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/stl_iterator_base_types.h

cstdio

iosfwd

ctime

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/move.h

new

../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/wchar2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/struct_tm.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/debug/debug.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/bits/predefined_ops.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/numeric_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/ext/alloc_traits.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/locale.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/time_t.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/types/clock_t.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/atomic_word.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/wctype.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-float.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib-bsearch.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdlib.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/_G_config.h ./alignment/../general/general.h ./alignment/../general/Array2D.h ./alignment/../general/SquareMat.h ./alignment/../general/SymMatrix.h ./alignment/../substitutionMatrix/SubMatrix.h ./alignment/Alignment.h ./fileInput/PearsonFileParser.h ./interface/../Clustal.h ./interface/InteractiveMenu.h ./interface/../general/DebugLog.h ./interface/../general/Stats.h ./interface/CommandLineParser.h ./general/ClustalWResources.h ./alignment/../general/Utility.h ./alignment/../general/SequenceNotFoundException.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio2.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/bits/stdio.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/sysroot/usr/include/time.h ../headers//usr/xcc/armv7-unknown-linux-gnueabi/armv7-unknown-linux-gnueabi/include/c++/4.9.4/armv7-unknown-linux-gnueabi/bits/gthr-default.h

elf-init.c

../headers//dockcross/crosstool/toolchain/.build/armv7-unknown-linux-gnueabi/buildtools/lib/gcc/armv7-unknown-linux-gnueabi/4.9.4/include/stddef.h

crtn.S