1 | Flat profile: |
---|
2 | |
---|
3 | Each sample counts as 0.01 seconds. |
---|
4 | % cumulative self self total |
---|
5 | time seconds seconds calls ms/call ms/call name |
---|
6 | 1.85 0.01 0.01 27930 0.00 0.00 main |
---|
7 | 1.85 0.02 0.01 computeClearHSPs |
---|
8 | 0.00 0.02 0.00 70399 0.00 0.00 getNucleotideChar |
---|
9 | 0.00 0.02 0.00 70399 0.00 0.00 writeNucleotideAtPosition |
---|
10 | 0.00 0.02 0.00 69807 0.00 0.00 setTightStringLength |
---|
11 | 0.00 0.02 0.00 32510 0.00 0.00 printUsage |
---|
12 | 0.00 0.02 0.00 4000 0.00 0.00 getNucleotide |
---|
13 | 0.00 0.02 0.00 3514 0.00 0.00 _fini |
---|
14 | 0.00 0.02 0.00 2607 0.00 0.00 deflate |
---|
15 | 0.00 0.02 0.00 1190 0.00 0.00 deflateInit_ |
---|
16 | 0.00 0.02 0.00 1186 0.00 0.00 _tr_tally |
---|
17 | 0.00 0.02 0.00 1118 0.00 0.00 deflateInit2_ |
---|
18 | 0.00 0.02 0.00 819 0.00 0.00 deflateBound |
---|
19 | 0.00 0.02 0.00 578 0.00 0.00 newTightString |
---|
20 | 0.00 0.02 0.00 574 0.00 0.00 findInTree |
---|
21 | 0.00 0.02 0.00 305 0.00 0.00 printAnnotations |
---|
22 | 0.00 0.02 0.00 299 0.00 0.00 deflate_stored |
---|
23 | 0.00 0.02 0.00 297 0.00 0.00 newReadSet |
---|
24 | 0.00 0.02 0.00 287 0.00 0.00 importReadSet |
---|
25 | 0.00 0.02 0.00 8 0.00 0.09 deflate_fast |
---|
26 | 0.00 0.02 0.00 7 0.00 0.00 readFastAFile |
---|
27 | 0.00 0.02 0.00 6 0.00 0.68 inflate |
---|
28 | 0.00 0.02 0.00 3 0.00 0.00 allocatePointer |
---|
29 | 0.00 0.02 0.00 2 0.00 0.41 build_tree |
---|
30 | 0.00 0.02 0.00 2 0.00 1.80 inflate_table |
---|
31 | 0.00 0.02 0.00 2 0.00 0.00 insertIntoTree |
---|
32 | 0.00 0.02 0.00 2 0.00 0.00 readFastAGZFile |
---|
33 | 0.00 0.02 0.00 1 0.00 0.82 destroyReadSet |
---|
34 | 0.00 0.02 0.00 1 0.00 0.00 findOrInsertOccurenceInSplayTree |
---|
35 | 0.00 0.02 0.00 1 0.00 2.09 inflateBack |
---|
36 | 0.00 0.02 0.00 1 0.00 0.00 inputSequenceArrayIntoSplayTableAndArchive |
---|
37 | 0.00 0.02 0.00 1 0.00 0.00 newTightStringArrayFromStringArray |
---|
38 | |
---|
39 | % the percentage of the total running time of the |
---|
40 | time program used by this function. |
---|
41 | |
---|
42 | cumulative a running sum of the number of seconds accounted |
---|
43 | seconds for by this function and those listed above it. |
---|
44 | |
---|
45 | self the number of seconds accounted for by this |
---|
46 | seconds function alone. This is the major sort for this |
---|
47 | listing. |
---|
48 | |
---|
49 | calls the number of times this function was invoked, if |
---|
50 | this function is profiled, else blank. |
---|
51 | |
---|
52 | self the average number of milliseconds spent in this |
---|
53 | ms/call function per call, if this function is profiled, |
---|
54 | else blank. |
---|
55 | |
---|
56 | total the average number of milliseconds spent in this |
---|
57 | ms/call function and its descendents per call, if this |
---|
58 | function is profiled, else blank. |
---|
59 | |
---|
60 | name the name of the function. This is the minor sort |
---|
61 | for this listing. The index shows the location of |
---|
62 | the function in the gprof listing. If the index is |
---|
63 | in parenthesis it shows where it would appear in |
---|
64 | the gprof listing if it were to be printed. |
---|
65 | |
---|
66 | Call graph (explanation follows) |
---|
67 | |
---|
68 | |
---|
69 | granularity: each sample hit covers 4 byte(s) for 50.00% of 0.02 seconds |
---|
70 | |
---|
71 | index % time self children called name |
---|
72 | 0.00 0.00 1/27930 adler32 [23] |
---|
73 | 0.00 0.00 1/27930 deflateCopy [24] |
---|
74 | 0.00 0.00 1/27930 deflate <cycle 1> [22] |
