1 | // This file is a part of Framsticks SDK. http://www.framsticks.com/ |
---|
2 | // Copyright (C) 1999-2021 Maciej Komosinski and Szymon Ulatowski. |
---|
3 | // See LICENSE.txt for details. |
---|
4 | |
---|
5 | #include "fB_conv.h" |
---|
6 | |
---|
7 | #include <frams/param/paramobj.h> |
---|
8 | #include <vector> |
---|
9 | #include <algorithm> |
---|
10 | #include <frams/util/multimap.h> |
---|
11 | #include "fB_general.h" |
---|
12 | |
---|
13 | double GenoConv_fBH::convertCharacterTo01(char c) |
---|
14 | { |
---|
15 | return (double)(c - 'a') / 25.0; |
---|
16 | } |
---|
17 | |
---|
18 | double GenoConv_fBH::convertCharacterToWeight(char c) |
---|
19 | { |
---|
20 | if (c <= 'm') |
---|
21 | { |
---|
22 | return -0.001 * pow(2.0, (double)('m' - c)); |
---|
23 | } |
---|
24 | else |
---|
25 | { |
---|
26 | return 0.001 * pow(2.0, (double)(c - 'n')); |
---|
27 | } |
---|
28 | } |
---|
29 | |
---|
30 | fH_Handle* GenoConv_fBH::convertCharacterToHandle(char c, int dims, int start, int end, std::vector<IRange> ranges[3]) |
---|
31 | { |
---|
32 | fH_Handle *handle = NULL; |
---|
33 | if (c >= 'a' && c <= 'i') |
---|
34 | { |
---|
35 | handle = new fH_StickHandle(dims, start, end); |
---|
36 | ranges[0].push_back(IRange(start, end)); |
---|
37 | } |
---|
38 | else if (c >= 'j' && c <= 'p') |
---|
39 | { |
---|
40 | handle = new fH_NeuronHandle(dims, start, end); |
---|
41 | ranges[1].push_back(IRange(start, end)); |
---|
42 | } |
---|
43 | else |
---|
44 | { |
---|
45 | handle = new fH_ConnectionHandle(dims, start, end); |
---|
46 | ranges[2].push_back(IRange(start, end)); |
---|
47 | } |
---|
48 | return handle; |
---|
49 | } |
---|
50 | |
---|
51 | SString GenoConv_fBH::convert(SString &i, MultiMap *map, bool using_checkpoints) |
---|
52 | { |
---|
53 | // if there is no genotype to load, then return error |
---|
54 | |
---|
55 | std::vector<IRange> ranges[3]; |
---|
56 | |
---|
57 | int pos = 0; |
---|
58 | SString line; |
---|
59 | i.getNextToken(pos, line, '\n'); |
---|
60 | int dims = 0; |
---|
61 | // extract dimensions |
---|
62 | if (!ExtValue::parseInt(line.c_str(), dims, true, false)) |
---|
63 | { |
---|
64 | logMessage("f2::Builder", "parseGenotype", LOG_ERROR, "Could not parse number of dimensions"); |
---|
65 | return ""; |
---|
66 | } |
---|
67 | |
---|
68 | if (dims < 1) |
---|
69 | { |
---|
70 | logMessage("f2::Builder", "parseGenotype", LOG_ERROR, "Number of dimensions cannot be lower than 1"); |
---|
71 | return ""; |
---|
72 | } |
---|
73 | |
---|
74 | fH_Builder creature(dims, false); |
---|
75 | |
---|
76 | for (int q = 0; q < fB_GenoHelpers::geneCount(i); q++) |
---|
77 | { |
---|
78 | int start, end; |
---|
79 | SString gene = fB_GenoHelpers::getGene(q, i, start, end); |
---|
80 | end -= 1; // last character is included in range, so decrementation is required |
---|
81 | int endoffset = 0; |
---|
82 | if (gene.indexOf("zz", 0) != -1) endoffset = 2; |
---|
83 | if (gene.length() - endoffset < 3) |
---|
84 | { |
---|
85 | fH_StickHandle *handle = new fH_StickHandle(dims, start, end); |
---|
86 | ParamEntry *tab = creature.getParamTab(handle->type); |
---|
87 | void *obj = ParamObject::makeObject(tab); |
---|
88 | Param par(tab, NULL); |
---|
89 | par.select(obj); |
---|
90 | par.setDefault(); |
---|
91 | handle->loadProperties(par); |
---|
92 | ranges[0].push_back(IRange(start, end)); |
---|
93 | creature.addHandle(handle); |
---|
94 | continue; |
---|
95 | } |
---|
96 | int hclasspos = 2; |
---|
97 | if (gene[2] == '"') |
---|
98 | { |
---|
99 | hclasspos--; |
---|
100 | if (!getNextCharId(gene, hclasspos)) |
---|
101 | { |
---|
102 | return ""; |
---|
103 | } |
---|
104 | } |
---|
105 | fH_Handle *handle = convertCharacterToHandle(gene[hclasspos], dims, start, end, ranges); |
---|
106 | ParamEntry *tab = creature.getParamTab(handle->type); |
---|
107 | void *obj = ParamObject::makeObject(tab); |
---|
108 | Param par(tab, NULL); |
---|
109 | par.select(obj); |
---|
110 | par.setDefault(); |
---|
111 | |
---|
112 | int propindex = 0; |
---|
113 | int z = hclasspos; |
---|
114 | if (gene[z] == '"') |
---|
115 | { |
---|
116 | z--; |
---|
117 | if (!getNextCharId(gene, z)) |
---|
118 | { |
---|
119 | delete handle; |
---|
120 | ParamObject::freeObject(obj); |
---|
121 | return ""; |
---|
122 | } |
---|
123 | } |
---|
124 | endoffset = 0; |
---|
125 | if (gene.indexOf("zz", 0) != -1) endoffset = 2; |
---|
126 | int nclassdefcount = 1; |
---|
127 | while (z < gene.length() - endoffset) |
---|
128 | { |
---|
129 | if (processNextLetter(creature, handle, par, gene, propindex, z, ranges, nclassdefcount) == -1) |
---|
130 | { |
---|
131 | logMessage("GenoConv_fBH", "convert", LOG_ERROR, "Property of fH could not be parsed"); |
---|
132 | delete handle; |
---|
133 | ParamObject::freeObject(obj); |
---|
134 | return ""; |
---|
135 | } |
---|
136 | } |
---|
137 | if (handle->type == fHBodyType::NEURON && propindex < par.getPropCount()) |
---|
138 | { |
---|
139 | SString nclass; |
---|
140 | if (!getNeuroClass(gene, nclass, nclassdefcount)) |
---|
141 | { |
---|
142 | delete handle; |
---|
143 | ParamObject::freeObject(obj); |
---|
144 | return ""; |
---|
145 | } |
---|
146 | par.setStringById(FH_PE_NEURO_DET, nclass); |
---|
147 | } |
---|
148 | handle->loadProperties(par); |
---|
149 | creature.addHandle(handle); |
---|
150 | } |
---|
151 | |
---|
152 | SString fHgenotype = creature.toString(); |
---|
153 | |
---|
154 | if (NULL != map) |
---|
155 | { |
---|
156 | int fHpos = 0; |
---|
157 | SString line; |
---|
158 | fHgenotype.getNextToken(fHpos, line, '\n'); |
---|
159 | int lastpos = fHpos; |
---|
160 | for (int t = 0; t < 3; t++) |
---|
161 | { |
---|
162 | for (unsigned int q = 0; q < ranges[t].size(); q++) |
---|
163 | { |
---|
164 | fHgenotype.getNextToken(fHpos, line, '\n'); |
---|
165 | map->add(ranges[t][q].begin, ranges[t][q].end, lastpos, fHpos - 1); |
---|
166 | lastpos = fHpos; |
---|
167 | } |
---|
168 | } |
---|
169 | } |
---|
170 | |
---|
171 | return fHgenotype; |
---|
172 | } |
---|
173 | |
---|
174 | bool GenoConv_fBH::getNextCharId(const SString& genotype, int &i) |
---|
175 | { |
---|
176 | i++; |
---|
177 | if (genotype[i] == '"') |
---|
178 | { |
---|
179 | int nextid = i + 1; |
---|
180 | do |
---|
181 | { |
---|
182 | nextid = genotype.indexOf('"', nextid); |
---|
183 | if (nextid == -1) |
---|
184 | { |
---|
185 | return false; |
---|
186 | } |
---|
187 | nextid++; |
---|
188 | } while (genotype[nextid] == '"'); |
---|
189 | i = nextid; |
---|
190 | } |
---|
191 | return true; |
---|
192 | } |
---|
193 | |
---|
194 | bool GenoConv_fBH::getNeuroClass(const SString& gene, SString &def, int nclassdefcount) |
---|
195 | { |
---|
196 | SString lastdef = "N"; |
---|
197 | int nclass = 0; |
---|
198 | int pos = 0; |
---|
199 | while (nclass < nclassdefcount) |
---|
200 | { |
---|
201 | pos = gene.indexOf('\"', pos); |
---|
202 | if (pos == -1) |
---|
203 | { |
---|
204 | def = lastdef; |
---|
205 | return true; |
---|
206 | } |
---|
207 | pos++; |
---|
208 | SString currdef; |
---|
209 | if (gene.indexOf('\"', pos) == -1 || !gene.getNextToken(pos, currdef, '\"')) |
---|
210 | { |
---|
211 | def = lastdef; |
---|
212 | return false; |
---|
213 | } |
---|
214 | lastdef = currdef; |
---|
215 | nclass++; |
---|
216 | } |
---|
217 | def = lastdef; |
---|
218 | return true; |
---|
219 | } |
---|
220 | |
---|
221 | int GenoConv_fBH::processNextLetter(fH_Builder &creature, fH_Handle *&currhandle, Param &par, const SString& gene, int &propindex, int &i, std::vector<IRange> ranges[3], int &nclassdefcount) |
---|
222 | { |
---|
223 | if (propindex >= par.getPropCount()) |
---|
224 | { |
---|
225 | int tmpend = currhandle->end; |
---|
226 | currhandle->end = i - 1; |
---|
227 | currhandle->loadProperties(par); |
---|
228 | creature.addHandle(currhandle); |
---|
229 | currhandle = convertCharacterToHandle(gene[i], currhandle->getDimensions(), currhandle->begin + i, tmpend, ranges); |
---|
230 | ParamEntry *tab = creature.getParamTab(currhandle->type); |
---|
231 | par.setParamTab(tab); |
---|
232 | void *obj = ParamObject::makeObject(tab); |
---|
233 | par.select(obj); |
---|
234 | par.setDefault(); |
---|
235 | propindex = 0; |
---|
236 | if (!getNextCharId(gene, i)) |
---|
237 | return -1; |
---|
238 | return 0; |
---|
239 | } |
---|
240 | else |
---|
241 | { |
---|
242 | if (*par.type(propindex) == 'f') |
---|
243 | { |
---|
244 | if (currhandle->type == fHBodyType::CONNECTION && *par.id(propindex) == 'w') |
---|
245 | { |
---|
246 | par.setDouble(propindex, convertCharacterToWeight(gene[i])); |
---|
247 | } |
---|
248 | else |
---|
249 | { |
---|
250 | double val = convertCharacterTo01(gene[i]); |
---|
251 | double mn, mx, def; |
---|
252 | par.getMinMaxDouble(propindex, mn, mx, def); |
---|
253 | par.setDouble(propindex, std::min(mx, std::max(mn, (mx - mn) * val + mn))); |
---|
254 | } |
---|
255 | propindex++; |
---|
256 | if (!getNextCharId(gene, i)) |
---|
257 | return -1; |
---|
258 | return 0; |
---|
259 | } |
---|
260 | else if (currhandle->type == fHBodyType::NEURON && *par.id(propindex) == 'd') |
---|
261 | { |
---|
262 | //When 'd' property appears for i-th element in gene, the method |
---|
263 | //looks for i-th neuron definition |
---|
264 | SString nclass; |
---|
265 | if (!getNeuroClass(gene, nclass, nclassdefcount)) return -1; |
---|
266 | par.setString(propindex, nclass); |
---|
267 | propindex++; |
---|
268 | nclassdefcount++; |
---|
269 | if (!getNextCharId(gene, i)) |
---|
270 | return -1; |
---|
271 | return 0; |
---|
272 | } |
---|
273 | // other property types are not available in this encoding |
---|
274 | return -1; |
---|
275 | } |
---|
276 | } |
---|