disulfinder - amd64

unassigned

disulfinder.cpp

Class

./disulfinder.cpp.002t.class

Gimple

./disulfinder.cpp.004t.gimple

GKD

./disulfinder.o.gkd

OBJ

obj: ./disulfinder.o

unassigned

GlobalDescriptor.cpp

unassigned

createBRNNDataset.cpp

unassigned

createKernelDataset.cpp

unassigned

makeWindow.cpp

unassigned

makeSparseVector.cpp

unassigned

Protein.cpp

unassigned

buildXfolds.cpp

unassigned

SVMClassifier.cpp

unassigned

makeHTMLOutput.cpp

unassigned

utils.cpp

unassigned

makeASCIIOutput.cpp

unassigned

fsa.cpp

unassigned

viterbi_aligner.cpp

unassigned

multi-array.cpp

unassigned

array.cpp

unassigned

brnn-model.cpp

unassigned

brnn-test.cpp

unassigned

Node.cpp

unassigned

StructureSearch.cpp

unassigned

DataSet.cpp

unassigned

DPAG.cpp

unassigned

Options.cpp

unassigned

protein_util.cpp

unassigned

blast_util.cpp

unassigned

rnn_util.cpp

unassigned

Util.cpp

Class

./Util.cpp.002t.class

Gimple

./Util.cpp.004t.gimple

GKD

./Util.o.gkd

OBJ

obj: ./Util.o

unassigned

ConfusionMatrix.cpp

Class

./ConfusionMatrix.cpp.002t.class

Gimple

./ConfusionMatrix.cpp.004t.gimple

GKD

./ConfusionMatrix.o.gkd

OBJ

obj: ./ConfusionMatrix.o

Exception.cpp

Class

./Exception.cpp.002t.class

Gimple

./Exception.cpp.004t.gimple

GKD

./Exception.o.gkd

OBJ

obj: ./Exception.o

includes

unassigned

../headers//usr/include/c++/4.9/bits/locale_facets.h ../headers//usr/include/c++/4.9/bits/basic_string.h ../headers//usr/include/c++/4.9/ext/atomicity.h ../headers//usr/include/c++/4.9/ostream ../headers//usr/include/c++/4.9/bits/char_traits.h ../headers//usr/include/c++/4.9/bits/ios_base.h ../headers//usr/include/c++/4.9/bits/basic_ios.h ./disulfinder.h ../headers//usr/include/stdlib.h ../headers//usr/include/x86_64-linux-gnu/bits/stdio2.h

disulfinder.cpp

../headers//usr/include/c++/4.9/fstream ../headers//usr/include/c++/4.9/streambuf ../headers//usr/include/x86_64-linux-gnu/sys/stat.h ../headers/NN/brnn-test.h ../headers//usr/include/c++/4.9/istream ../headers/SVM/SVMClassifier.h ../headers//usr/include/c++/4.9/bits/stl_vector.h ../headers//usr/include/c++/4.9/ext/new_allocator.h ../headers//usr/include/c++/4.9/sstream ../headers//usr/include/c++/4.9/bits/basic_string.tcc ../headers//usr/include/c++/4.9/bits/stl_iterator_base_funcs.h ../headers//usr/include/c++/4.9/bits/stl_tree.h ../headers/Input/Protein.h ../headers//usr/include/c++/4.9/bits/stl_bvector.h ../headers//usr/include/c++/4.9/bits/stl_construct.h ../headers//usr/include/c++/4.9/iostream ../headers//usr/lib/gcc/x86_64-linux-gnu/4.9/include/stddef.h ../headers//usr/include/x86_64-linux-gnu/bits/types.h ../headers//usr/include/time.h ../headers//usr/include/x86_64-linux-gnu/bits/dirent.h ../headers//usr/include/x86_64-linux-gnu/bits/stat.h ../headers//usr/include/stdio.h ../headers//usr/include/libio.h ../headers//usr/include/wchar.h ../headers//usr/include/c++/4.9/cwchar ../headers//usr/include/c++/4.9/bits/cpp_type_traits.h ../headers//usr/include/c++/4.9/bits/stl_iterator_base_types.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/c++config.h ../headers//usr/include/c++/4.9/clocale ../headers//usr/include/c++/4.9/new ../headers//usr/include/c++/4.9/bits/allocator.h ../headers//usr/include/c++/4.9/bits/stringfwd.h ../headers//usr/include/c++/4.9/cwctype ../headers//usr/include/c++/4.9/bits/ostream.tcc ../headers//usr/include/c++/4.9/bits/istream.tcc ../headers//usr/include/c++/4.9/cstdio ../headers//usr/include/c++/4.9/bits/postypes.h ../headers//usr/include/c++/4.9/bits/stl_iterator.h ../headers//usr/include/c++/4.9/cstdlib ../headers//usr/include/c++/4.9/bits/stl_pair.h ../headers//usr/include/c++/4.9/bits/vector.tcc ../headers//usr/include/c++/4.9/bits/stl_map.h ../headers//usr/include/c++/4.9/iosfwd ../headers//usr/include/c++/4.9/bits/stl_function.h ../headers//usr/include/c++/4.9/bits/basic_ios.tcc ../headers//usr/include/c++/4.9/bits/move.h ../headers//usr/include/c++/4.9/bits/fstream.tcc ../headers//usr/include/c++/4.9/bits/ostream_insert.h ../headers//usr/include/c++/4.9/bits/functexcept.h ../headers//usr/include/x86_64-linux-gnu/bits/wchar2.h ../headers//usr/include/c++/4.9/debug/debug.h ../headers//usr/include/c++/4.9/bits/predefined_ops.h ../headers//usr/include/c++/4.9/ext/numeric_traits.h ../headers//usr/include/c++/4.9/backward/hash_fun.h ../headers//usr/include/c++/4.9/backward/hashtable.h ../headers//usr/include/c++/4.9/ext/alloc_traits.h ../headers//usr/include/c++/4.9/ext/type_traits.h ../headers//usr/include/locale.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/atomic_word.h ../headers//usr/include/wctype.h ../headers//usr/include/_G_config.h ../headers//usr/include/x86_64-linux-gnu/bits/stdio.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib-float.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib-bsearch.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib.h ../headers/Input/../Common/Exception.h ../headers/Input/../Common/SparseMatrix.h ../headers/Input/../Common/Matrix.h ../headers/SVM/Data.h ../headers/FSA-Alignment/../Common/Accuracy.h ../headers/FSA-Alignment/../Common/ConfusionMatrix.h ../headers/FSA-Alignment/../Common/Statistics.h ../headers/FSA-Alignment/../Common/CommonMethods.h ../headers/FSA-Alignment/fsa.h ../headers//usr/include/getopt.h ../headers//usr/include/wordexp.h ../headers/NN/multi-array.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/gthr-default.h ../headers//usr/include/string.h ../headers//usr/include/dirent.h ../headers//usr/include/assert.h ../headers/FSA-Alignment/viterbi_aligner.h ../headers/BRNN/rnn_util.h ../headers/Input/createKernelDataset.h ../headers/Input/createBRNNDataset.h ../headers/Output/utils.h

unassigned

../headers//usr/include/c++/4.9/bits/locale_facets.h ../headers/Input/../Common/Matrix.h

GlobalDescriptor.cpp

../headers//usr/include/x86_64-linux-gnu/bits/string3.h ../headers//usr/include/c++/4.9/ostream ../headers//usr/include/c++/4.9/bits/stl_tree.h ../headers//usr/include/c++/4.9/ext/new_allocator.h ../headers//usr/include/c++/4.9/bits/stl_map.h ../headers//usr/include/c++/4.9/bits/stl_pair.h ../headers//usr/include/c++/4.9/bits/basic_ios.h ../headers//usr/include/c++/4.9/istream ../headers//usr/include/c++/4.9/fstream ../headers//usr/include/c++/4.9/streambuf ../headers//usr/include/c++/4.9/bits/ios_base.h ../headers//usr/include/c++/4.9/bits/stl_vector.h ../headers//usr/include/c++/4.9/cmath ../headers/Input/Protein.h ../headers//usr/include/c++/4.9/bits/stl_bvector.h ../headers//usr/include/c++/4.9/bits/stl_construct.h ../headers//usr/include/c++/4.9/bits/basic_string.h ../headers//usr/include/c++/4.9/ext/atomicity.h ../headers//usr/include/c++/4.9/iostream ../headers//usr/lib/gcc/x86_64-linux-gnu/4.9/include/stddef.h ../headers//usr/include/stdio.h ../headers//usr/include/libio.h ../headers//usr/include/wchar.h ../headers//usr/include/c++/4.9/cwchar ../headers//usr/include/c++/4.9/bits/cpp_type_traits.h ../headers//usr/include/c++/4.9/bits/stl_iterator_base_types.h ../headers//usr/include/c++/4.9/bits/char_traits.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/c++config.h ../headers//usr/include/c++/4.9/clocale ../headers//usr/include/c++/4.9/new ../headers//usr/include/c++/4.9/bits/allocator.h ../headers//usr/include/c++/4.9/bits/basic_string.tcc ../headers//usr/include/c++/4.9/bits/stringfwd.h ../headers//usr/include/c++/4.9/cwctype ../headers//usr/include/c++/4.9/bits/ostream.tcc ../headers//usr/include/c++/4.9/bits/istream.tcc ../headers//usr/include/c++/4.9/cstdio ../headers//usr/include/c++/4.9/bits/postypes.h ../headers//usr/include/c++/4.9/bits/stl_iterator.h ../headers//usr/include/c++/4.9/cstdlib ../headers//usr/include/c++/4.9/bits/vector.tcc ../headers//usr/include/c++/4.9/iosfwd ../headers//usr/include/c++/4.9/bits/stl_function.h ../headers//usr/include/c++/4.9/bits/basic_ios.tcc ../headers//usr/include/c++/4.9/bits/move.h ../headers//usr/include/c++/4.9/bits/fstream.tcc ../headers//usr/include/c++/4.9/bits/ostream_insert.h ../headers//usr/include/x86_64-linux-gnu/bits/wchar2.h ../headers//usr/include/c++/4.9/bits/functexcept.h ../headers//usr/include/time.h ../headers//usr/include/c++/4.9/debug/debug.h ../headers//usr/include/c++/4.9/bits/predefined_ops.h ../headers//usr/include/c++/4.9/ext/numeric_traits.h ../headers//usr/include/c++/4.9/backward/hash_fun.h ../headers//usr/include/c++/4.9/backward/hashtable.h ../headers//usr/include/c++/4.9/ext/alloc_traits.h ../headers//usr/include/locale.h ../headers//usr/include/x86_64-linux-gnu/bits/types.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/atomic_word.h ../headers//usr/include/wctype.h ../headers//usr/include/_G_config.h ../headers//usr/include/x86_64-linux-gnu/bits/stdio2.h ../headers//usr/include/x86_64-linux-gnu/bits/stdio.h ../headers//usr/include/stdlib.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib-float.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib-bsearch.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib.h ../headers/Input/../Common/Exception.h ../headers/Input/../Common/SparseMatrix.h ../headers/Input/GlobalDescriptor.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/gthr-default.h

unassigned

../headers//usr/include/c++/4.9/bits/locale_facets.h ../headers//usr/include/c++/4.9/bits/basic_string.h ../headers//usr/include/c++/4.9/ext/atomicity.h

createBRNNDataset.cpp

../headers//usr/include/c++/4.9/bits/stl_construct.h ../headers//usr/include/c++/4.9/bits/vector.tcc ../headers//usr/include/c++/4.9/ext/new_allocator.h ../headers//usr/include/c++/4.9/bits/stl_algobase.h ../headers//usr/include/c++/4.9/bits/stl_vector.h ../headers//usr/include/c++/4.9/bits/stl_iterator.h ../headers//usr/include/c++/4.9/bits/stl_uninitialized.h ../headers//usr/include/c++/4.9/bits/stl_tree.h ../headers//usr/include/c++/4.9/bits/stl_map.h ../headers//usr/include/c++/4.9/bits/stl_pair.h ../headers//usr/include/c++/4.9/ostream ../headers//usr/include/c++/4.9/bits/basic_ios.h ../headers//usr/include/c++/4.9/istream ../headers//usr/include/c++/4.9/fstream ../headers//usr/include/c++/4.9/streambuf ../headers//usr/include/c++/4.9/bits/ios_base.h ../headers/Input/Protein.h ../headers//usr/include/c++/4.9/bits/stl_bvector.h ../headers//usr/include/c++/4.9/iostream ../headers//usr/include/libio.h ../headers//usr/include/stdio.h ../headers//usr/lib/gcc/x86_64-linux-gnu/4.9/include/stddef.h ../headers//usr/include/wchar.h ../headers//usr/include/c++/4.9/cwchar ../headers//usr/include/c++/4.9/bits/stl_iterator_base_types.h ../headers//usr/include/c++/4.9/bits/char_traits.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/c++config.h ../headers//usr/include/c++/4.9/clocale ../headers//usr/include/c++/4.9/new ../headers//usr/include/c++/4.9/bits/allocator.h ../headers//usr/include/c++/4.9/bits/basic_string.tcc ../headers//usr/include/c++/4.9/bits/stringfwd.h ../headers//usr/include/c++/4.9/cwctype ../headers//usr/include/c++/4.9/bits/ostream.tcc ../headers//usr/include/c++/4.9/bits/istream.tcc ../headers//usr/include/c++/4.9/cstdio ../headers//usr/include/c++/4.9/bits/postypes.h ../headers//usr/include/c++/4.9/cstdlib ../headers//usr/include/c++/4.9/iosfwd ../headers//usr/include/c++/4.9/bits/stl_function.h ../headers//usr/include/c++/4.9/bits/basic_ios.tcc ../headers//usr/include/c++/4.9/bits/move.h ../headers//usr/include/c++/4.9/bits/fstream.tcc ../headers//usr/include/c++/4.9/bits/ostream_insert.h ../headers//usr/include/c++/4.9/bits/functexcept.h ../headers//usr/include/x86_64-linux-gnu/bits/wchar2.h ../headers//usr/include/time.h ../headers//usr/include/c++/4.9/debug/debug.h ../headers//usr/include/c++/4.9/bits/predefined_ops.h ../headers//usr/include/c++/4.9/ext/numeric_traits.h ../headers//usr/include/c++/4.9/backward/hash_fun.h ../headers//usr/include/c++/4.9/backward/hashtable.h ../headers//usr/include/c++/4.9/ext/alloc_traits.h ../headers//usr/include/locale.h ../headers//usr/include/x86_64-linux-gnu/bits/types.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/atomic_word.h ../headers//usr/include/wctype.h ../headers//usr/include/_G_config.h ../headers//usr/include/x86_64-linux-gnu/bits/stdio2.h ../headers//usr/include/x86_64-linux-gnu/bits/stdio.h ../headers//usr/include/stdlib.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib-float.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib-bsearch.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib.h ../headers/Input/../Common/Exception.h ../headers/Input/../Common/SparseMatrix.h ../headers/Input/../Common/Matrix.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/gthr-default.h ../headers//usr/include/x86_64-linux-gnu/bits/mathcalls.h

unassigned

../headers//usr/include/c++/4.9/bits/locale_facets.h ../headers/Input/../Common/Matrix.h ../headers//usr/include/c++/4.9/bits/basic_string.h ../headers//usr/include/c++/4.9/ext/atomicity.h ../headers//usr/include/x86_64-linux-gnu/bits/string3.h ../headers//usr/include/c++/4.9/bits/stl_tree.h ../headers//usr/include/c++/4.9/ext/new_allocator.h ../headers//usr/include/c++/4.9/bits/vector.tcc ../headers//usr/include/c++/4.9/bits/stl_algobase.h ../headers//usr/include/c++/4.9/bits/stl_vector.h ../headers//usr/include/c++/4.9/bits/stl_iterator.h ../headers//usr/include/c++/4.9/bits/basic_ios.h ../headers//usr/include/c++/4.9/istream ../headers//usr/include/c++/4.9/streambuf ../headers//usr/include/c++/4.9/sstream

createKernelDataset.cpp

../headers//usr/include/c++/4.9/fstream ../headers//usr/include/c++/4.9/bits/stl_map.h ../headers//usr/include/c++/4.9/bits/stl_pair.h ../headers//usr/include/c++/4.9/ostream ../headers//usr/include/c++/4.9/bits/ios_base.h ../headers/Input/Protein.h ../headers//usr/include/c++/4.9/bits/stl_bvector.h ../headers//usr/include/c++/4.9/bits/stl_construct.h ../headers//usr/include/c++/4.9/bits/basic_string.tcc ../headers//usr/include/c++/4.9/iostream ../headers//usr/include/libio.h ../headers//usr/include/stdio.h ../headers//usr/lib/gcc/x86_64-linux-gnu/4.9/include/stddef.h ../headers//usr/include/wchar.h ../headers//usr/include/c++/4.9/cwchar ../headers//usr/include/c++/4.9/bits/cpp_type_traits.h ../headers//usr/include/c++/4.9/bits/stl_iterator_base_types.h ../headers//usr/include/c++/4.9/bits/char_traits.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/c++config.h ../headers//usr/include/c++/4.9/clocale ../headers//usr/include/c++/4.9/new ../headers//usr/include/c++/4.9/bits/allocator.h ../headers//usr/include/c++/4.9/bits/stringfwd.h ../headers//usr/include/c++/4.9/cwctype ../headers//usr/include/c++/4.9/bits/ostream.tcc ../headers//usr/include/c++/4.9/cstdio ../headers//usr/include/c++/4.9/bits/postypes.h ../headers//usr/include/c++/4.9/bits/stl_uninitialized.h ../headers//usr/include/c++/4.9/cstdlib ../headers//usr/include/c++/4.9/iosfwd ../headers//usr/include/c++/4.9/bits/stl_function.h ../headers//usr/include/c++/4.9/bits/basic_ios.tcc ../headers//usr/include/c++/4.9/bits/move.h ../headers//usr/include/c++/4.9/bits/sstream.tcc ../headers//usr/include/c++/4.9/bits/fstream.tcc ../headers//usr/include/c++/4.9/bits/ostream_insert.h ../headers//usr/include/c++/4.9/bits/functexcept.h ../headers//usr/include/x86_64-linux-gnu/bits/wchar2.h ../headers//usr/include/time.h ../headers//usr/include/c++/4.9/debug/debug.h ../headers//usr/include/c++/4.9/bits/predefined_ops.h ../headers//usr/include/c++/4.9/ext/numeric_traits.h ../headers//usr/include/c++/4.9/backward/hash_fun.h ../headers//usr/include/c++/4.9/backward/hashtable.h ../headers//usr/include/c++/4.9/ext/alloc_traits.h ../headers//usr/include/locale.h ../headers//usr/include/x86_64-linux-gnu/bits/types.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/atomic_word.h ../headers//usr/include/wctype.h ../headers//usr/include/_G_config.h ../headers//usr/include/x86_64-linux-gnu/bits/stdio2.h ../headers//usr/include/x86_64-linux-gnu/bits/stdio.h ../headers//usr/include/stdlib.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib-float.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib-bsearch.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib.h ../headers/Input/../Common/Exception.h ../headers/Input/../Common/SparseMatrix.h ../headers/Input/GlobalDescriptor.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/gthr-default.h ../headers/Input/utils.h

unassigned

../headers/Input/../Common/Matrix.h

makeWindow.cpp

../headers//usr/include/c++/4.9/iostream ../headers//usr/lib/gcc/x86_64-linux-gnu/4.9/include/stddef.h ../headers//usr/include/stdio.h ../headers//usr/include/wchar.h ../headers//usr/include/c++/4.9/cwchar ../headers//usr/include/c++/4.9/bits/cpp_type_traits.h ../headers//usr/include/c++/4.9/bits/stl_iterator_base_types.h ../headers//usr/include/c++/4.9/bits/char_traits.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/c++config.h ../headers//usr/include/c++/4.9/clocale ../headers//usr/include/c++/4.9/new ../headers//usr/include/c++/4.9/bits/allocator.h ../headers//usr/include/c++/4.9/bits/basic_string.h ../headers//usr/include/c++/4.9/bits/basic_string.tcc ../headers//usr/include/c++/4.9/bits/stringfwd.h ../headers//usr/include/c++/4.9/bits/ios_base.h ../headers//usr/include/c++/4.9/cwctype ../headers//usr/include/c++/4.9/cstdlib ../headers//usr/include/c++/4.9/bits/stl_vector.h ../headers//usr/include/c++/4.9/bits/vector.tcc ../headers//usr/include/c++/4.9/iosfwd ../headers//usr/include/x86_64-linux-gnu/bits/wchar2.h ../headers//usr/include/time.h ../headers//usr/include/c++/4.9/debug/debug.h ../headers//usr/include/c++/4.9/bits/predefined_ops.h ../headers//usr/include/c++/4.9/ext/new_allocator.h ../headers//usr/include/c++/4.9/ext/numeric_traits.h ../headers//usr/include/c++/4.9/backward/hash_fun.h ../headers//usr/include/c++/4.9/backward/hashtable.h ../headers//usr/include/c++/4.9/ext/alloc_traits.h ../headers//usr/include/locale.h ../headers//usr/include/x86_64-linux-gnu/bits/types.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/atomic_word.h ../headers//usr/include/wctype.h ../headers//usr/include/stdlib.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib-float.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib-bsearch.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib.h ../headers/Input/../Common/Exception.h ../headers/Input/../Common/SparseMatrix.h

unassigned

../headers//usr/include/c++/4.9/bits/locale_facets.h

makeSparseVector.cpp

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unassigned

../headers//usr/include/c++/4.9/bits/locale_facets.h

Protein.cpp

../headers//usr/include/c++/4.9/bits/basic_string.h ../headers//usr/include/c++/4.9/ext/atomicity.h ../headers//usr/include/c++/4.9/istream ../headers//usr/include/c++/4.9/bits/basic_ios.h ../headers//usr/include/string.h ../headers//usr/include/c++/4.9/bits/stl_vector.h ../headers//usr/include/c++/4.9/bits/vector.tcc ../headers//usr/include/c++/4.9/bits/stl_algobase.h ../headers//usr/include/c++/4.9/ext/new_allocator.h ../headers//usr/include/c++/4.9/sstream ../headers//usr/include/c++/4.9/streambuf ../headers//usr/include/c++/4.9/bits/stl_tree.h ../headers//usr/include/c++/4.9/bits/stl_iterator.h ../headers//usr/include/c++/4.9/bits/char_traits.h ../headers//usr/include/ctype.h ../headers//usr/include/c++/4.9/bits/stl_construct.h ../headers//usr/include/c++/4.9/bits/stl_bvector.h ../headers/Input/Protein.h ../headers//usr/include/c++/4.9/bits/stl_uninitialized.h ../headers//usr/include/stdlib.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib-float.h ../headers//usr/include/c++/4.9/ostream ../headers/Input/../Common/Util.h ../headers//usr/include/c++/4.9/bits/stl_map.h ../headers//usr/include/c++/4.9/bits/stl_pair.h ../headers//usr/include/c++/4.9/fstream ../headers//usr/include/c++/4.9/bits/ios_base.h ../headers/Input/../Common/../Common/Exception.h ../headers//usr/include/c++/4.9/iostream ../headers//usr/lib/gcc/x86_64-linux-gnu/4.9/include/stddef.h ../headers//usr/include/x86_64-linux-gnu/bits/types.h ../headers//usr/include/time.h ../headers//usr/include/x86_64-linux-gnu/bits/dirent.h ../headers//usr/include/stdio.h ../headers//usr/include/libio.h ../headers//usr/include/wchar.h ../headers//usr/include/c++/4.9/cwchar ../headers//usr/include/c++/4.9/bits/cpp_type_traits.h ../headers//usr/include/c++/4.9/bits/stl_iterator_base_types.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/c++config.h ../headers//usr/include/c++/4.9/clocale ../headers//usr/include/c++/4.9/bits/allocator.h ../headers//usr/include/c++/4.9/bits/basic_string.tcc ../headers//usr/include/c++/4.9/bits/stringfwd.h ../headers//usr/include/c++/4.9/cwctype ../headers//usr/include/c++/4.9/bits/ostream.tcc ../headers//usr/include/c++/4.9/bits/istream.tcc ../headers//usr/include/c++/4.9/cstdio ../headers//usr/include/c++/4.9/bits/postypes.h ../headers//usr/include/c++/4.9/iosfwd ../headers//usr/include/c++/4.9/bits/stl_function.h ../headers//usr/include/c++/4.9/bits/basic_ios.tcc ../headers//usr/include/c++/4.9/bits/move.h ../headers//usr/include/c++/4.9/bits/sstream.tcc ../headers//usr/include/c++/4.9/bits/fstream.tcc ../headers//usr/include/c++/4.9/bits/functexcept.h ../headers//usr/include/c++/4.9/bits/ostream_insert.h ../headers//usr/include/x86_64-linux-gnu/bits/wchar2.h ../headers//usr/include/c++/4.9/debug/debug.h ../headers//usr/include/c++/4.9/bits/predefined_ops.h ../headers//usr/include/c++/4.9/ext/numeric_traits.h ../headers//usr/include/c++/4.9/ext/alloc_traits.h ../headers//usr/include/c++/4.9/ext/type_traits.h ../headers//usr/include/locale.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/atomic_word.h ../headers//usr/include/wctype.h ../headers//usr/include/_G_config.h ../headers//usr/include/x86_64-linux-gnu/bits/stdio2.h ../headers//usr/include/x86_64-linux-gnu/bits/stdio.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/gthr-default.h ../headers//usr/include/c++/4.9/new ../headers//usr/include/fnmatch.h ../headers//usr/include/x86_64-linux-gnu/bits/mathcalls.h ../headers//usr/include/dirent.h

unassigned

../headers//usr/include/c++/4.9/bits/locale_facets.h ../headers//usr/include/c++/4.9/bits/basic_string.h ../headers//usr/include/c++/4.9/ext/atomicity.h ../headers//usr/include/c++/4.9/bits/stl_construct.h ../headers//usr/include/c++/4.9/bits/vector.tcc ../headers//usr/include/c++/4.9/ext/new_allocator.h ../headers//usr/include/c++/4.9/bits/stl_algobase.h ../headers//usr/include/c++/4.9/bits/stl_vector.h ../headers//usr/include/c++/4.9/bits/stl_iterator.h ../headers//usr/include/c++/4.9/bits/stl_uninitialized.h

buildXfolds.cpp

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unassigned

../headers//usr/include/c++/4.9/bits/locale_facets.h ../headers//usr/include/c++/4.9/bits/basic_string.h ../headers//usr/include/c++/4.9/ext/atomicity.h

SVMClassifier.cpp

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unassigned

../headers//usr/include/c++/4.9/bits/locale_facets.h

makeHTMLOutput.cpp

../headers//usr/include/c++/4.9/ostream ../headers//usr/include/c++/4.9/bits/stl_construct.h ../headers//usr/include/c++/4.9/bits/basic_string.h ../headers//usr/include/c++/4.9/ext/atomicity.h ../headers//usr/include/c++/4.9/bits/vector.tcc ../headers//usr/include/c++/4.9/bits/stl_vector.h ../headers//usr/include/c++/4.9/bits/stl_algobase.h ../headers//usr/include/c++/4.9/bits/stl_iterator.h ../headers//usr/include/c++/4.9/bits/stl_uninitialized.h ../headers//usr/include/c++/4.9/ext/new_allocator.h ../headers//usr/include/c++/4.9/bits/basic_ios.h ../headers//usr/include/c++/4.9/istream ../headers//usr/include/c++/4.9/fstream ../headers//usr/include/c++/4.9/bits/stl_bvector.h ../headers//usr/include/c++/4.9/bits/char_traits.h ../headers//usr/include/c++/4.9/streambuf ../headers//usr/include/c++/4.9/bits/ios_base.h ../headers//usr/include/c++/4.9/iostream ../headers//usr/include/libio.h ../headers//usr/include/stdio.h ../headers//usr/lib/gcc/x86_64-linux-gnu/4.9/include/stddef.h ../headers//usr/include/wchar.h ../headers//usr/include/c++/4.9/cwchar ../headers//usr/include/c++/4.9/bits/stl_iterator_base_types.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/c++config.h ../headers//usr/include/c++/4.9/clocale ../headers//usr/include/c++/4.9/bits/allocator.h ../headers//usr/include/c++/4.9/bits/basic_string.tcc ../headers//usr/include/c++/4.9/bits/stringfwd.h ../headers//usr/include/c++/4.9/cwctype ../headers//usr/include/c++/4.9/bits/ostream.tcc ../headers//usr/include/c++/4.9/cstdio ../headers//usr/include/c++/4.9/bits/postypes.h ../headers//usr/include/c++/4.9/bits/stl_pair.h ../headers//usr/include/c++/4.9/bits/basic_ios.tcc ../headers//usr/include/c++/4.9/bits/move.h ../headers//usr/include/c++/4.9/iosfwd ../headers//usr/include/c++/4.9/bits/fstream.tcc ../headers//usr/include/c++/4.9/bits/ostream_insert.h ../headers//usr/include/c++/4.9/bits/functexcept.h ../headers//usr/include/x86_64-linux-gnu/bits/wchar2.h ../headers//usr/include/time.h ../headers//usr/include/c++/4.9/debug/debug.h ../headers//usr/include/c++/4.9/bits/predefined_ops.h ../headers//usr/include/c++/4.9/ext/numeric_traits.h ../headers//usr/include/c++/4.9/ext/alloc_traits.h ../headers//usr/include/locale.h ../headers//usr/include/x86_64-linux-gnu/bits/types.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/atomic_word.h ../headers//usr/include/wctype.h ../headers//usr/include/_G_config.h ../headers//usr/include/x86_64-linux-gnu/bits/stdio2.h ../headers//usr/include/x86_64-linux-gnu/bits/stdio.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/gthr-default.h ../headers//usr/include/c++/4.9/new ../headers/Output/utils.h ../headers//usr/include/assert.h

unassigned

../headers//usr/include/c++/4.9/bits/locale_facets.h ../headers//usr/include/c++/4.9/bits/basic_string.h ../headers//usr/include/c++/4.9/ext/atomicity.h

utils.cpp

../headers//usr/include/c++/4.9/bits/stl_vector.h ../headers//usr/include/c++/4.9/ostream ../headers//usr/include/c++/4.9/bits/basic_ios.h ../headers//usr/include/c++/4.9/bits/vector.tcc ../headers//usr/include/c++/4.9/ext/new_allocator.h ../headers//usr/include/c++/4.9/bits/stl_algobase.h ../headers//usr/include/c++/4.9/bits/stl_iterator.h ../headers//usr/include/c++/4.9/bits/stl_uninitialized.h ../headers//usr/include/c++/4.9/bits/stl_construct.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib-float.h ../headers//usr/include/c++/4.9/istream ../headers//usr/include/c++/4.9/bits/stl_bvector.h ../headers//usr/include/c++/4.9/bits/ios_base.h ../headers//usr/include/c++/4.9/streambuf ../headers//usr/include/c++/4.9/sstream ../headers//usr/include/c++/4.9/bits/char_traits.h ../headers//usr/include/c++/4.9/iostream ../headers//usr/include/stdio.h ../headers//usr/lib/gcc/x86_64-linux-gnu/4.9/include/stddef.h ../headers//usr/include/wchar.h ../headers//usr/include/c++/4.9/cwchar ../headers//usr/include/c++/4.9/bits/stl_iterator_base_types.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/c++config.h ../headers//usr/include/c++/4.9/clocale ../headers//usr/include/c++/4.9/bits/allocator.h ../headers//usr/include/c++/4.9/bits/basic_string.tcc ../headers//usr/include/c++/4.9/bits/stringfwd.h ../headers//usr/include/c++/4.9/cwctype ../headers//usr/include/c++/4.9/bits/ostream.tcc ../headers//usr/include/c++/4.9/bits/istream.tcc ../headers//usr/include/c++/4.9/bits/stl_pair.h ../headers//usr/include/c++/4.9/bits/basic_ios.tcc ../headers//usr/include/c++/4.9/bits/move.h ../headers//usr/include/c++/4.9/iosfwd ../headers//usr/include/c++/4.9/bits/sstream.tcc ../headers//usr/include/c++/4.9/bits/ostream_insert.h ../headers//usr/include/c++/4.9/bits/postypes.h ../headers//usr/include/c++/4.9/bits/functexcept.h ../headers//usr/include/x86_64-linux-gnu/bits/wchar2.h ../headers//usr/include/time.h ../headers//usr/include/c++/4.9/debug/debug.h ../headers//usr/include/c++/4.9/bits/predefined_ops.h ../headers//usr/include/c++/4.9/ext/numeric_traits.h ../headers//usr/include/c++/4.9/ext/alloc_traits.h ../headers//usr/include/c++/4.9/ext/type_traits.h ../headers//usr/include/locale.h ../headers//usr/include/x86_64-linux-gnu/bits/types.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/atomic_word.h ../headers//usr/include/wctype.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/gthr-default.h ../headers//usr/include/c++/4.9/new ../headers//usr/include/stdlib.h

unassigned

../headers//usr/include/c++/4.9/bits/locale_facets.h

makeASCIIOutput.cpp

../headers//usr/include/c++/4.9/ostream ../headers//usr/include/c++/4.9/bits/stl_construct.h ../headers//usr/include/c++/4.9/bits/basic_string.h ../headers//usr/include/c++/4.9/ext/atomicity.h ../headers//usr/include/c++/4.9/bits/vector.tcc ../headers//usr/include/c++/4.9/bits/stl_vector.h ../headers//usr/include/c++/4.9/bits/stl_algobase.h ../headers//usr/include/c++/4.9/bits/stl_iterator.h ../headers//usr/include/c++/4.9/bits/stl_uninitialized.h ../headers//usr/include/c++/4.9/ext/new_allocator.h ../headers//usr/include/c++/4.9/bits/basic_ios.h ../headers//usr/include/c++/4.9/istream ../headers//usr/include/c++/4.9/fstream ../headers//usr/include/c++/4.9/bits/stl_bvector.h ../headers//usr/include/c++/4.9/bits/char_traits.h ../headers//usr/include/c++/4.9/streambuf ../headers//usr/include/c++/4.9/bits/ios_base.h ../headers//usr/include/c++/4.9/iostream ../headers//usr/include/libio.h ../headers//usr/include/stdio.h ../headers//usr/lib/gcc/x86_64-linux-gnu/4.9/include/stddef.h ../headers//usr/include/wchar.h ../headers//usr/include/c++/4.9/cwchar ../headers//usr/include/c++/4.9/bits/stl_iterator_base_types.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/c++config.h ../headers//usr/include/c++/4.9/clocale ../headers//usr/include/c++/4.9/bits/allocator.h ../headers//usr/include/c++/4.9/bits/basic_string.tcc ../headers//usr/include/c++/4.9/bits/stringfwd.h ../headers//usr/include/c++/4.9/cwctype ../headers//usr/include/c++/4.9/bits/ostream.tcc ../headers//usr/include/c++/4.9/cstdio ../headers//usr/include/c++/4.9/bits/postypes.h ../headers//usr/include/c++/4.9/bits/stl_pair.h ../headers//usr/include/c++/4.9/bits/basic_ios.tcc ../headers//usr/include/c++/4.9/bits/move.h ../headers//usr/include/c++/4.9/iosfwd ../headers//usr/include/c++/4.9/bits/fstream.tcc ../headers//usr/include/c++/4.9/bits/ostream_insert.h ../headers//usr/include/c++/4.9/bits/functexcept.h ../headers//usr/include/x86_64-linux-gnu/bits/wchar2.h ../headers//usr/include/time.h ../headers//usr/include/c++/4.9/debug/debug.h ../headers//usr/include/c++/4.9/bits/predefined_ops.h ../headers//usr/include/c++/4.9/ext/numeric_traits.h ../headers//usr/include/c++/4.9/ext/alloc_traits.h ../headers//usr/include/locale.h ../headers//usr/include/x86_64-linux-gnu/bits/types.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/atomic_word.h ../headers//usr/include/wctype.h ../headers//usr/include/_G_config.h ../headers//usr/include/x86_64-linux-gnu/bits/stdio2.h ../headers//usr/include/x86_64-linux-gnu/bits/stdio.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/gthr-default.h ../headers//usr/include/c++/4.9/new ../headers/Output/utils.h ../headers//usr/include/assert.h

unassigned

../headers//usr/include/c++/4.9/bits/locale_facets.h ../headers//usr/include/c++/4.9/bits/basic_string.h ../headers//usr/include/c++/4.9/ext/atomicity.h

fsa.cpp

../headers//usr/include/c++/4.9/bits/stl_vector.h ../headers//usr/include/c++/4.9/bits/stl_construct.h ../headers//usr/include/c++/4.9/ext/new_allocator.h ../headers//usr/include/c++/4.9/ostream ../headers//usr/include/c++/4.9/bits/basic_ios.h ../headers/FSA-Alignment/fsa.h ../headers//usr/include/c++/4.9/sstream ../headers//usr/include/c++/4.9/streambuf ../headers//usr/include/c++/4.9/bits/vector.tcc ../headers//usr/include/c++/4.9/bits/stl_algobase.h ../headers//usr/include/c++/4.9/bits/stl_iterator.h ../headers//usr/include/c++/4.9/bits/stl_uninitialized.h ../headers//usr/include/c++/4.9/istream ../headers//usr/include/c++/4.9/bits/ios_base.h ../headers//usr/include/c++/4.9/iostream ../headers//usr/include/c++/4.9/bits/stl_iterator_base_types.h ../headers//usr/include/c++/4.9/new ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/c++config.h ../headers//usr/include/c++/4.9/bits/allocator.h ../headers//usr/include/c++/4.9/cwchar ../headers//usr/include/c++/4.9/bits/char_traits.h ../headers//usr/include/c++/4.9/clocale ../headers//usr/include/c++/4.9/bits/basic_string.tcc ../headers//usr/include/c++/4.9/iosfwd ../headers//usr/include/c++/4.9/bits/istream.tcc ../headers//usr/include/c++/4.9/bits/ostream.tcc ../headers//usr/include/c++/4.9/bits/stringfwd.h ../headers//usr/include/c++/4.9/cwctype ../headers//usr/include/c++/4.9/cstdlib ../headers//usr/include/c++/4.9/bits/basic_ios.tcc ../headers//usr/include/c++/4.9/bits/move.h ../headers//usr/include/c++/4.9/bits/sstream.tcc ../headers//usr/include/c++/4.9/bits/ostream_insert.h ../headers//usr/include/c++/4.9/bits/postypes.h ../headers//usr/include/c++/4.9/bits/functexcept.h ../headers//usr/include/c++/4.9/debug/debug.h ../headers//usr/include/c++/4.9/bits/predefined_ops.h ../headers//usr/include/c++/4.9/ext/numeric_traits.h ../headers//usr/include/c++/4.9/ext/alloc_traits.h ../headers//usr/include/c++/4.9/backward/hash_fun.h ../headers//usr/include/c++/4.9/backward/hashtable.h ../headers//usr/include/c++/4.9/bits/cpp_type_traits.h ../headers//usr/include/stdio.h ../headers//usr/lib/gcc/x86_64-linux-gnu/4.9/include/stddef.h ../headers//usr/include/wchar.h ../headers//usr/include/x86_64-linux-gnu/bits/wchar2.h ../headers//usr/include/time.h ../headers//usr/include/locale.h ../headers//usr/include/x86_64-linux-gnu/bits/types.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/atomic_word.h ../headers/FSA-Alignment/../Common/CommonMethods.h ../headers//usr/include/wctype.h ../headers//usr/include/stdlib.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib-float.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib-bsearch.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib.h ../headers/FSA-Alignment/../Common/Exception.h ../headers/FSA-Alignment/../Common/SparseMatrix.h ../headers/FSA-Alignment/../Common/Matrix.h ../headers/FSA-Alignment/../Common/Accuracy.h ../headers/FSA-Alignment/../Common/ConfusionMatrix.h ../headers/FSA-Alignment/../Common/Statistics.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/gthr-default.h

unassigned

../headers//usr/include/c++/4.9/bits/locale_facets.h ../headers/FSA-Alignment/../Common/Matrix.h ../headers//usr/include/c++/4.9/bits/basic_string.h ../headers//usr/include/c++/4.9/ext/atomicity.h ../headers//usr/include/c++/4.9/bits/vector.tcc ../headers//usr/include/c++/4.9/bits/stl_vector.h ../headers//usr/include/c++/4.9/bits/stl_algobase.h ../headers//usr/include/c++/4.9/ext/new_allocator.h ../headers//usr/include/c++/4.9/bits/stl_iterator.h ../headers//usr/include/c++/4.9/bits/basic_ios.h ../headers//usr/include/c++/4.9/istream ../headers//usr/include/c++/4.9/streambuf ../headers//usr/include/c++/4.9/sstream ../headers//usr/include/x86_64-linux-gnu/bits/string3.h

viterbi_aligner.cpp

../headers//usr/include/c++/4.9/fstream ../headers/FSA-Alignment/fsa.h ../headers//usr/include/c++/4.9/bits/stl_uninitialized.h ../headers//usr/include/c++/4.9/bits/stl_construct.h ../headers//usr/include/c++/4.9/ostream ../headers//usr/include/c++/4.9/bits/ios_base.h ../headers//usr/include/c++/4.9/iostream ../headers//usr/include/libio.h ../headers//usr/include/stdio.h ../headers//usr/lib/gcc/x86_64-linux-gnu/4.9/include/stddef.h ../headers//usr/include/wchar.h ../headers//usr/include/c++/4.9/cwchar ../headers//usr/include/c++/4.9/bits/cpp_type_traits.h ../headers//usr/include/c++/4.9/bits/stl_iterator_base_types.h ../headers//usr/include/c++/4.9/bits/char_traits.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/c++config.h ../headers//usr/include/c++/4.9/clocale ../headers//usr/include/c++/4.9/new ../headers//usr/include/c++/4.9/bits/allocator.h ../headers//usr/include/c++/4.9/bits/basic_string.tcc ../headers//usr/include/c++/4.9/bits/stringfwd.h ../headers//usr/include/c++/4.9/cwctype ../headers//usr/include/c++/4.9/bits/ostream.tcc ../headers//usr/include/c++/4.9/bits/istream.tcc ../headers//usr/include/c++/4.9/cstdio ../headers//usr/include/c++/4.9/bits/postypes.h ../headers//usr/include/c++/4.9/cstdlib ../headers//usr/include/c++/4.9/iosfwd ../headers//usr/include/c++/4.9/bits/basic_ios.tcc ../headers//usr/include/c++/4.9/bits/move.h ../headers//usr/include/c++/4.9/bits/sstream.tcc ../headers//usr/include/c++/4.9/bits/fstream.tcc ../headers//usr/include/c++/4.9/bits/functexcept.h ../headers//usr/include/c++/4.9/bits/ostream_insert.h ../headers//usr/include/x86_64-linux-gnu/bits/wchar2.h ../headers//usr/include/time.h ../headers//usr/include/c++/4.9/debug/debug.h ../headers//usr/include/c++/4.9/bits/predefined_ops.h ../headers//usr/include/c++/4.9/ext/numeric_traits.h ../headers//usr/include/c++/4.9/backward/hash_fun.h ../headers//usr/include/c++/4.9/backward/hashtable.h ../headers//usr/include/c++/4.9/ext/alloc_traits.h ../headers//usr/include/locale.h ../headers//usr/include/x86_64-linux-gnu/bits/types.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/atomic_word.h ../headers//usr/include/wctype.h ../headers//usr/include/_G_config.h ../headers//usr/include/x86_64-linux-gnu/bits/stdio2.h ../headers//usr/include/x86_64-linux-gnu/bits/stdio.h ../headers/FSA-Alignment/../Common/CommonMethods.h ../headers//usr/include/stdlib.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib-float.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib-bsearch.h ../headers//usr/include/x86_64-linux-gnu/bits/stdlib.h ../headers/FSA-Alignment/../Common/Exception.h ../headers/FSA-Alignment/../Common/SparseMatrix.h ../headers/FSA-Alignment/../Common/Accuracy.h ../headers/FSA-Alignment/../Common/ConfusionMatrix.h ../headers/FSA-Alignment/../Common/Statistics.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/gthr-default.h ../headers//usr/include/x86_64-linux-gnu/bits/mathcalls.h

unassigned

../headers//usr/include/c++/4.9/bits/locale_facets.h ../headers//usr/include/c++/4.9/bits/basic_string.h ../headers//usr/include/c++/4.9/ext/atomicity.h

multi-array.cpp

../headers//usr/include/x86_64-linux-gnu/bits/string3.h ../headers//usr/include/c++/4.9/istream ../headers//usr/include/c++/4.9/bits/basic_ios.h ../headers//usr/include/c++/4.9/ostream ../headers//usr/include/c++/4.9/bits/vector.tcc ../headers//usr/include/c++/4.9/ext/new_allocator.h ../headers//usr/include/c++/4.9/bits/stl_algobase.h ../headers//usr/include/c++/4.9/bits/stl_vector.h ../headers//usr/include/c++/4.9/bits/stl_iterator.h ../headers//usr/include/c++/4.9/streambuf ../headers//usr/include/c++/4.9/sstream ../headers//usr/include/c++/4.9/iostream ../headers//usr/lib/gcc/x86_64-linux-gnu/4.9/include/stddef.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/c++config.h ../headers//usr/include/c++/4.9/bits/allocator.h ../headers//usr/include/c++/4.9/bits/stl_construct.h ../headers//usr/include/c++/4.9/bits/stl_uninitialized.h ../headers//usr/include/c++/4.9/cwchar ../headers//usr/include/c++/4.9/bits/char_traits.h ../headers//usr/include/c++/4.9/clocale ../headers//usr/include/c++/4.9/bits/basic_string.tcc ../headers//usr/include/c++/4.9/bits/stringfwd.h ../headers//usr/include/c++/4.9/bits/ios_base.h ../headers//usr/include/c++/4.9/cwctype ../headers//usr/include/c++/4.9/bits/ostream.tcc ../headers//usr/include/c++/4.9/bits/istream.tcc ../headers//usr/include/c++/4.9/bits/stl_iterator_base_types.h ../headers//usr/include/c++/4.9/bits/basic_ios.tcc ../headers//usr/include/c++/4.9/iosfwd ../headers//usr/include/c++/4.9/bits/sstream.tcc ../headers//usr/include/c++/4.9/bits/ostream_insert.h ../headers//usr/include/c++/4.9/bits/postypes.h ../headers//usr/include/c++/4.9/debug/debug.h ../headers//usr/include/c++/4.9/bits/predefined_ops.h ../headers//usr/include/c++/4.9/ext/numeric_traits.h ../headers//usr/include/c++/4.9/ext/alloc_traits.h ../headers//usr/include/c++/4.9/bits/cpp_type_traits.h ../headers//usr/include/stdio.h ../headers//usr/include/wchar.h ../headers//usr/include/x86_64-linux-gnu/bits/wchar2.h ../headers//usr/include/c++/4.9/bits/functexcept.h ../headers//usr/include/time.h ../headers//usr/include/locale.h ../headers//usr/include/x86_64-linux-gnu/bits/types.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/atomic_word.h ../headers//usr/include/wctype.h ../headers/NN/../Common/Exception.h ../headers/NN/../Common/myreal.h ../headers/NN/multi-array.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/gthr-default.h ../headers//usr/include/c++/4.9/new

unassigned

../headers//usr/include/c++/4.9/bits/locale_facets.h ../headers//usr/include/c++/4.9/bits/basic_string.h ../headers//usr/include/c++/4.9/ext/atomicity.h

array.cpp

../headers//usr/include/x86_64-linux-gnu/bits/string3.h ../headers//usr/include/c++/4.9/istream ../headers//usr/include/c++/4.9/bits/basic_ios.h ../headers//usr/include/c++/4.9/ostream ../headers//usr/include/c++/4.9/bits/stl_vector.h ../headers//usr/include/c++/4.9/sstream ../headers//usr/include/c++/4.9/streambuf ../headers//usr/include/c++/4.9/bits/vector.tcc ../headers//usr/include/c++/4.9/ext/new_allocator.h ../headers//usr/include/c++/4.9/bits/stl_algobase.h ../headers//usr/include/c++/4.9/bits/stl_iterator.h ../headers//usr/include/c++/4.9/bits/stl_uninitialized.h ../headers//usr/include/c++/4.9/bits/stl_construct.h ../headers/NN/array.h ../headers//usr/include/c++/4.9/iostream ../headers//usr/lib/gcc/x86_64-linux-gnu/4.9/include/stddef.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/c++config.h ../headers//usr/include/c++/4.9/bits/allocator.h ../headers//usr/include/c++/4.9/cwchar ../headers//usr/include/c++/4.9/bits/char_traits.h ../headers//usr/include/c++/4.9/clocale ../headers//usr/include/c++/4.9/bits/basic_string.tcc ../headers//usr/include/c++/4.9/bits/stringfwd.h ../headers//usr/include/c++/4.9/bits/ios_base.h ../headers//usr/include/c++/4.9/cwctype ../headers//usr/include/c++/4.9/bits/ostream.tcc ../headers//usr/include/c++/4.9/bits/istream.tcc ../headers//usr/include/c++/4.9/iosfwd ../headers//usr/include/c++/4.9/bits/stl_iterator_base_types.h ../headers//usr/include/c++/4.9/bits/basic_ios.tcc ../headers//usr/include/c++/4.9/bits/move.h ../headers//usr/include/c++/4.9/bits/sstream.tcc ../headers//usr/include/c++/4.9/bits/ostream_insert.h ../headers//usr/include/c++/4.9/bits/postypes.h ../headers//usr/include/c++/4.9/debug/debug.h ../headers//usr/include/c++/4.9/bits/predefined_ops.h ../headers//usr/include/c++/4.9/ext/numeric_traits.h ../headers//usr/include/c++/4.9/ext/alloc_traits.h ../headers//usr/include/c++/4.9/bits/cpp_type_traits.h ../headers//usr/include/stdio.h ../headers//usr/include/wchar.h ../headers//usr/include/x86_64-linux-gnu/bits/wchar2.h ../headers//usr/include/c++/4.9/bits/functexcept.h ../headers//usr/include/time.h ../headers//usr/include/locale.h ../headers//usr/include/x86_64-linux-gnu/bits/types.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/atomic_word.h ../headers//usr/include/wctype.h ../headers/NN/../Common/myreal.h ../headers/NN/multi-array.h ../headers/NN/../Common/Exception.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/gthr-default.h ../headers//usr/include/c++/4.9/new

unassigned

../headers//usr/include/c++/4.9/bits/locale_facets.h ../headers//usr/include/c++/4.9/bits/basic_string.h ../headers//usr/include/c++/4.9/ext/atomicity.h

brnn-model.cpp

../headers/NN/array.h ../headers//usr/include/c++/4.9/bits/stl_vector.h ../headers//usr/include/c++/4.9/ext/new_allocator.h ../headers//usr/include/c++/4.9/bits/char_traits.h ../headers//usr/include/c++/4.9/istream ../headers//usr/include/c++/4.9/ostream ../headers//usr/include/c++/4.9/bits/basic_ios.h ../headers//usr/include/c++/4.9/bits/vector.tcc ../headers//usr/include/c++/4.9/bits/stl_algobase.h ../headers//usr/include/c++/4.9/bits/stl_iterator.h ../headers/NN/brnn-model.h ../headers//usr/include/c++/4.9/bits/stl_tree.h ../headers//usr/include/c++/4.9/iostream ../headers//usr/lib/gcc/x86_64-linux-gnu/4.9/include/stddef.h ../headers//usr/include/x86_64-linux-gnu/bits/types.h ../headers//usr/include/x86_64-linux-gnu/sys/types.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/c++config.h ../headers//usr/include/c++/4.9/bits/allocator.h ../headers//usr/include/c++/4.9/bits/stl_pair.h ../headers//usr/include/c++/4.9/cwchar ../headers//usr/include/c++/4.9/clocale ../headers//usr/include/c++/4.9/bits/basic_string.tcc ../headers//usr/include/c++/4.9/bits/stringfwd.h ../headers//usr/include/c++/4.9/bits/ios_base.h ../headers//usr/include/c++/4.9/cwctype ../headers//usr/include/c++/4.9/bits/ostream.tcc ../headers//usr/include/c++/4.9/bits/istream.tcc ../headers//usr/include/c++/4.9/bits/stl_construct.h ../headers//usr/include/c++/4.9/bits/stl_uninitialized.h ../headers//usr/include/c++/4.9/iosfwd ../headers//usr/include/c++/4.9/bits/stl_function.h ../headers//usr/include/c++/4.9/bits/stl_multimap.h ../headers//usr/include/c++/4.9/bits/stl_iterator_base_types.h ../headers//usr/include/c++/4.9/bits/move.h ../headers//usr/include/c++/4.9/bits/ostream_insert.h ../headers//usr/include/c++/4.9/bits/postypes.h ../headers//usr/include/c++/4.9/debug/debug.h ../headers//usr/include/c++/4.9/bits/predefined_ops.h ../headers//usr/include/c++/4.9/ext/numeric_traits.h ../headers//usr/include/c++/4.9/ext/alloc_traits.h ../headers//usr/include/c++/4.9/ext/type_traits.h ../headers//usr/include/c++/4.9/bits/cpp_type_traits.h ../headers//usr/include/stdio.h ../headers//usr/include/wchar.h ../headers//usr/include/x86_64-linux-gnu/bits/wchar2.h ../headers//usr/include/c++/4.9/bits/functexcept.h ../headers//usr/include/time.h ../headers//usr/include/locale.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/atomic_word.h ../headers//usr/include/wctype.h ../headers/NN/../Common/Exception.h ../headers/NN/../Common/myreal.h ../headers/NN/multi-array.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/gthr-default.h ../headers//usr/include/c++/4.9/new ../headers//usr/include/stdlib.h ../headers//usr/include/x86_64-linux-gnu/bits/mathcalls.h

unassigned

../headers//usr/include/c++/4.9/bits/locale_facets.h ../headers//usr/include/c++/4.9/bits/basic_string.h ../headers//usr/include/c++/4.9/ext/atomicity.h ../headers/NN/array.h ../headers//usr/include/c++/4.9/bits/stl_vector.h ../headers//usr/include/c++/4.9/ext/new_allocator.h

brnn-test.cpp

../headers//usr/include/c++/4.9/ostream ../headers//usr/include/stdlib.h ../headers//usr/include/c++/4.9/bits/char_traits.h ../headers//usr/include/c++/4.9/bits/basic_ios.h ../headers//usr/include/c++/4.9/istream ../headers//usr/include/c++/4.9/fstream ../headers//usr/include/c++/4.9/streambuf ../headers//usr/include/c++/4.9/bits/ios_base.h ../headers//usr/include/c++/4.9/bits/vector.tcc ../headers//usr/include/c++/4.9/bits/stl_algobase.h ../headers//usr/include/c++/4.9/bits/stl_iterator.h ../headers/NN/brnn-model.h ../headers/NN/../Common/ConfusionMatrix.h ../headers/NN/../Common/Accuracy.h ../headers//usr/include/c++/4.9/iostream ../headers//usr/lib/gcc/x86_64-linux-gnu/4.9/include/stddef.h ../headers//usr/include/x86_64-linux-gnu/bits/types.h ../headers//usr/include/getopt.h ../headers//usr/include/stdio.h ../headers//usr/include/libio.h ../headers//usr/include/wchar.h ../headers//usr/include/c++/4.9/cwchar ../headers//usr/include/c++/4.9/bits/cpp_type_traits.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/c++config.h ../headers//usr/include/c++/4.9/clocale ../headers//usr/include/c++/4.9/bits/allocator.h ../headers//usr/include/c++/4.9/bits/basic_string.tcc ../headers//usr/include/c++/4.9/bits/stringfwd.h ../headers//usr/include/c++/4.9/cwctype ../headers//usr/include/c++/4.9/bits/ostream.tcc ../headers//usr/include/c++/4.9/cstdio ../headers//usr/include/c++/4.9/bits/postypes.h ../headers//usr/include/c++/4.9/iosfwd ../headers//usr/include/c++/4.9/bits/stl_construct.h ../headers//usr/include/c++/4.9/bits/stl_uninitialized.h ../headers//usr/include/c++/4.9/bits/stl_iterator_base_types.h ../headers//usr/include/c++/4.9/bits/basic_ios.tcc ../headers//usr/include/c++/4.9/bits/fstream.tcc ../headers//usr/include/c++/4.9/bits/ostream_insert.h ../headers//usr/include/x86_64-linux-gnu/bits/wchar2.h ../headers//usr/include/c++/4.9/bits/functexcept.h ../headers//usr/include/time.h ../headers//usr/include/c++/4.9/debug/debug.h ../headers//usr/include/c++/4.9/bits/predefined_ops.h ../headers//usr/include/c++/4.9/ext/numeric_traits.h ../headers//usr/include/c++/4.9/ext/alloc_traits.h ../headers//usr/include/locale.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/atomic_word.h ../headers//usr/include/wctype.h ../headers//usr/include/_G_config.h ../headers//usr/include/x86_64-linux-gnu/bits/stdio2.h ../headers//usr/include/x86_64-linux-gnu/bits/stdio.h ../headers/NN/../Common/Exception.h ../headers/NN/../Common/myreal.h ../headers/NN/multi-array.h ../headers/NN/brnn-test.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/gthr-default.h ../headers//usr/include/c++/4.9/new

unassigned

../headers//usr/include/c++/4.9/bits/basic_string.h ../headers//usr/include/c++/4.9/ext/atomicity.h

Node.cpp

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unassigned

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StructureSearch.cpp

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unassigned

../headers//usr/include/c++/4.9/bits/locale_facets.h ../headers//usr/include/c++/4.9/bits/basic_string.h ../headers//usr/include/c++/4.9/ext/atomicity.h ../headers//usr/include/boost/smart_ptr/scoped_ptr.hpp ../headers//usr/include/boost/graph/detail/adjacency_list.hpp ../headers//usr/include/c++/4.9/bits/stl_vector.h ../headers//usr/include/c++/4.9/bits/stl_construct.h ../headers//usr/include/c++/4.9/ext/new_allocator.h ../headers//usr/include/c++/4.9/bits/list.tcc ../headers//usr/include/c++/4.9/bits/stl_pair.h ../headers//usr/include/boost/checked_delete.hpp ../headers//usr/include/c++/4.9/sstream ../headers//usr/include/c++/4.9/streambuf ../headers//usr/include/c++/4.9/bits/char_traits.h ../headers//usr/include/c++/4.9/bits/vector.tcc ../headers//usr/include/c++/4.9/bits/stl_algobase.h

DataSet.cpp

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unassigned

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DPAG.cpp

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unassigned

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Options.cpp

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unassigned

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protein_util.cpp

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unassigned

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blast_util.cpp

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unassigned

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rnn_util.cpp

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../headers//usr/include/c++/4.9/cstring ../headers//usr/include/c++/4.9/backward/auto_ptr.h ../headers//usr/include/c++/4.9/cstdio ../headers//usr/include/c++/4.9/iosfwd ../headers//usr/include/c++/4.9/ctime ../headers//usr/include/c++/4.9/bits/stream_iterator.h ../headers//usr/include/c++/4.9/bits/basic_ios.tcc ../headers//usr/include/c++/4.9/bits/move.h ../headers//usr/include/c++/4.9/bits/fstream.tcc ../headers//usr/include/c++/4.9/bits/functexcept.h ../headers//usr/include/c++/4.9/bits/ostream_insert.h ../headers//usr/include/c++/4.9/bits/predefined_ops.h ../headers//usr/include/c++/4.9/ext/numeric_traits.h ../headers//usr/include/c++/4.9/ext/alloc_traits.h ../headers//usr/include/c++/4.9/ext/slist ../headers//usr/include/c++/4.9/ext/type_traits.h ../headers//usr/include/c++/4.9/debug/debug.h ../headers//usr/include/stdio.h ../headers//usr/include/libio.h ../headers//usr/lib/gcc/x86_64-linux-gnu/4.9/include/stddef.h ../headers//usr/include/wchar.h 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../headers//usr/include/_G_config.h ../headers//usr/include/x86_64-linux-gnu/bits/stdio2.h ../headers//usr/include/x86_64-linux-gnu/bits/stdio.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/gthr-default.h ../headers//usr/include/assert.h ../headers//usr/include/x86_64-linux-gnu/bits/mathcalls.h

unassigned

../headers//usr/include/c++/4.9/bits/locale_facets.h ../headers//usr/include/c++/4.9/bits/basic_string.h ../headers//usr/include/c++/4.9/ext/atomicity.h

Util.cpp

../headers//usr/include/x86_64-linux-gnu/bits/stdio2.h ../headers//usr/include/c++/4.9/bits/stl_iterator.h ../headers//usr/include/c++/4.9/bits/vector.tcc ../headers//usr/include/c++/4.9/bits/stl_algobase.h ../headers//usr/include/c++/4.9/bits/stl_vector.h ../headers//usr/include/c++/4.9/bits/char_traits.h ../headers//usr/include/c++/4.9/bits/basic_ios.h ../headers//usr/include/c++/4.9/istream ../headers//usr/include/c++/4.9/ostream ../headers//usr/include/c++/4.9/streambuf ../headers//usr/include/c++/4.9/sstream ../headers//usr/include/x86_64-linux-gnu/bits/stdio.h ../headers//usr/include/c++/4.9/bits/ios_base.h ../headers//usr/include/c++/4.9/bits/basic_string.tcc ../headers//usr/include/c++/4.9/bits/stl_iterator_base_funcs.h ../headers//usr/include/c++/4.9/ext/new_allocator.h ../headers//usr/include/c++/4.9/bits/stl_construct.h ../headers//usr/include/c++/4.9/bits/stl_uninitialized.h ../headers//usr/include/x86_64-linux-gnu/bits/string3.h ../headers//usr/include/c++/4.9/iostream ../headers//usr/lib/gcc/x86_64-linux-gnu/4.9/include/stddef.h ../headers//usr/include/x86_64-linux-gnu/bits/types.h ../headers//usr/include/time.h ../headers//usr/include/x86_64-linux-gnu/sys/types.h ../headers//usr/lib/gcc/x86_64-linux-gnu/4.9/include/stdarg.h ../headers//usr/include/stdio.h ../headers//usr/include/libio.h ../headers//usr/include/wchar.h ../headers//usr/include/_G_config.h ../headers//usr/include/c++/4.9/bits/cpp_type_traits.h ../headers//usr/include/c++/4.9/bits/stl_iterator_base_types.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/c++config.h ../headers//usr/include/c++/4.9/bits/allocator.h ../headers//usr/include/c++/4.9/cwchar ../headers//usr/include/c++/4.9/clocale ../headers//usr/include/c++/4.9/bits/stringfwd.h ../headers//usr/include/c++/4.9/cwctype ../headers//usr/include/c++/4.9/bits/ostream.tcc ../headers//usr/include/c++/4.9/cstdio ../headers//usr/include/c++/4.9/bits/postypes.h ../headers//usr/include/c++/4.9/bits/basic_ios.tcc ../headers//usr/include/c++/4.9/bits/move.h ../headers//usr/include/c++/4.9/iosfwd ../headers//usr/include/c++/4.9/bits/functexcept.h ../headers//usr/include/c++/4.9/bits/ostream_insert.h ../headers//usr/include/c++/4.9/debug/debug.h ../headers//usr/include/c++/4.9/bits/predefined_ops.h ../headers//usr/include/c++/4.9/ext/numeric_traits.h ../headers//usr/include/c++/4.9/ext/alloc_traits.h ../headers//usr/include/c++/4.9/ext/type_traits.h ../headers//usr/include/x86_64-linux-gnu/bits/wchar2.h ../headers//usr/include/locale.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/atomic_word.h ../headers//usr/include/wctype.h ../headers/../Common/Exception.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/gthr-default.h ../headers//usr/include/c++/4.9/new ./Util.h ../headers//usr/include/ctype.h ../headers//usr/include/stdlib.h ../headers//usr/include/string.h

unassigned

../headers//usr/include/c++/4.9/bits/locale_facets.h

ConfusionMatrix.cpp

./ConfusionMatrix.h ../headers//usr/include/c++/4.9/ostream ../headers//usr/include/x86_64-linux-gnu/bits/stdio2.h ../headers//usr/include/c++/4.9/bits/char_traits.h ../headers//usr/include/c++/4.9/bits/basic_ios.h ../headers//usr/include/c++/4.9/iostream ../headers//usr/lib/gcc/x86_64-linux-gnu/4.9/include/stddef.h ../headers//usr/include/x86_64-linux-gnu/bits/types.h ../headers//usr/include/libio.h ../headers//usr/include/stdio.h ../headers//usr/include/wchar.h ../headers//usr/include/c++/4.9/cwchar ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/c++config.h ../headers//usr/include/c++/4.9/clocale ../headers//usr/include/c++/4.9/bits/ios_base.h ../headers//usr/include/c++/4.9/cwctype ../headers//usr/include/c++/4.9/bits/ostream.tcc ../headers//usr/include/c++/4.9/iosfwd ../headers//usr/include/c++/4.9/bits/ostream_insert.h ../headers//usr/include/c++/4.9/bits/postypes.h ../headers//usr/include/c++/4.9/debug/debug.h ../headers//usr/include/c++/4.9/bits/predefined_ops.h ../headers//usr/include/c++/4.9/ext/new_allocator.h ../headers//usr/include/c++/4.9/ext/numeric_traits.h ../headers//usr/include/c++/4.9/bits/cpp_type_traits.h ../headers//usr/include/x86_64-linux-gnu/bits/wchar2.h ../headers//usr/include/c++/4.9/bits/functexcept.h ../headers//usr/include/time.h ../headers//usr/include/locale.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/atomic_word.h ../headers//usr/include/wctype.h ./Exception.h ../headers//usr/include/c++/4.9/new

Exception.cpp

../headers//usr/include/x86_64-linux-gnu/bits/stdio2.h ../headers//usr/include/c++/4.9/bits/basic_string.h ../headers//usr/include/c++/4.9/bits/char_traits.h ../headers//usr/include/c++/4.9/ext/atomicity.h ../headers//usr/include/c++/4.9/iostream ../headers//usr/lib/gcc/x86_64-linux-gnu/4.9/include/stdarg.h ../headers//usr/lib/gcc/x86_64-linux-gnu/4.9/include/stddef.h ../headers//usr/include/x86_64-linux-gnu/bits/types.h ../headers//usr/include/libio.h ../headers//usr/include/stdio.h ../headers//usr/include/wchar.h ../headers//usr/include/c++/4.9/cwchar ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/c++config.h ../headers//usr/include/c++/4.9/bits/allocator.h ../headers//usr/include/c++/4.9/clocale ../headers//usr/include/c++/4.9/bits/basic_string.tcc ../headers//usr/include/c++/4.9/bits/stringfwd.h ../headers//usr/include/c++/4.9/bits/ios_base.h ../headers//usr/include/c++/4.9/cwctype ../headers//usr/include/c++/4.9/iosfwd ../headers//usr/include/c++/4.9/debug/debug.h ../headers//usr/include/c++/4.9/bits/predefined_ops.h ../headers//usr/include/c++/4.9/ext/new_allocator.h ../headers//usr/include/c++/4.9/ext/numeric_traits.h ../headers//usr/include/c++/4.9/bits/cpp_type_traits.h ../headers//usr/include/x86_64-linux-gnu/bits/wchar2.h ../headers//usr/include/time.h ../headers//usr/include/locale.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/atomic_word.h ../headers//usr/include/wctype.h ./Exception.h ../headers//usr/include/x86_64-linux-gnu/c++/4.9/bits/gthr-default.h ../headers//usr/include/c++/4.9/new