---|
75 | 0.00 0.00 1783/27930 inflate_table [4] |
---|
76 | 0.00 0.00 1784/27930 build_tree [12] |
---|
77 | 0.00 0.00 2100/27930 deflate_fast [14] |
---|
78 | 0.00 0.00 2376/27930 compress_block [11] |
---|
79 | 0.00 0.00 5841/27930 inflateBack [9] |
---|
80 | 0.00 0.00 6259/27930 _fini <cycle 1> [8] |
---|
81 | 0.00 0.00 7784/27930 inflate [3] |
---|
82 | [1] 50.0 0.01 0.00 27930 main [1] |
---|
83 | ----------------------------------------------- |
---|
84 | <spontaneous> |
---|
85 | [2] 50.0 0.01 0.00 computeClearHSPs [2] |
---|
86 | ----------------------------------------------- |
---|
87 | 871 inflate [3] |
---|
88 | 0.00 0.00 1/6 crc32 [6] |
---|
89 | 0.00 0.00 1/6 inflate_table [4] |
---|
90 | 0.00 0.00 2/6 adler32_combine [5] |
---|
91 | 0.00 0.00 2/6 compress [10] |
---|
92 | [3] 20.3 0.00 0.00 6+871 inflate [3] |
---|
93 | 0.00 0.00 7784/27930 main [1] |
---|
94 | 0.00 0.00 525/2250 deflate <cycle 1> [22] |
---|
95 | 0.00 0.00 297/2250 deflateInit_ <cycle 1> [30] |
---|
96 | 0.00 0.00 226/2250 deflateInit2_ <cycle 1> [31] |
---|
97 | 0.00 0.00 1/2250 deflate_stored <cycle 1> [36] |
---|
98 | 0.00 0.00 70399/70399 getNucleotideChar [25] |
---|
99 | 0.00 0.00 65807/69807 setTightStringLength [27] |
---|
100 | 0.00 0.00 6745/32510 printUsage [28] |
---|
101 | 0.00 0.00 574/574 findInTree [34] |
---|
102 | 0.00 0.00 297/305 printAnnotations [35] |
---|
103 | 0.00 0.00 287/287 importReadSet [38] |
---|
104 | 0.00 0.00 287/578 newTightString [33] |
---|
105 | 871 inflate [3] |
---|
106 | ----------------------------------------------- |
---|
107 | 0.00 0.00 1/2 adler32_combine [5] |
---|
108 | 0.00 0.00 1/2 crc32 [6] |
---|
109 | [4] 18.0 0.00 0.00 2 inflate_table [4] |
---|
110 | 0.00 0.00 1/1 inflateBack [9] |
---|
111 | 0.00 0.00 1/6 inflate [3] |
---|
112 | 0.00 0.00 1783/27930 main [1] |
---|
113 | 0.00 0.00 2/8 deflate_fast [14] |
---|
114 | 0.00 0.00 2984/32510 printUsage [28] |
---|
115 | ----------------------------------------------- |
---|
116 | <spontaneous> |
---|
117 | [5] 17.8 0.00 0.00 adler32_combine [5] |
---|
118 | 0.00 0.00 1/2 inflate_table [4] |
---|
119 | 0.00 0.00 2/6 inflate [3] |
---|
120 | 0.00 0.00 1/2 build_tree [12] |
---|
121 | ----------------------------------------------- |
---|
122 | <spontaneous> |
---|
123 | [6] 16.5 0.00 0.00 crc32 [6] |
---|
124 | 0.00 0.00 1/2 inflate_table [4] |
---|
125 | 0.00 0.00 1/1 destroyReadSet [13] |
---|
126 | 0.00 0.00 1/6 inflate [3] |
---|
127 | 0.00 0.00 1/2250 _fini <cycle 1> [8] |
---|
128 | ----------------------------------------------- |
---|
129 | [7] 13.7 0.00 0.00 2250+6480 <cycle 1 as a whole> [7] |
---|
130 | 0.00 0.00 3514+613 _fini <cycle 1> [8] |
---|
131 | 0.00 0.00 2607 deflate <cycle 1> [22] |
---|
132 | 0.00 0.00 1190 deflateInit_ <cycle 1> [30] |
---|
133 | 0.00 0.00 1118 deflateInit2_ <cycle 1> [31] |
---|
134 | 0.00 0.00 299 deflate_stored <cycle 1> [36] |
---|
135 | 0.00 0.00 2 insertIntoTree <cycle 1> [41] |
---|
136 | ----------------------------------------------- |
---|
137 | 613 _fini <cycle 1> [8] |
---|
138 | 1 insertIntoTree <cycle 1> [41] |
---|
139 | 4 deflate <cycle 1> [22] |
---|
140 | 299 deflate_stored <cycle 1> [36] |
---|
141 | 820 deflateInit2_ <cycle 1> [31] |
---|
142 | 1190 deflateInit_ <cycle 1> [30] |
---|
143 | 0.00 0.00 1/2250 getSequenceLengths [19] |
---|
144 | 0.00 0.00 1/2250 resetKeyFilter [21] |
---|
145 | 0.00 0.00 1/2250 newKmerOccurenceTable [20] |
---|
146 | 0.00 0.00 1/2250 crc32 [6] |
---|
147 | 0.00 0.00 2/2250 findOrInsertOccurenceInSplayTree [17] |
---|
148 | 0.00 0.00 3/2250 compress2 [16] |
---|
149 | 0.00 0.00 594/2250 velvetLog [15] |
---|
150 | 0.00 0.00 597/2250 destroyReadSet [13] |
---|
151 | [8] 13.7 0.00 0.00 3514+613 _fini <cycle 1> [8] |
---|
152 | 0.00 0.00 6259/27930 main [1] |
---|
153 | 0.00 0.00 1/2 build_tree [12] |
---|
154 | 0.00 0.00 1/8 deflate_fast [14] |
---|
155 | 0.00 0.00 4000/4000 getNucleotide [29] |
---|
156 | 0.00 0.00 4000/69807 setTightStringLength [27] |
---|
157 | 0.00 0.00 2985/32510 printUsage [28] |
---|
158 | 0.00 0.00 4/578 newTightString [33] |
---|
159 | 0.00 0.00 1/305 printAnnotations [35] |
---|
160 | 0.00 0.00 1/1 newTightStringArrayFromStringArray [44] |
---|
161 | 2082 deflate <cycle 1> [22] |
---|
162 | 892 deflateInit2_ <cycle 1> [31] |
---|
163 | 594 deflateInit_ <cycle 1> [30] |
---|
164 | 298 deflate_stored <cycle 1> [36] |
---|
165 | 1 insertIntoTree <cycle 1> [41] |
---|
166 | 613 _fini <cycle 1> [8] |
---|
167 | ----------------------------------------------- |
---|
168 | 0.00 0.00 1/1 inflate_table [4] |
---|
169 | [9] 10.5 0.00 0.00 1 inflateBack [9] |
---|
170 | 0.00 0.00 5841/27930 main [1] |
---|
171 | 0.00 0.00 3171/32510 printUsage [28] |
---|
172 | ----------------------------------------------- |
---|
173 | <spontaneous> |
---|
174 | [10] 7.3 0.00 0.00 compress [10] |
---|
175 | 0.00 0.00 2/6 inflate [3] |
---|
176 | 0.00 0.00 1/8 deflate_fast [14] |
---|
177 | ----------------------------------------------- |
---|
178 | <spontaneous> |
---|
179 | [11] 4.3 0.00 0.00 compress_block [11] |
---|
180 | 0.00 0.00 2376/27930 main [1] |
---|
181 | 0.00 0.00 4752/32510 printUsage [28] |
---|
182 | ----------------------------------------------- |
---|
183 | 0.00 0.00 1/2 adler32_combine [5] |
---|
184 | 0.00 0.00 1/2 _fini <cycle 1> [8] |
---|
185 | [12] 4.1 0.00 0.00 2 build_tree [12] |
---|
186 | 0.00 0.00 1784/27930 main [1] |
---|
187 | 0.00 0.00 2/8 deflate_fast [14] |
---|
188 | 0.00 0.00 1192/32510 printUsage [28] |
---|
189 | 0.00 0.00 1186/1186 _tr_tally [173] |
---|
190 | ----------------------------------------------- |
---|
191 | 0.00 0.00 1/1 crc32 [6] |
---|
192 | [13] 4.1 0.00 0.00 1 destroyReadSet [13] |
---|
193 | 0.00 0.00 597/2250 _fini <cycle 1> [8] |
---|
194 | 0.00 0.00 1/8 deflate_fast [14] |
---|
195 | 0.00 0.00 297/297 newReadSet [37] |
---|
196 | ----------------------------------------------- |
---|
197 | 0.00 0.00 1/8 destroyReadSet [13] |
---|
198 | 0.00 0.00 1/8 compress2 [16] |
---|
199 | 0.00 0.00 1/8 compress [10] |
---|
200 | 0.00 0.00 1/8 _fini <cycle 1> [8] |
---|
201 | 0.00 0.00 2/8 inflate_table [4] |
---|
202 | 0.00 0.00 2/8 build_tree [12] |
---|
203 | [14] 3.8 0.00 0.00 8 deflate_fast [14] |
---|
204 | 0.00 0.00 2100/27930 main [1] |
---|
205 | 0.00 0.00 8309/32510 printUsage [28] |
---|
206 | 0.00 0.00 7/305 printAnnotations [35] |
---|
207 | 0.00 0.00 7/7 readFastAFile [39] |
---|
208 | ----------------------------------------------- |
---|
209 | <spontaneous> |
---|
210 | [15] 3.6 0.00 0.00 velvetLog [15] |
---|
211 | 0.00 0.00 594/2250 _fini <cycle 1> [8] |
---|
212 | ----------------------------------------------- |
---|
213 | <spontaneous> |
---|
214 | [16] 0.5 0.00 0.00 compress2 [16] |
---|
215 | 0.00 0.00 1/8 deflate_fast [14] |
---|
216 | 0.00 0.00 3/2250 _fini <cycle 1> [8] |
---|
217 | 0.00 0.00 1/2250 insertIntoTree <cycle 1> [41] |
---|
218 | ----------------------------------------------- |
---|
219 | 0.00 0.00 1/1 createReadPairingArray [18] |
---|
220 | [17] 0.0 0.00 0.00 1 findOrInsertOccurenceInSplayTree [17] |
---|
221 | 0.00 0.00 2/2250 _fini <cycle 1> [8] |
---|
222 | ----------------------------------------------- |
---|
223 | <spontaneous> |
---|
224 | [18] 0.0 0.00 0.00 createReadPairingArray [18] |
---|
225 | 0.00 0.00 1/1 findOrInsertOccurenceInSplayTree [17] |
---|
226 | ----------------------------------------------- |
---|
227 | <spontaneous> |
---|
228 | [19] 0.0 0.00 0.00 getSequenceLengths [19] |
---|
229 | 0.00 0.00 1/2250 _fini <cycle 1> [8] |
---|
230 | 0.00 0.00 1/1 inputSequenceArrayIntoSplayTableAndArchive [43] |
---|
231 | ----------------------------------------------- |
---|
232 | <spontaneous> |
---|
233 | [20] 0.0 0.00 0.00 newKmerOccurenceTable [20] |
---|
234 | 0.00 0.00 1/2250 _fini <cycle 1> [8] |
---|
235 | ----------------------------------------------- |
---|
236 | <spontaneous> |
---|
237 | [21] 0.0 0.00 0.00 resetKeyFilter [21] |
---|
238 | 0.00 0.00 1/2250 _fini <cycle 1> [8] |
---|
239 | ----------------------------------------------- |
---|
240 | 2082 _fini <cycle 1> [8] |
---|
241 | 0.00 0.00 525/2250 inflate [3] |
---|
242 | [22] 0.0 0.00 0.00 2607 deflate <cycle 1> [22] |
---|
243 | 0.00 0.00 1/27930 main [1] |
---|
244 | 0.00 0.00 1/2 readFastAGZFile [42] |
---|
245 | 299 deflateInit_ <cycle 1> [30] |
---|
246 | 4 _fini <cycle 1> [8] |
---|
247 | ----------------------------------------------- |
---|
248 | <spontaneous> |
---|
249 | [23] 0.0 0.00 0.00 adler32 [23] |
---|
250 | 0.00 0.00 1/27930 main [1] |
---|
251 | 0.00 0.00 3/3 allocatePointer [40] |
---|
252 | ----------------------------------------------- |
---|
253 | <spontaneous> |
---|
254 | [24] 0.0 0.00 0.00 deflateCopy [24] |
---|
255 | 0.00 0.00 1/27930 main [1] |
---|
256 | ----------------------------------------------- |
---|
257 | 0.00 0.00 70399/70399 inflate [3] |
---|
258 | [25] 0.0 0.00 0.00 70399 getNucleotideChar [25] |
---|
259 | ----------------------------------------------- |
---|
260 | 0.00 0.00 4879/70399 importReadSet [38] |
---|
261 | 0.00 0.00 65520/70399 findReferenceCoordinate [82] |
---|
262 | [26] 0.0 0.00 0.00 70399 writeNucleotideAtPosition [26] |
---|
263 | ----------------------------------------------- |
---|
264 | 0.00 0.00 4000/69807 _fini <cycle 1> [8] |
---|
265 | 0.00 0.00 65807/69807 inflate [3] |
---|
266 | [27] 0.0 0.00 0.00 69807 setTightStringLength [27] |
---|
267 | ----------------------------------------------- |
---|
268 | 0.00 0.00 1192/32510 build_tree [12] |
---|
269 | 0.00 0.00 2372/32510 _tr_tally [173] |
---|
270 | 0.00 0.00 2984/32510 inflate_table [4] |
---|
271 | 0.00 0.00 2985/32510 _fini <cycle 1> [8] |
---|
272 | 0.00 0.00 3171/32510 inflateBack [9] |
---|
273 | 0.00 0.00 4752/32510 compress_block [11] |
---|
274 | 0.00 0.00 6745/32510 inflate [3] |
---|
275 | 0.00 0.00 8309/32510 deflate_fast [14] |
---|
276 | [28] 0.0 0.00 0.00 32510 printUsage [28] |
---|
277 | ----------------------------------------------- |
---|
278 | 0.00 0.00 4000/4000 _fini <cycle 1> [8] |
---|
279 | [29] 0.0 0.00 0.00 4000 getNucleotide [29] |
---|
280 | ----------------------------------------------- |
---|
281 | 299 deflate <cycle 1> [22] |
---|
282 | 594 _fini <cycle 1> [8] |
---|
283 | 0.00 0.00 297/2250 inflate [3] |
---|
284 | [30] 0.0 0.00 0.00 1190 deflateInit_ <cycle 1> [30] |
---|
285 | 1190 _fini <cycle 1> [8] |
---|
286 | ----------------------------------------------- |
---|
287 | 892 _fini <cycle 1> [8] |
---|
288 | 0.00 0.00 226/2250 inflate [3] |
---|
289 | [31] 0.0 0.00 0.00 1118 deflateInit2_ <cycle 1> [31] |
---|
290 | 0.00 0.00 819/819 deflateBound [32] |
---|
291 | 820 _fini <cycle 1> [8] |
---|
292 | ----------------------------------------------- |
---|
293 | 0.00 0.00 819/819 deflateInit2_ <cycle 1> [31] |
---|
294 | [32] 0.0 0.00 0.00 819 deflateBound [32] |
---|
295 | ----------------------------------------------- |
---|
296 | 0.00 0.00 4/578 _fini <cycle 1> [8] |
---|
297 | 0.00 0.00 287/578 importReadSet [38] |
---|
298 | 0.00 0.00 287/578 inflate [3] |
---|
299 | [33] 0.0 0.00 0.00 578 newTightString [33] |
---|
300 | ----------------------------------------------- |
---|
301 | 0.00 0.00 574/574 inflate [3] |
---|
302 | [34] 0.0 0.00 0.00 574 findInTree [34] |
---|
303 | ----------------------------------------------- |
---|
304 | 0.00 0.00 1/305 _fini <cycle 1> [8] |
---|
305 | 0.00 0.00 7/305 deflate_fast [14] |
---|
306 | 0.00 0.00 297/305 inflate [3] |
---|
307 | [35] 0.0 0.00 0.00 305 printAnnotations [35] |
---|
308 | ----------------------------------------------- |
---|
309 | 298 _fini <cycle 1> [8] |
---|
310 | 0.00 0.00 1/2250 inflate [3] |
---|
311 | [36] 0.0 0.00 0.00 299 deflate_stored <cycle 1> [36] |
---|
312 | 299 _fini <cycle 1> [8] |
---|
313 | ----------------------------------------------- |
---|
314 | 0.00 0.00 297/297 destroyReadSet [13] |
---|
315 | [37] 0.0 0.00 0.00 297 newReadSet [37] |
---|
316 | ----------------------------------------------- |
---|
317 | 0.00 0.00 287/287 inflate [3] |
---|
318 | [38] 0.0 0.00 0.00 287 importReadSet [38] |
---|
319 | 0.00 0.00 4879/70399 writeNucleotideAtPosition [26] |
---|
320 | 0.00 0.00 287/578 newTightString [33] |
---|
321 | ----------------------------------------------- |
---|
322 | 0.00 0.00 7/7 deflate_fast [14] |
---|
323 | [39] 0.0 0.00 0.00 7 readFastAFile [39] |
---|
324 | ----------------------------------------------- |
---|
325 | 0.00 0.00 3/3 adler32 [23] |
---|
326 | [40] 0.0 0.00 0.00 3 allocatePointer [40] |
---|
327 | ----------------------------------------------- |
---|
328 | 1 _fini <cycle 1> [8] |
---|
329 | 0.00 0.00 1/2250 compress2 [16] |
---|
330 | [41] 0.0 0.00 0.00 2 insertIntoTree <cycle 1> [41] |
---|
331 | 1 _fini <cycle 1> [8] |
---|
332 | ----------------------------------------------- |
---|
333 | 0.00 0.00 1/2 flush_pending [83] |
---|
334 | 0.00 0.00 1/2 deflate <cycle 1> [22] |
---|
335 | [42] 0.0 0.00 0.00 2 readFastAGZFile [42] |
---|
336 | ----------------------------------------------- |
---|
337 | 0.00 0.00 1/1 getSequenceLengths [19] |
---|
338 | [43] 0.0 0.00 0.00 1 inputSequenceArrayIntoSplayTableAndArchive [43] |
---|
339 | ----------------------------------------------- |
---|
340 | 0.00 0.00 1/1 _fini <cycle 1> [8] |
---|
341 | [44] 0.0 0.00 0.00 1 newTightStringArrayFromStringArray [44] |
---|
342 | ----------------------------------------------- |
---|
343 | 0.00 0.00 1186/1186 build_tree [12] |
---|
344 | [173] 0.0 0.00 0.00 1186 _tr_tally [173] |
---|
345 | 0.00 0.00 2372/32510 printUsage [28] |
---|
346 | ----------------------------------------------- |
---|
347 | |
---|
348 | This table describes the call tree of the program, and was sorted by |
---|
349 | the total amount of time spent in each function and its children. |
---|
350 | |
---|
351 | Each entry in this table consists of several lines. The line with the |
---|
352 | index number at the left hand margin lists the current function. |
---|
353 | The lines above it list the functions that called this function, |
---|
354 | and the lines below it list the functions this one called. |
---|
355 | This line lists: |
---|
356 | index A unique number given to each element of the table. |
---|
357 | Index numbers are sorted numerically. |
---|
358 | The index number is printed next to every function name so |
---|
359 | it is easier to look up where the function in the table. |
---|
360 | |
---|
361 | % time This is the percentage of the `total' time that was spent |
---|
362 | in this function and its children. Note that due to |
---|
363 | different viewpoints, functions excluded by options, etc, |
---|
364 | these numbers will NOT add up to 100%. |
---|
365 | |
---|
366 | self This is the total amount of time spent in this function. |
---|
367 | |
---|
368 | children This is the total amount of time propagated into this |
---|
369 | function by its children. |
---|
370 | |
---|
371 | called This is the number of times the function was called. |
---|
372 | If the function called itself recursively, the number |
---|
373 | only includes non-recursive calls, and is followed by |
---|
374 | a `+' and the number of recursive calls. |
---|
375 | |
---|
376 | name The name of the current function. The index number is |
---|
377 | printed after it. If the function is a member of a |
---|
378 | cycle, the cycle number is printed between the |
---|
379 | function's name and the index number. |
---|
380 | |
---|
381 | |
---|
382 | For the function's parents, the fields have the following meanings: |
---|
383 | |
---|
384 | self This is the amount of time that was propagated directly |
---|
385 | from the function into this parent. |
---|
386 | |
---|
387 | children This is the amount of time that was propagated from |
---|
388 | the function's children into this parent. |
---|
389 | |
---|
390 | called This is the number of times this parent called the |
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391 | function `/' the total number of times the function |
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392 | was called. Recursive calls to the function are not |
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393 | included in the number after the `/'. |
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394 | |
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395 | name This is the name of the parent. The parent's index |
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396 | number is printed after it. If the parent is a |
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397 | member of a cycle, the cycle number is printed between |
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398 | the name and the index number. |
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399 | |
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400 | If the parents of the function cannot be determined, the word |
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401 | `<spontaneous>' is printed in the `name' field, and all the other |
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402 | fields are blank. |
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403 | |
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404 | For the function's children, the fields have the following meanings: |
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405 | |
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406 | self This is the amount of time that was propagated directly |
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407 | from the child into the function. |
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408 | |
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409 | children This is the amount of time that was propagated from the |
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410 | child's children to the function. |
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411 | |
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412 | called This is the number of times the function called |
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413 | this child `/' the total number of times the child |
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414 | was called. Recursive calls by the child are not |
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415 | listed in the number after the `/'. |
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416 | |
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417 | name This is the name of the child. The child's index |
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418 | number is printed after it. If the child is a |
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419 | member of a cycle, the cycle number is printed |
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420 | between the name and the index number. |
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421 | |
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422 | If there are any cycles (circles) in the call graph, there is an |
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423 | entry for the cycle-as-a-whole. This entry shows who called the |
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424 | cycle (as parents) and the members of the cycle (as children.) |
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425 | The `+' recursive calls entry shows the number of function calls that |
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426 | were internal to the cycle, and the calls entry for each member shows, |
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427 | for that member, how many times it was called from other members of |
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428 | the cycle. |
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429 | |
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430 | |
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431 | Index by function name |
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432 | |
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433 | [8] _fini [13] destroyReadSet [1] main |
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434 | [173] _tr_tally [34] findInTree [37] newReadSet |
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435 | [40] allocatePointer [17] findOrInsertOccurenceInSplayTree [33] newTightString |
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436 | [12] build_tree [29] getNucleotide [44] newTightStringArrayFromStringArray |
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437 | [2] computeClearHSPs [25] getNucleotideChar [35] printAnnotations |
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438 | [22] deflate [38] importReadSet [28] printUsage |
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439 | [32] deflateBound [3] inflate [39] readFastAFile |
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440 | [31] deflateInit2_ [9] inflateBack [42] readFastAGZFile |
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441 | [30] deflateInit_ [4] inflate_table [27] setTightStringLength |
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442 | [14] deflate_fast [43] inputSequenceArrayIntoSplayTableAndArchive [26] writeNucleotideAtPosition |
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443 | [36] deflate_stored [41] insertIntoTree [7] <cycle 1> |
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