1 RootedTreeOutput.o RootedTreeOutput.o: tree/UPGMA/RootedTreeOutput.cpp \
2 config.h tree/UPGMA/RootedTreeOutput.h /usr/include/c++/4.2.1/fstream \
3 /usr/include/c++/4.2.1/istream /usr/include/c++/4.2.1/ios \
4 /usr/include/c++/4.2.1/iosfwd \
5 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/c++config.h \
6 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/os_defines.h \
7 /usr/include/unistd.h /usr/include/_types.h /usr/include/sys/_types.h \
8 /usr/include/sys/cdefs.h /usr/include/machine/_types.h \
9 /usr/include/i386/_types.h /usr/include/sys/unistd.h \
10 /usr/include/sys/select.h /usr/include/sys/appleapiopts.h \
11 /usr/include/sys/_structs.h /usr/include/sys/_select.h \
12 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/cpu_defines.h \
13 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/c++locale.h \
14 /usr/include/c++/4.2.1/clocale /usr/include/locale.h \
15 /usr/include/_locale.h /usr/include/c++/4.2.1/cstring \
16 /usr/include/c++/4.2.1/cstddef \
17 /usr/lib/gcc/i686-apple-darwin10/4.2.1/include/stddef.h \
18 /usr/include/string.h /usr/include/c++/4.2.1/cstdio \
19 /usr/include/stdio.h /usr/include/c++/4.2.1/cstdarg \
20 /usr/lib/gcc/i686-apple-darwin10/4.2.1/include/stdarg.h \
21 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/c++io.h \
22 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/gthr.h \
23 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/gthr-default.h \
24 /usr/include/pthread.h /usr/include/pthread_impl.h /usr/include/sched.h \
25 /usr/include/time.h /usr/include/_structs.h \
26 /usr/include/c++/4.2.1/cctype /usr/include/ctype.h \
27 /usr/include/runetype.h /usr/include/c++/4.2.1/bits/stringfwd.h \
28 /usr/include/c++/4.2.1/bits/postypes.h /usr/include/c++/4.2.1/cwchar \
29 /usr/include/c++/4.2.1/ctime /usr/include/wchar.h \
30 /usr/include/_wctype.h \
31 /usr/lib/gcc/i686-apple-darwin10/4.2.1/include/stdint.h \
32 /usr/include/c++/4.2.1/bits/functexcept.h \
33 /usr/include/c++/4.2.1/exception_defines.h \
34 /usr/include/c++/4.2.1/exception \
35 /usr/include/c++/4.2.1/bits/char_traits.h \
36 /usr/include/c++/4.2.1/bits/stl_algobase.h \
37 /usr/include/c++/4.2.1/climits \
38 /usr/lib/gcc/i686-apple-darwin10/4.2.1/include/limits.h \
39 /usr/lib/gcc/i686-apple-darwin10/4.2.1/include/syslimits.h \
40 /usr/include/limits.h /usr/include/machine/limits.h \
41 /usr/include/i386/limits.h /usr/include/i386/_limits.h \
42 /usr/include/sys/syslimits.h /usr/include/c++/4.2.1/cstdlib \
43 /usr/include/stdlib.h /usr/include/Availability.h \
44 /usr/include/AvailabilityInternal.h /usr/include/sys/wait.h \
45 /usr/include/sys/signal.h /usr/include/machine/signal.h \
46 /usr/include/i386/signal.h /usr/include/i386/_structs.h \
47 /usr/include/machine/_structs.h /usr/include/mach/i386/_structs.h \
48 /usr/include/sys/resource.h /usr/include/machine/endian.h \
49 /usr/include/i386/endian.h /usr/include/sys/_endian.h \
50 /usr/include/libkern/_OSByteOrder.h \
51 /usr/include/libkern/i386/_OSByteOrder.h /usr/include/alloca.h \
