Commit | Line | Data |
---|---|---|
1d014a86 BA |
1 | library(morpheus) |
2 | ||
86f257f8 | 3 | testMultistart <- function(N, n, p, beta, b, link, nstart, ncores) |
0ad4c8de | 4 | { |
778a955e | 5 | res <- multiRun( |
86f257f8 | 6 | list(n=n, p=p, beta=beta, b=b, link=link, nstart=nstart), |
0ad4c8de BA |
7 | list( |
8 | function(fargs) { | |
9 | # 1 start | |
10 | library(morpheus) | |
86f257f8 | 11 | K <- ncol(fargs$beta) |
147b2ef3 | 12 | mu <- computeMu(fargs$X, fargs$Y, list(K=K, M=fargs$M)) |
5af71d43 | 13 | op <- optimParams(fargs$X, fargs$Y, K, fargs$link, fargs$M, 1) |
7e8d970e | 14 | x_init <- list(p=rep(1/K,K-1), beta=mu, b=rep(0,K)) |
778a955e | 15 | res2 <- NULL |
0ad4c8de | 16 | tryCatch({ |
778a955e | 17 | res2 <- do.call(rbind, op$run(x_init)) |
01bd5c5b | 18 | }, error = function(e) {}) |
778a955e | 19 | res2 |
0ad4c8de BA |
20 | }, |
21 | function(fargs) { | |
22 | # B starts | |
23 | library(morpheus) | |
86f257f8 BA |
24 | K <- ncol(fargs$beta) |
25 | d <- nrow(fargs$beta) | |
26 | op <- optimParams(fargs$X, fargs$Y, K, fargs$link, fargs$M) | |
0ad4c8de BA |
27 | best_val <- Inf |
28 | best_par <- list() | |
86f257f8 | 29 | for (i in 1:fargs$nstart) |
0ad4c8de BA |
30 | { |
31 | #x_init <- list(p=rep(1/K,K-1), beta=i*fargs$mu, b=rep(0,K)) | |
32 | M <- matrix(rnorm(d*K), nrow=d, ncol=K) | |
33 | M <- t(t(M) / sqrt(colSums(M^2))) | |
34 | x_init <- list(p=rep(1/K,K-1), beta=M, b=rep(0,K)) | |
01bd5c5b BA |
35 | par <- NULL |
36 | tryCatch({ | |
0ad4c8de | 37 | par <- op$run(x_init) |
01bd5c5b BA |
38 | }, error = function(e) {}) |
39 | if (!is.null(par)) | |
0ad4c8de BA |
40 | { |
41 | val <- op$f( op$linArgs(par) ) | |
42 | if (val < best_val) | |
43 | { | |
44 | best_par <- par | |
45 | best_val <- val | |
46 | } | |
47 | } | |
48 | } | |
0e0fa9ff | 49 | do.call(rbind,best_par) #return NULL on empty list |
0ad4c8de BA |
50 | } |
51 | ), | |
52 | prepareArgs = function(fargs, index) { | |
53 | library(morpheus) | |
86f257f8 BA |
54 | io = generateSampleIO(fargs$n, fargs$p, fargs$beta, fargs$b, fargs$link) |
55 | fargs$M <- computeMoments(io$X, io$Y) | |
86f257f8 BA |
56 | fargs$X <- io$X |
57 | fargs$Y <- io$Y | |
01bd5c5b | 58 | fargs |
0ad4c8de | 59 | }, N=N, ncores=ncores, verbose=TRUE) |
0e0fa9ff BA |
60 | p <- c(p, 1-sum(p)) |
61 | for (i in 1:length(res)) { | |
62 | for (j in N:1) { | |
63 | if (is.null(res[[i]][[j]]) || is.na(res[[i]][[j]])) | |
64 | res[[i]][[j]] <- NULL | |
65 | } | |
66 | print(paste("Count valid runs for ",i," = ",length(res[[i]]),sep="")) | |
e134ce3c | 67 | res[[i]] <- alignMatrices(res[[i]], ref=rbind(p,beta,b), ls_mode="exact") |
0e0fa9ff | 68 | } |
778a955e | 69 | res |
0ad4c8de BA |
70 | } |
71 | ||
1d014a86 BA |
72 | # Default values: |
73 | link = "logit" | |
0ad4c8de | 74 | N <- 10 |
1d014a86 BA |
75 | n <- 1e4 |
76 | ncores <- 1 | |
77 | nstart <- 3 #nstart-1 random starting points for each MC run | |
78 | ||
79 | cmd_args <- commandArgs() | |
80 | for (arg in cmd_args) | |
81 | { | |
82 | if (substr(arg,1,1)!='-') | |
83 | { | |
84 | spl <- strsplit(arg,'=')[[1]] | |
85 | if (spl[1] == "nc") { | |
86 | ncores <- as.integer(spl[2]) | |
87 | } else if (spl[1] == "N") { | |
88 | N <- as.integer(spl[2]) | |
89 | } else if (spl[1] == "n") { | |
90 | n <- as.integer(spl[2]) | |
91 | } else if (spl[1] == "d") { | |
92 | d <- as.integer(spl[2]) | |
93 | } else if (spl[1] == "link") { | |
94 | link <- spl[2] | |
95 | } else if (spl[1] == "nstart") { | |
96 | nstart <- spl[2] | |
97 | } | |
98 | } | |
99 | } | |
1d014a86 | 100 | |
86f257f8 BA |
101 | if (d == 2) { |
102 | p <- .5 | |
103 | b <- c(-.2, .5) | |
104 | beta <- matrix( c(1,-2, 3,1), ncol=2 ) | |
105 | } else if (d == 5) { | |
106 | p <- .5 | |
107 | b <- c(-.2, .5) | |
108 | beta <- matrix( c(1,2,-1,0,3, 2,-3,0,1,0), ncol=2 ) | |
109 | } else if (d == 10) { | |
110 | p <- c(.3, .3) | |
111 | b <- c(-.2, 0, .5) | |
112 | beta <- matrix( c(1,2,-1,0,3,4,-1,-3,0,2, 2,-3,0,1,0,-1,-4,3,2,0, -1,1,3,-1,0,0,2,0,1,-2), ncol=3 ) | |
113 | } | |
114 | ||
115 | mr <- testMultistart(N, n, p, beta, b, link, nstart, ncores) | |
116 | mr_params <- list("N"=N, "nc"=ncores, "n"=n, "link"=link, | |
0ad4c8de | 117 | "p"=c(p,1-sum(p)), "beta"=beta, "b"=b, "nstart"=nstart) |
1d014a86 | 118 | |
778a955e | 119 | save("mr", "mr_params", file=paste("res_",n,"_",d,"_",link,"_",nstart,".RData",sep="")) |