1 RootedClusterTree.o RootedClusterTree.o: \
2 tree/UPGMA/RootedClusterTree.cpp config.h tree/UPGMA/RootedClusterTree.h \
3 tree/UPGMA/../ClusterTree.h \
4 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/fstream \
5 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/istream \
6 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/ios \
7 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/iosfwd \
8 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/x86_64-redhat-linux/bits/c++config.h \
9 /usr/include/bits/wordsize.h \
10 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/x86_64-redhat-linux/bits/os_defines.h \
11 /usr/include/features.h /usr/include/sys/cdefs.h \
12 /usr/include/gnu/stubs.h /usr/include/gnu/stubs-64.h \
13 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/x86_64-redhat-linux/bits/cpu_defines.h \
14 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/x86_64-redhat-linux/bits/c++locale.h \
15 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/cstring \
16 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/cstddef \
17 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/include/stddef.h \
18 /usr/include/string.h /usr/include/xlocale.h \
19 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/cstdio \
20 /usr/include/stdio.h /usr/include/bits/types.h \
21 /usr/include/bits/typesizes.h /usr/include/libio.h \
22 /usr/include/_G_config.h /usr/include/wchar.h /usr/include/bits/wchar.h \
23 /usr/include/gconv.h \
24 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/include/stdarg.h \
25 /usr/include/bits/stdio_lim.h /usr/include/bits/sys_errlist.h \
26 /usr/include/bits/stdio.h \
27 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/clocale \
28 /usr/include/locale.h /usr/include/bits/locale.h \
29 /usr/include/langinfo.h /usr/include/nl_types.h /usr/include/iconv.h \
30 /usr/include/libintl.h \
31 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/x86_64-redhat-linux/bits/c++io.h \
32 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/x86_64-redhat-linux/bits/gthr.h \
33 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/x86_64-redhat-linux/bits/gthr-default.h \
34 /usr/include/pthread.h /usr/include/endian.h /usr/include/bits/endian.h \
35 /usr/include/sched.h /usr/include/time.h /usr/include/bits/sched.h \
36 /usr/include/bits/time.h /usr/include/signal.h \
37 /usr/include/bits/sigset.h /usr/include/bits/pthreadtypes.h \
38 /usr/include/bits/setjmp.h /usr/include/unistd.h \
39 /usr/include/bits/posix_opt.h /usr/include/bits/environments.h \
40 /usr/include/bits/confname.h /usr/include/getopt.h \
41 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/cctype \
42 /usr/include/ctype.h \
43 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/stringfwd.h \
44 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/postypes.h \
45 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/cwchar \
46 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/ctime \
47 /usr/include/stdint.h \
48 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/functexcept.h \
49 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/exception_defines.h \
50 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/exception \
51 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/char_traits.h \
52 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/stl_algobase.h \
53 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/climits \
54 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/include/limits.h \
55 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/include/syslimits.h \
56 /usr/include/limits.h /usr/include/bits/posix1_lim.h \
57 /usr/include/bits/local_lim.h /usr/include/linux/limits.h \
58 /usr/include/bits/posix2_lim.h /usr/include/bits/xopen_lim.h \
59 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/cstdlib \
60 /usr/include/stdlib.h /usr/include/bits/waitflags.h \
61 /usr/include/bits/waitstatus.h /usr/include/sys/types.h \
62 /usr/include/sys/select.h /usr/include/bits/select.h \
63 /usr/include/sys/sysmacros.h /usr/include/alloca.h \
64 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/stl_pair.h \
65 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/cpp_type_traits.h \
66 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/stl_iterator_base_types.h \
67 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/stl_iterator_base_funcs.h \
68 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/concept_check.h \
69 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/stl_iterator.h \
70 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/debug/debug.h \
71 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/localefwd.h \
72 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/ios_base.h \
73 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/atomicity.h \
74 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/x86_64-redhat-linux/bits/atomic_word.h \
75 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/locale_classes.h \
76 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/string \
77 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/memory \
78 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/allocator.h \
79 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/x86_64-redhat-linux/bits/c++allocator.h \
80 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/ext/new_allocator.h \
81 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/new \
82 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/stl_construct.h \
83 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/stl_uninitialized.h \