52 /usr/include/machine/types.h /usr/include/i386/types.h \
53 /usr/include/i386/_types.h /usr/include/c++/4.2.1/bits/stl_pair.h \
54 /usr/include/c++/4.2.1/bits/cpp_type_traits.h \
55 /usr/include/c++/4.2.1/ext/type_traits.h /usr/include/c++/4.2.1/utility \
56 /usr/include/c++/4.2.1/bits/stl_relops.h \
57 /usr/include/c++/4.2.1/bits/stl_iterator_base_types.h \
58 /usr/include/c++/4.2.1/bits/stl_iterator_base_funcs.h \
59 /usr/include/c++/4.2.1/bits/concept_check.h \
60 /usr/include/c++/4.2.1/bits/stl_iterator.h \
61 /usr/include/c++/4.2.1/debug/debug.h \
62 /usr/include/c++/4.2.1/bits/localefwd.h \
63 /usr/include/c++/4.2.1/bits/ios_base.h \
64 /usr/include/c++/4.2.1/ext/atomicity.h \
65 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/atomic_word.h \
66 /usr/include/c++/4.2.1/bits/locale_classes.h \
67 /usr/include/c++/4.2.1/string /usr/include/c++/4.2.1/memory \
68 /usr/include/c++/4.2.1/bits/allocator.h \
69 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/c++allocator.h \
70 /usr/include/c++/4.2.1/ext/new_allocator.h /usr/include/c++/4.2.1/new \
71 /usr/include/c++/4.2.1/bits/stl_construct.h \
72 /usr/include/c++/4.2.1/bits/stl_uninitialized.h \
73 /usr/include/c++/4.2.1/bits/stl_raw_storage_iter.h \
74 /usr/include/c++/4.2.1/limits \
75 /usr/include/c++/4.2.1/bits/ostream_insert.h \
76 /usr/include/c++/4.2.1/bits/stl_function.h \
77 /usr/include/c++/4.2.1/bits/basic_string.h \
78 /usr/include/c++/4.2.1/algorithm /usr/include/c++/4.2.1/bits/stl_algo.h \
79 /usr/include/c++/4.2.1/bits/stl_heap.h \
80 /usr/include/c++/4.2.1/bits/stl_tempbuf.h \
81 /usr/include/c++/4.2.1/bits/basic_string.tcc \
82 /usr/include/c++/4.2.1/streambuf \
83 /usr/include/c++/4.2.1/bits/streambuf.tcc \
84 /usr/include/c++/4.2.1/bits/basic_ios.h \
85 /usr/include/c++/4.2.1/bits/streambuf_iterator.h \
86 /usr/include/c++/4.2.1/bits/locale_facets.h \
87 /usr/include/c++/4.2.1/cwctype /usr/include/wctype.h \
88 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/ctype_base.h \
89 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/ctype_inline.h \
90 /usr/include/c++/4.2.1/bits/codecvt.h \
91 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/time_members.h \
92 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/messages_members.h \
93 /usr/include/c++/4.2.1/bits/basic_ios.tcc \
94 /usr/include/c++/4.2.1/bits/istream.tcc /usr/include/c++/4.2.1/locale \
95 /usr/include/c++/4.2.1/bits/locale_facets.tcc \
96 /usr/include/c++/4.2.1/typeinfo /usr/include/c++/4.2.1/ostream \
97 /usr/include/c++/4.2.1/bits/ostream.tcc \
98 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/basic_file.h \
99 /usr/include/c++/4.2.1/bits/fstream.tcc tree/UPGMA/RootedGuideTree.h \
100 tree/UPGMA/Node.h /usr/include/c++/4.2.1/vector \
101 /usr/include/c++/4.2.1/bits/stl_vector.h \
102 /usr/include/c++/4.2.1/bits/stl_bvector.h \
103 /usr/include/c++/4.2.1/bits/vector.tcc tree/UPGMA/upgmadata.h \
104 tree/UPGMA/../../alignment/Alignment.h /usr/include/c++/4.2.1/iomanip \
105 /usr/include/c++/4.2.1/functional /usr/include/c++/4.2.1/stdexcept \
106 tree/UPGMA/../../alignment/Sequence.h \
107 tree/UPGMA/../../alignment/../general/userparams.h \
108 tree/UPGMA/../../alignment/../general/UserParameters.h \
109 /usr/include/c++/4.2.1/iostream \
110 tree/UPGMA/../../alignment/../general/utils.h \
111 tree/UPGMA/../../alignment/../general/Utility.h /usr/include/errno.h \
112 /usr/include/sys/errno.h \
113 tree/UPGMA/../../alignment/../general/clustalw.h \
114 tree/UPGMA/../../alignment/../general/general.h \
115 tree/UPGMA/../../alignment/../general/Array2D.h \
116 tree/UPGMA/../../alignment/../general/SquareMat.h \
117 tree/UPGMA/../../alignment/../general/SymMatrix.h \
118 /usr/include/c++/4.2.1/cmath /usr/include/math.h \
119 /usr/include/architecture/i386/math.h \
120 /usr/include/c++/4.2.1/bits/cmath.tcc \
121 tree/UPGMA/../../alignment/../general/utils.h \
122 tree/UPGMA/../../alignment/../substitutionMatrix/globalmatrix.h \
123 tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h \
124 tree/UPGMA/../../alignment/../substitutionMatrix/../general/clustalw.h \
125 tree/UPGMA/../../alignment/../substitutionMatrix/../general/userparams.h \
126 tree/UPGMA/../../alignment/../substitutionMatrix/../general/utils.h \
127 tree/UPGMA/../../alignment/../substitutionMatrix/../general/Array2D.h \
128 tree/UPGMA/../../alignment/../general/VectorOutOfRange.h \
129 tree/UPGMA/../../alignment/../general/SequenceNotFoundException.h \
130 tree/UPGMA/../../general/clustalw.h
134 tree/UPGMA/RootedTreeOutput.h:
136 /usr/include/c++/4.2.1/fstream:
138 /usr/include/c++/4.2.1/istream:
140 /usr/include/c++/4.2.1/ios:
142 /usr/include/c++/4.2.1/iosfwd:
144 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/c++config.h:
146 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/os_defines.h:
148 /usr/include/unistd.h:
150 /usr/include/_types.h:
152 /usr/include/sys/_types.h:
154 /usr/include/sys/cdefs.h:
156 /usr/include/machine/_types.h:
158 /usr/include/i386/_types.h:
160 /usr/include/sys/unistd.h:
162 /usr/include/sys/select.h:
164 /usr/include/sys/appleapiopts.h:
166 /usr/include/sys/_structs.h:
168 /usr/include/sys/_select.h:
170 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/cpu_defines.h:
172 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/c++locale.h:
174 /usr/include/c++/4.2.1/clocale:
176 /usr/include/locale.h:
178 /usr/include/_locale.h:
180 /usr/include/c++/4.2.1/cstring:
182 /usr/include/c++/4.2.1/cstddef:
184 /usr/lib/gcc/i686-apple-darwin10/4.2.1/include/stddef.h:
186 /usr/include/string.h:
188 /usr/include/c++/4.2.1/cstdio:
190 /usr/include/stdio.h:
192 /usr/include/c++/4.2.1/cstdarg:
194 /usr/lib/gcc/i686-apple-darwin10/4.2.1/include/stdarg.h:
196 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/c++io.h:
198 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/gthr.h:
200 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/gthr-default.h:
202 /usr/include/pthread.h:
204 /usr/include/pthread_impl.h:
206 /usr/include/sched.h:
210 /usr/include/_structs.h:
212 /usr/include/c++/4.2.1/cctype:
214 /usr/include/ctype.h:
216 /usr/include/runetype.h:
218 /usr/include/c++/4.2.1/bits/stringfwd.h:
220 /usr/include/c++/4.2.1/bits/postypes.h:
222 /usr/include/c++/4.2.1/cwchar:
224 /usr/include/c++/4.2.1/ctime:
226 /usr/include/wchar.h:
228 /usr/include/_wctype.h:
230 /usr/lib/gcc/i686-apple-darwin10/4.2.1/include/stdint.h:
232 /usr/include/c++/4.2.1/bits/functexcept.h:
234 /usr/include/c++/4.2.1/exception_defines.h:
236 /usr/include/c++/4.2.1/exception:
238 /usr/include/c++/4.2.1/bits/char_traits.h:
240 /usr/include/c++/4.2.1/bits/stl_algobase.h:
242 /usr/include/c++/4.2.1/climits:
244 /usr/lib/gcc/i686-apple-darwin10/4.2.1/include/limits.h:
246 /usr/lib/gcc/i686-apple-darwin10/4.2.1/include/syslimits.h:
248 /usr/include/limits.h:
250 /usr/include/machine/limits.h:
252 /usr/include/i386/limits.h:
254 /usr/include/i386/_limits.h:
256 /usr/include/sys/syslimits.h:
258 /usr/include/c++/4.2.1/cstdlib:
260 /usr/include/stdlib.h:
262 /usr/include/Availability.h:
264 /usr/include/AvailabilityInternal.h:
266 /usr/include/sys/wait.h:
268 /usr/include/sys/signal.h:
270 /usr/include/machine/signal.h:
272 /usr/include/i386/signal.h:
274 /usr/include/i386/_structs.h:
276 /usr/include/machine/_structs.h:
278 /usr/include/mach/i386/_structs.h:
280 /usr/include/sys/resource.h:
282 /usr/include/machine/endian.h:
284 /usr/include/i386/endian.h:
286 /usr/include/sys/_endian.h:
288 /usr/include/libkern/_OSByteOrder.h:
290 /usr/include/libkern/i386/_OSByteOrder.h:
292 /usr/include/alloca.h:
294 /usr/include/machine/types.h:
296 /usr/include/i386/types.h:
298 /usr/include/i386/_types.h:
300 /usr/include/c++/4.2.1/bits/stl_pair.h:
302 /usr/include/c++/4.2.1/bits/cpp_type_traits.h:
304 /usr/include/c++/4.2.1/ext/type_traits.h:
306 /usr/include/c++/4.2.1/utility:
308 /usr/include/c++/4.2.1/bits/stl_relops.h:
310 /usr/include/c++/4.2.1/bits/stl_iterator_base_types.h:
312 /usr/include/c++/4.2.1/bits/stl_iterator_base_funcs.h:
314 /usr/include/c++/4.2.1/bits/concept_check.h:
316 /usr/include/c++/4.2.1/bits/stl_iterator.h:
318 /usr/include/c++/4.2.1/debug/debug.h:
320 /usr/include/c++/4.2.1/bits/localefwd.h:
322 /usr/include/c++/4.2.1/bits/ios_base.h:
324 /usr/include/c++/4.2.1/ext/atomicity.h:
326 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/atomic_word.h:
328 /usr/include/c++/4.2.1/bits/locale_classes.h:
330 /usr/include/c++/4.2.1/string:
332 /usr/include/c++/4.2.1/memory:
334 /usr/include/c++/4.2.1/bits/allocator.h:
336 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/c++allocator.h:
338 /usr/include/c++/4.2.1/ext/new_allocator.h:
340 /usr/include/c++/4.2.1/new:
342 /usr/include/c++/4.2.1/bits/stl_construct.h:
344 /usr/include/c++/4.2.1/bits/stl_uninitialized.h:
346 /usr/include/c++/4.2.1/bits/stl_raw_storage_iter.h:
348 /usr/include/c++/4.2.1/limits:
350 /usr/include/c++/4.2.1/bits/ostream_insert.h:
352 /usr/include/c++/4.2.1/bits/stl_function.h:
354 /usr/include/c++/4.2.1/bits/basic_string.h:
356 /usr/include/c++/4.2.1/algorithm:
358 /usr/include/c++/4.2.1/bits/stl_algo.h:
360 /usr/include/c++/4.2.1/bits/stl_heap.h:
362 /usr/include/c++/4.2.1/bits/stl_tempbuf.h:
364 /usr/include/c++/4.2.1/bits/basic_string.tcc:
366 /usr/include/c++/4.2.1/streambuf:
368 /usr/include/c++/4.2.1/bits/streambuf.tcc:
370 /usr/include/c++/4.2.1/bits/basic_ios.h:
372 /usr/include/c++/4.2.1/bits/streambuf_iterator.h:
374 /usr/include/c++/4.2.1/bits/locale_facets.h:
376 /usr/include/c++/4.2.1/cwctype:
378 /usr/include/wctype.h:
380 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/ctype_base.h:
382 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/ctype_inline.h:
384 /usr/include/c++/4.2.1/bits/codecvt.h:
386 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/time_members.h:
388 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/messages_members.h:
390 /usr/include/c++/4.2.1/bits/basic_ios.tcc:
392 /usr/include/c++/4.2.1/bits/istream.tcc:
394 /usr/include/c++/4.2.1/locale:
396 /usr/include/c++/4.2.1/bits/locale_facets.tcc:
398 /usr/include/c++/4.2.1/typeinfo:
400 /usr/include/c++/4.2.1/ostream:
402 /usr/include/c++/4.2.1/bits/ostream.tcc:
404 /usr/include/c++/4.2.1/i686-apple-darwin10/bits/basic_file.h:
406 /usr/include/c++/4.2.1/bits/fstream.tcc:
408 tree/UPGMA/RootedGuideTree.h:
412 /usr/include/c++/4.2.1/vector:
414 /usr/include/c++/4.2.1/bits/stl_vector.h:
416 /usr/include/c++/4.2.1/bits/stl_bvector.h:
418 /usr/include/c++/4.2.1/bits/vector.tcc:
420 tree/UPGMA/upgmadata.h:
422 tree/UPGMA/../../alignment/Alignment.h:
424 /usr/include/c++/4.2.1/iomanip:
426 /usr/include/c++/4.2.1/functional:
428 /usr/include/c++/4.2.1/stdexcept:
430 tree/UPGMA/../../alignment/Sequence.h:
432 tree/UPGMA/../../alignment/../general/userparams.h:
434 tree/UPGMA/../../alignment/../general/UserParameters.h:
436 /usr/include/c++/4.2.1/iostream:
438 tree/UPGMA/../../alignment/../general/utils.h:
440 tree/UPGMA/../../alignment/../general/Utility.h:
442 /usr/include/errno.h:
444 /usr/include/sys/errno.h:
446 tree/UPGMA/../../alignment/../general/clustalw.h:
448 tree/UPGMA/../../alignment/../general/general.h:
450 tree/UPGMA/../../alignment/../general/Array2D.h:
452 tree/UPGMA/../../alignment/../general/SquareMat.h:
454 tree/UPGMA/../../alignment/../general/SymMatrix.h:
456 /usr/include/c++/4.2.1/cmath:
460 /usr/include/architecture/i386/math.h:
462 /usr/include/c++/4.2.1/bits/cmath.tcc:
464 tree/UPGMA/../../alignment/../general/utils.h:
466 tree/UPGMA/../../alignment/../substitutionMatrix/globalmatrix.h:
468 tree/UPGMA/../../alignment/../substitutionMatrix/SubMatrix.h:
470 tree/UPGMA/../../alignment/../substitutionMatrix/../general/clustalw.h:
472 tree/UPGMA/../../alignment/../substitutionMatrix/../general/userparams.h:
474 tree/UPGMA/../../alignment/../substitutionMatrix/../general/utils.h:
476 tree/UPGMA/../../alignment/../substitutionMatrix/../general/Array2D.h:
478 tree/UPGMA/../../alignment/../general/VectorOutOfRange.h:
480 tree/UPGMA/../../alignment/../general/SequenceNotFoundException.h:
482 tree/UPGMA/../../general/clustalw.h: