1 | /** |
---|
2 | * conv_f4.cpp - f4 genotype functions. |
---|
3 | * |
---|
4 | * f4genotype - f4 format genotype conversions for Framsticks |
---|
5 | * |
---|
6 | * Copyright (C) 1999,2000 Adam Rotaru-Varga (adam_rotaru@yahoo.com) |
---|
7 | * Copyright (C) 2001-2003 Maciej Komosinski |
---|
8 | * |
---|
9 | * This library is free software; you can redistribute it and/or |
---|
10 | * modify it under the terms of the GNU Lesser General Public |
---|
11 | * License as published by the Free Software Foundation; either |
---|
12 | * version 2.1 of the License, or (at your option) any later version. |
---|
13 | * |
---|
14 | * This library is distributed in the hope that it will be useful, |
---|
15 | * but WITHOUT ANY WARRANTY; without even the implied warranty of |
---|
16 | * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU |
---|
17 | * Lesser General Public License for more details. |
---|
18 | * |
---|
19 | * You should have received a copy of the GNU Lesser General Public |
---|
20 | * License along with this library; if not, write to the Free Software |
---|
21 | * Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA |
---|
22 | * |
---|
23 | */ |
---|
24 | |
---|
25 | #include "conv_f4.h" |
---|
26 | #include "framsg.h" |
---|
27 | #include "geno_fx.h" //for GENOPER_OK constant |
---|
28 | |
---|
29 | #ifdef DMALLOC |
---|
30 | #include <dmalloc.h> |
---|
31 | #endif |
---|
32 | |
---|
33 | |
---|
34 | GenoConv_F40::GenoConv_F40() |
---|
35 | { |
---|
36 | name = "f4 converter"; |
---|
37 | in_format = '4'; |
---|
38 | out_format = '0'; |
---|
39 | mapsupport = 1; |
---|
40 | info = "Developmental encoding"; |
---|
41 | } |
---|
42 | |
---|
43 | |
---|
44 | SString GenoConv_F40::convert(SString &in, MultiMap * map) |
---|
45 | { |
---|
46 | int res; |
---|
47 | f4_Model * model = new f4_Model(); |
---|
48 | res = model->buildFromF4(in); |
---|
49 | if (GENOPER_OK != res) return SString(); // oops |
---|
50 | if (NULL != map) |
---|
51 | // generate to-f0 conversion map |
---|
52 | model->getCurrentToF0Map(*map); |
---|
53 | SString out = model->getF0Geno().getGene(); |
---|
54 | delete model; |
---|
55 | return out; |
---|
56 | } |
---|
57 | |
---|
58 | |
---|
59 | GenoConv_F41_TestOnly::GenoConv_F41_TestOnly() |
---|
60 | { |
---|
61 | name = "test-only approximate f4 -> f0 converter"; |
---|
62 | in_format = '4'; |
---|
63 | out_format = '1'; |
---|
64 | mapsupport = 0; |
---|
65 | info = "This is for testing. Do not use in production! (adam)"; |
---|
66 | } |
---|
67 | |
---|
68 | |
---|
69 | SString GenoConv_F41_TestOnly::convert(SString &in, MultiMap * map) |
---|
70 | { |
---|
71 | int res; |
---|
72 | f4_Model * model = new f4_Model(); |
---|
73 | res = model->buildFromF4(in); |
---|
74 | if (GENOPER_OK != res) return SString(); // oops |
---|
75 | SString out; |
---|
76 | model->toF1Geno(out); |
---|
77 | delete model; |
---|
78 | return out; |
---|
79 | } |
---|
80 | |
---|
81 | |
---|
82 | f4_Model::f4_Model() : Model() |
---|
83 | { |
---|
84 | cells = NULL; |
---|
85 | } |
---|
86 | |
---|
87 | f4_Model::~f4_Model() |
---|
88 | { |
---|
89 | if (cells) delete cells; |
---|
90 | } |
---|
91 | |
---|
92 | int f4_Model::buildFromF4(SString &geno) |
---|
93 | { |
---|
94 | int i; |
---|
95 | |
---|
96 | error = GENOPER_OK; |
---|
97 | errorpos = -1; |
---|
98 | |
---|
99 | // build cells, and simulate |
---|
100 | if (cells) delete cells; |
---|
101 | cells = new f4_Cells(geno, 0); |
---|
102 | if (GENOPER_OK != cells->geterror()) |
---|
103 | { |
---|
104 | error = cells->geterror(); |
---|
105 | errorpos = cells->geterrorpos(); |
---|
106 | //delete cells; |
---|
107 | return error; |
---|
108 | } |
---|
109 | |
---|
110 | cells->simulate(); |
---|
111 | if (GENOPER_OK != cells->geterror()) |
---|
112 | { |
---|
113 | error = cells->geterror(); |
---|
114 | errorpos = cells->geterrorpos(); |
---|
115 | return error; |
---|
116 | } |
---|
117 | |
---|
118 | // reset recursive traverse flags |
---|
119 | for(i=0; i<cells->nc; i++) |
---|
120 | cells->C[i]->recProcessedFlag = 0; |
---|
121 | |
---|
122 | open(); // begin model build |
---|
123 | |
---|
124 | // process every cell |
---|
125 | int res; |
---|
126 | for(i=0; i<cells->nc; i++) |
---|
127 | { |
---|
128 | res = buildModelRec(cells->C[i]); |
---|
129 | if (res) |
---|
130 | { |
---|
131 | FramMessage("f4_Model", "buildModelRec", "Error in building Model", 2); |
---|
132 | error = res; |
---|
133 | break; |
---|
134 | } |
---|
135 | } |
---|
136 | |
---|
137 | res = close(); |
---|
138 | if (0 == res) // invalid |
---|
139 | error = -10; |
---|
140 | |
---|
141 | return error; |
---|
142 | } |
---|
143 | |
---|
144 | |
---|
145 | f4_Cell * f4_Model::getStick(f4_Cell * C) |
---|
146 | { |
---|
147 | if (T_STICK4 == C->type) return C; |
---|
148 | if (NULL != C->dadlink) |
---|
149 | return getStick(C->dadlink); |
---|
150 | // we have no more dadlinks, find any stick |
---|
151 | for (int i=0; i<cells->nc; i++) |
---|
152 | if (cells->C[i]->type == T_STICK4) |
---|
153 | return cells->C[i]; |
---|
154 | // none! |
---|
155 | FramMessage("f4_Model", "getStick", "Not a single stick", 2); |
---|
156 | return NULL; |
---|
157 | } |
---|
158 | |
---|
159 | |
---|
160 | /// updated by Macko to follow new GDK standards (no more neuroitems) |
---|
161 | int f4_Model::buildModelRec(f4_Cell * C) |
---|
162 | { |
---|
163 | int partidx; |
---|
164 | int j, res; |
---|
165 | MultiRange range; |
---|
166 | |
---|
167 | if (C->recProcessedFlag) |
---|
168 | // already processed |
---|
169 | return 0; |
---|
170 | |
---|
171 | // mark it processed |
---|
172 | C->recProcessedFlag = 1; |
---|
173 | |
---|
174 | // make sure parent is a stick |
---|
175 | if (NULL != C->dadlink) |
---|
176 | if (C->dadlink->type != T_STICK4) |
---|
177 | { |
---|
178 | C->dadlink = getStick(C->dadlink); |
---|
179 | } |
---|
180 | |
---|
181 | // make sure its parent is processed first |
---|
182 | if (NULL != C->dadlink) |
---|
183 | { |
---|
184 | res = buildModelRec(C->dadlink); |
---|
185 | if (res) return res; |
---|
186 | } |
---|
187 | |
---|
188 | char tmpLine[100]; |
---|
189 | |
---|
190 | range = C->genoRange; |
---|
191 | if (C->type == T_STICK4) |
---|
192 | { |
---|
193 | int jj_p1_refno; // save for later |
---|
194 | // first end is connected to dad, or new |
---|
195 | if (C->dadlink == NULL) |
---|
196 | { |
---|
197 | // new part object for firstend |
---|
198 | // coordinates are left to be computed by Model |
---|
199 | sprintf(tmpLine, "p:m=1,fr=%g,ing=%g,as=%g", |
---|
200 | /*1.0/C->P.mass,*/ C->P.friction, C->P.ingest, C->P.assim |
---|
201 | //C->firstend.x, C->firstend.y, C->firstend.z |
---|
202 | ); |
---|
203 | partidx = singleStepBuild(tmpLine, &range ); |
---|
204 | if (partidx < 0) return -1; |
---|
205 | jj_p1_refno = partidx; |
---|
206 | } else { |
---|
207 | // adjust mass/vol of first endpoint |
---|
208 | jj_p1_refno = C->dadlink->p2_refno; |
---|
209 | Part * p1 = getPart(jj_p1_refno); |
---|
210 | p1->mass += 1.0; |
---|
211 | // p1->volume += 1.0/C->P.mass; |
---|
212 | } |
---|
213 | // new part object for lastend |
---|
214 | sprintf(tmpLine, "p:m=1,fr=%g,ing=%g,as=%g", |
---|
215 | //C->lastend.x, C->lastend.y, C->lastend.z |
---|
216 | /*"vol=" 1.0/C->P.mass,*/ C->P.friction, C->P.ingest, C->P.assim |
---|
217 | ); |
---|
218 | partidx = singleStepBuild(tmpLine, &range ); |
---|
219 | if (partidx < 0) return -2; |
---|
220 | C->p2_refno = partidx; |
---|
221 | |
---|
222 | // new joint object |
---|
223 | // check that the part references are valid |
---|
224 | int jj_p2_refno = C->p2_refno; |
---|
225 | if ((jj_p1_refno < 0) || (jj_p1_refno >= getPartCount())) return -11; |
---|
226 | if ((jj_p2_refno < 0) || (jj_p2_refno >= getPartCount())) return -12; |
---|
227 | sprintf(tmpLine, "j:p1=%ld,p2=%ld,dx=%g,dy=0,dz=0,rx=%g,ry=0,rz=%g"\ |
---|
228 | ",stam=%g", |
---|
229 | jj_p1_refno, jj_p2_refno, |
---|
230 | // relative position -- always (len, 0, 0), along the stick |
---|
231 | // this is optional! |
---|
232 | C->P.len, |
---|
233 | // relative rotation |
---|
234 | C->xrot, C->zrot, |
---|
235 | //C->P.ruch, // rotstif |
---|
236 | C->P.odpor |
---|
237 | ); |
---|
238 | partidx = singleStepBuild(tmpLine, &range ); |
---|
239 | if (partidx < 0) return -13; |
---|
240 | C->joint_refno = partidx; |
---|
241 | } |
---|
242 | |
---|
243 | if (C->type == T_NEURON4) ///<this case was updated by MacKo |
---|
244 | { |
---|
245 | // new neuron object |
---|
246 | // it is linked to a part (not a joint!) |
---|
247 | int p_refno = C->dadlink->p2_refno; |
---|
248 | if ((p_refno < 0) || (p_refno >= getPartCount())) return -21; |
---|
249 | // joint_refno is currently not used |
---|
250 | sprintf(tmpLine, "n:p=%ld,d=\"N:in=%g,fo=%g,si=%g\"", |
---|
251 | p_refno, |
---|
252 | C->inertia, C->force, C->sigmo); |
---|
253 | partidx = singleStepBuild(tmpLine, &range ); |
---|
254 | if (partidx < 0) return -22; |
---|
255 | C->neuro_refno = partidx; |
---|
256 | int n_refno = C->neuro_refno; |
---|
257 | |
---|
258 | if (C->ctrl) |
---|
259 | { |
---|
260 | if (1 == C->ctrl) |
---|
261 | sprintf(tmpLine, "n:j=%d,d=\"@:p=%g\"", C->dadlink->joint_refno, C->P.ruch); |
---|
262 | else |
---|
263 | sprintf(tmpLine, "n:j=%d,d=\"|:p=%g,r=%g\"",C->dadlink->joint_refno, C->P.ruch, C->mz); |
---|
264 | partidx = singleStepBuild(tmpLine, &range ); |
---|
265 | if (partidx < 0) return -32; |
---|
266 | sprintf(tmpLine, "c:%d,%d",partidx,n_refno); |
---|
267 | if (singleStepBuild(tmpLine, &range )<0) return -33; |
---|
268 | } |
---|
269 | |
---|
270 | for (j=0; j<C->nolink; j++) |
---|
271 | { |
---|
272 | if (NULL != C->links[j]->from) |
---|
273 | buildModelRec(C->links[j]->from); |
---|
274 | |
---|
275 | tmpLine[0]=0; |
---|
276 | if (1 == C->links[j]->t) sprintf(tmpLine, "n:p=%d,d=\"*\"",p_refno); |
---|
277 | if (2 == C->links[j]->t) sprintf(tmpLine, "n:j=%d,d=\"G\"", C->dadlink->joint_refno); |
---|
278 | if (3 == C->links[j]->t) sprintf(tmpLine, "n:p=%d,d=\"T\"",p_refno); |
---|
279 | if (4 == C->links[j]->t) sprintf(tmpLine, "n:p=%d,d=\"S\"",p_refno); |
---|
280 | int from=-1; |
---|
281 | if (tmpLine[0]) //input from receptor |
---|
282 | { |
---|
283 | from=singleStepBuild(tmpLine, &range ); |
---|
284 | if (from<0) return -34; |
---|
285 | } /*could be 'else'...*/ |
---|
286 | if (NULL != C->links[j]->from) // input from another neuron |
---|
287 | from=C->links[j]->from->neuro_refno; |
---|
288 | if (from>=0) |
---|
289 | { |
---|
290 | sprintf(tmpLine, "c:%d,%d,%g", n_refno,from,C->links[j]->w); |
---|
291 | if (singleStepBuild(tmpLine, &range ) < 0) return -35; |
---|
292 | } |
---|
293 | } |
---|
294 | } |
---|
295 | return 0; |
---|
296 | } |
---|
297 | |
---|
298 | |
---|
299 | void f4_Model::toF1Geno(SString &out) |
---|
300 | { |
---|
301 | cells->toF1Geno(out); |
---|
302 | } |
---|
303 | |
---|
304 | |
---|