forked from richardposner/BioNetFit2
-
Notifications
You must be signed in to change notification settings - Fork 0
/
todo.txt
110 lines (49 loc) · 1.78 KB
/
todo.txt
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
Merge the fits from each subparticle
Setting.hh and GenFit2.hh
uncoment Ver2 to go to previous version
add comments for each change I make
the -h option changed totally
GenFit2.hh
mid (model id) (01010101)
subparid (12345678)
Utils.hh convert the numbers of the particles
doswarm (swarm size is now the number subparticles)
nSubPar variables
runSSA needs implamation (but not highest priority)
use the
runSGA()
Swarm.hh -> set exp path, get exp (file name)
update_cur_particle_part (make sure the particles are finished when subparticles from that one is finished)
model now is a vector (pointer before)
consolidate models, remove the reduntant free parameters, generates vector of strings of al free parameters, its a vector of map objects
runGeneration
check resources available, launches subparticles, until all of the subparticles are finished
Setting.hh STANDALONE_PARTICLE.... uncoment, if you want debug test info
Swarm.cpp
keep TEST_SIMULATOR active
work with subpartcle ids
change simulator -> just go to the config file
checkMasterMessage() in Swarm.cpp
review the subparticles, we need to work only with subpar now.
sconfig files, has the model information
[1:1-0]
subparticle:pardicle-model
running particles multiple times and taking averages
runningSubParticleIteration -> smooth fit
The output shows
m2 k2 k3
m1 k1 k3
global Fit k1 k2 l3
the parameters are not aligned, align them to the global list (with all free parameters)
subparticleCurrParamSets stores
it is implemented for the GA
implement for all the others
finish fit
killAllParticles change to subparticles
fitCalc for one subparticle
outputs result for one subparticle
define fir_weights=1,2
one weight per model
Add fit model 1, fit model 2, fit all
take a look
bngl to xml?