84 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/stl_raw_storage_iter.h \
85 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/limits \
86 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/stl_function.h \
87 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/basic_string.h \
88 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/algorithm \
89 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/stl_algo.h \
90 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/stl_heap.h \
91 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/stl_tempbuf.h \
92 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/basic_string.tcc \
93 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/streambuf \
94 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/streambuf.tcc \
95 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/basic_ios.h \
96 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/streambuf_iterator.h \
97 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/locale_facets.h \
98 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/cwctype \
99 /usr/include/wctype.h \
100 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/x86_64-redhat-linux/bits/ctype_base.h \
101 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/x86_64-redhat-linux/bits/ctype_inline.h \
102 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/codecvt.h \
103 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/x86_64-redhat-linux/bits/time_members.h \
104 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/x86_64-redhat-linux/bits/messages_members.h \
105 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/basic_ios.tcc \
106 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/istream.tcc \
107 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/locale \
108 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/locale_facets.tcc \
109 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/typeinfo \
110 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/ostream \
111 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/ostream.tcc \
112 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/x86_64-redhat-linux/bits/basic_file.h \
113 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/fstream.tcc \
114 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/iostream \
115 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/vector \
116 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/stl_vector.h \
117 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/stl_bvector.h \
118 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/vector.tcc \
119 tree/UPGMA/../../alignment/Alignment.h \
120 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/iomanip \
121 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/functional \
122 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/stdexcept \
123 tree/UPGMA/../../alignment/Sequence.h \
124 tree/UPGMA/../../alignment/../general/userparams.h \
125 tree/UPGMA/../../alignment/../general/UserParameters.h \
126 tree/UPGMA/../../alignment/../general/utils.h \
127 tree/UPGMA/../../alignment/../general/Utility.h /usr/include/errno.h \
128 /usr/include/bits/errno.h /usr/include/linux/errno.h \
129 /usr/include/asm/errno.h /usr/include/asm-x86_64/errno.h \
130 /usr/include/asm-generic/errno.h /usr/include/asm-generic/errno-base.h \
131 tree/UPGMA/../../alignment/../general/clustalw.h \
132 tree/UPGMA/../../alignment/../general/general.h \
133 tree/UPGMA/../../alignment/../general/Array2D.h \
134 tree/UPGMA/../../alignment/../general/SquareMat.h \
135 tree/UPGMA/../../alignment/../general/SymMatrix.h \
136 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/cmath \
137 /usr/include/math.h /usr/include/bits/huge_val.h \
138 /usr/include/bits/huge_valf.h /usr/include/bits/huge_vall.h \
139 /usr/include/bits/inf.h /usr/include/bits/nan.h \
140 /usr/include/bits/mathdef.h /usr/include/bits/mathcalls.h \
141 /usr/include/bits/mathinline.h \
142 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/cmath.tcc \
143 tree/UPGMA/../../alignment/../general/utils.h \
144 tree/UPGMA/../../alignment/../substitutionMatrix/globalmatrix.h \
145 tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h \
146 tree/UPGMA/../../alignment/../substitutionMatrix/../general/clustalw.h \
147 tree/UPGMA/../../alignment/../substitutionMatrix/../general/userparams.h \
148 tree/UPGMA/../../alignment/../substitutionMatrix/../general/utils.h \
149 tree/UPGMA/../../alignment/../substitutionMatrix/../general/Array2D.h \
150 tree/UPGMA/../../alignment/../general/VectorOutOfRange.h \
151 tree/UPGMA/../../alignment/../general/SequenceNotFoundException.h \
152 tree/UPGMA/../NJTree.h tree/UPGMA/../ClusterTreeAlgorithm.h \
153 tree/UPGMA/../../general/clustalw.h \
154 tree/UPGMA/../../general/userparams.h tree/UPGMA/../ClusterTreeOutput.h \
155 tree/UPGMA/../../general/OutputFile.h tree/UPGMA/RootedGuideTree.h \
156 tree/UPGMA/Node.h tree/UPGMA/upgmadata.h \
157 tree/UPGMA/../../alignment/Alignment.h tree/UPGMA/../AlignmentSteps.h \
158 tree/UPGMA/../../general/OutputFile.h tree/UPGMA/UPGMAAlgorithm.h \
159 tree/UPGMA/../../general/clustalw.h \
160 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/list \
161 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/stl_list.h \
162 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/list.tcc \
163 tree/UPGMA/RootedTreeOutput.h
167 tree/UPGMA/RootedClusterTree.h:
169 tree/UPGMA/../ClusterTree.h:
171 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/fstream:
173 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/istream:
175 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/ios:
177 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/iosfwd:
179 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/x86_64-redhat-linux/bits/c++config.h:
181 /usr/include/bits/wordsize.h:
183 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/x86_64-redhat-linux/bits/os_defines.h:
185 /usr/include/features.h:
187 /usr/include/sys/cdefs.h:
189 /usr/include/gnu/stubs.h:
191 /usr/include/gnu/stubs-64.h:
193 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/x86_64-redhat-linux/bits/cpu_defines.h:
195 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/x86_64-redhat-linux/bits/c++locale.h:
197 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/cstring:
199 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/cstddef:
201 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/include/stddef.h:
203 /usr/include/string.h:
205 /usr/include/xlocale.h:
207 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/cstdio:
209 /usr/include/stdio.h:
211 /usr/include/bits/types.h:
213 /usr/include/bits/typesizes.h:
215 /usr/include/libio.h:
217 /usr/include/_G_config.h:
219 /usr/include/wchar.h:
221 /usr/include/bits/wchar.h:
223 /usr/include/gconv.h:
225 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/include/stdarg.h:
227 /usr/include/bits/stdio_lim.h:
229 /usr/include/bits/sys_errlist.h:
231 /usr/include/bits/stdio.h:
233 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/clocale:
235 /usr/include/locale.h:
237 /usr/include/bits/locale.h:
239 /usr/include/langinfo.h:
241 /usr/include/nl_types.h:
243 /usr/include/iconv.h:
245 /usr/include/libintl.h:
247 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/x86_64-redhat-linux/bits/c++io.h:
249 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/x86_64-redhat-linux/bits/gthr.h:
251 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/x86_64-redhat-linux/bits/gthr-default.h:
253 /usr/include/pthread.h:
255 /usr/include/endian.h:
257 /usr/include/bits/endian.h:
259 /usr/include/sched.h:
263 /usr/include/bits/sched.h:
265 /usr/include/bits/time.h:
267 /usr/include/signal.h:
269 /usr/include/bits/sigset.h:
271 /usr/include/bits/pthreadtypes.h:
273 /usr/include/bits/setjmp.h:
275 /usr/include/unistd.h:
277 /usr/include/bits/posix_opt.h:
279 /usr/include/bits/environments.h:
281 /usr/include/bits/confname.h:
283 /usr/include/getopt.h:
285 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/cctype:
287 /usr/include/ctype.h:
289 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/stringfwd.h:
291 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/postypes.h:
293 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/cwchar:
295 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/ctime:
297 /usr/include/stdint.h:
299 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/functexcept.h:
301 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/exception_defines.h:
303 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/exception:
305 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/char_traits.h:
307 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/stl_algobase.h:
309 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/climits:
311 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/include/limits.h:
313 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/include/syslimits.h:
315 /usr/include/limits.h:
317 /usr/include/bits/posix1_lim.h:
319 /usr/include/bits/local_lim.h:
321 /usr/include/linux/limits.h:
323 /usr/include/bits/posix2_lim.h:
325 /usr/include/bits/xopen_lim.h:
327 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/cstdlib:
329 /usr/include/stdlib.h:
331 /usr/include/bits/waitflags.h:
333 /usr/include/bits/waitstatus.h:
335 /usr/include/sys/types.h:
337 /usr/include/sys/select.h:
339 /usr/include/bits/select.h:
341 /usr/include/sys/sysmacros.h:
343 /usr/include/alloca.h:
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461 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/stdexcept:
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483 /usr/include/asm-generic/errno.h:
485 /usr/include/asm-generic/errno-base.h:
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489 tree/UPGMA/../../alignment/../general/general.h:
491 tree/UPGMA/../../alignment/../general/Array2D.h:
493 tree/UPGMA/../../alignment/../general/SquareMat.h:
495 tree/UPGMA/../../alignment/../general/SymMatrix.h:
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521 tree/UPGMA/../../alignment/../substitutionMatrix/globalmatrix.h:
523 tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:
525 tree/UPGMA/../../alignment/../substitutionMatrix/../general/clustalw.h:
527 tree/UPGMA/../../alignment/../substitutionMatrix/../general/userparams.h:
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531 tree/UPGMA/../../alignment/../substitutionMatrix/../general/Array2D.h:
533 tree/UPGMA/../../alignment/../general/VectorOutOfRange.h:
535 tree/UPGMA/../../alignment/../general/SequenceNotFoundException.h:
537 tree/UPGMA/../NJTree.h:
539 tree/UPGMA/../ClusterTreeAlgorithm.h:
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543 tree/UPGMA/../../general/userparams.h:
545 tree/UPGMA/../ClusterTreeOutput.h:
547 tree/UPGMA/../../general/OutputFile.h:
549 tree/UPGMA/RootedGuideTree.h:
553 tree/UPGMA/upgmadata.h:
555 tree/UPGMA/../../alignment/Alignment.h:
557 tree/UPGMA/../AlignmentSteps.h:
559 tree/UPGMA/../../general/OutputFile.h:
561 tree/UPGMA/UPGMAAlgorithm.h:
563 tree/UPGMA/../../general/clustalw.h:
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569 /usr/lib/gcc/x86_64-redhat-linux/4.1.2/../../../../include/c++/4.1.2/bits/list.tcc:
571 tree/UPGMA/RootedTreeOutput.h: